Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A1 F1 I2 R1 882 254.4 12957588 98.0% 12698436 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,851,179 T→C intergenic (‑564/‑364) ivbL ← / → emrD ilvB operon leader peptide/2‑module integral membrane pump

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,851,1790TC99.6% 982.7 / ‑4.7 280intergenic (‑564/‑364)ivbL/emrDilvB operon leader peptide/2‑module integral membrane pump
Reads supporting (aligned to +/- strand):  ref base T (1/0);  new base C (132/147);  total (133/147)
Fisher's exact test for biased strand distribution p-value = 4.75e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.90e-01

Only 100 of 286 total aligned reads displayed.

TTCTCCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGTATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAAGTA  >  NC_000913/3851089‑3851268
                                                                                          |                                                                                         
ttCTCCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCAt                                                                                         <  1:1079865/93‑1 (MQ=255)
 tctcCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATg                                                                                        >  2:298392/1‑93 (MQ=255)
 tctcCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATg                                                                                        >  2:258083/1‑93 (MQ=255)
   tcCTTGAGATCCCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGaa                                                                                      <  1:1006801/93‑1 (MQ=255)
   tcCTTGAGATACCGCGTGCGCAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGaa                                                                                      <  2:1999027/93‑1 (MQ=255)
   tcCTTGAGATACCGCGTGCACAAAAGCTGGCAACAGGCAGCGGAAAGGGACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGaa                                                                                      >  2:4286398/1‑93 (MQ=255)
    ccTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAAc                                                                                     >  1:2873585/1‑93 (MQ=255)
     cTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGCAcc                                                                                    >  1:884406/1‑93 (MQ=255)
     cTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAAcc                                                                                    >  2:4820629/1‑93 (MQ=255)
     cTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAAcc                                                                                    <  1:4199015/93‑1 (MQ=255)
      ttGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCt                                                                                   >  1:2064567/1‑93 (MQ=255)
        gagaTACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCtgg                                                                                 <  2:4162457/93‑1 (MQ=255)
          gaTACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCtggtg                                                                               >  1:1308534/1‑93 (MQ=255)
           aTACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCtggtgg                                                                              >  2:167013/1‑93 (MQ=255)
            tACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGa                                                                             <  2:1718547/93‑1 (MQ=255)
             aCCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGat                                                                            <  2:1097062/93‑1 (MQ=255)
             aCCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGat                                                                            >  1:6105640/1‑93 (MQ=255)
             aCCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGat                                                                            >  1:5163459/1‑93 (MQ=255)
              ccGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGata                                                                           <  1:1535944/93‑1 (MQ=255)
               cgcgTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGatat                                                                          <  2:3563652/93‑1 (MQ=255)
                gcgTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATc                                                                         <  2:149801/93‑1 (MQ=255)
                gcgTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATc                                                                         >  2:4505561/1‑93 (MQ=255)
                 cgTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCg                                                                        >  1:4084877/1‑93 (MQ=255)
                  gTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGc                                                                       <  2:3612724/93‑1 (MQ=255)
                   tGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGcc                                                                      <  2:5472520/93‑1 (MQ=255)
                   tGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGcc                                                                      >  1:3753042/1‑93 (MQ=255)
                   tGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGcc                                                                      <  1:2653113/93‑1 (MQ=255)
                    gCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCa                                                                     <  1:486458/93‑1 (MQ=255)
                     cacaACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCAt                                                                    <  2:517865/93‑1 (MQ=255)
                     cacaACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCAt                                                                    <  2:5288329/93‑1 (MQ=255)
                       caacaGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTc                                                                  >  1:1713612/1‑93 (MQ=255)
                       caacaGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTc                                                                  <  2:405570/93‑1 (MQ=255)
                        aacaGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCt                                                                 >  2:6199533/1‑93 (MQ=255)
                        aacaGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCt                                                                 >  1:5599927/1‑93 (MQ=255)
                        aacaGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCt                                                                 >  2:3283829/1‑93 (MQ=255)
                        aacaGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCt                                                                 >  1:3117676/1‑93 (MQ=255)
                            gCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATc                                                             <  1:448536/93‑1 (MQ=255)
                             cTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATcc                                                            >  1:2827521/1‑93 (MQ=255)
                              tGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCt                                                           >  2:694127/1‑93 (MQ=255)
                               ggCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTc                                                          >  1:3562718/1‑93 (MQ=255)
                                gCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCa                                                         <  1:4175887/93‑1 (MQ=255)
                                gCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCa                                                         <  1:1463617/93‑1 (MQ=255)
                                 cAACAGTCAGCGGAAAGGTACGTCAGCTGGTAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCaa                                                        <  1:21701/93‑1 (MQ=255)
                                  aaCAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCaaa                                                       >  2:174989/1‑93 (MQ=255)
                                  aaCAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCaaa                                                       <  2:5949919/93‑1 (MQ=255)
                                    cAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACt                                                     <  1:3052478/93‑1 (MQ=255)
                                      ggCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCa                                                   >  2:2764270/1‑93 (MQ=255)
                                      ggCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCa                                                   >  1:6191314/1‑93 (MQ=255)
                                      ggCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCa                                                   <  1:3601301/93‑1 (MQ=255)
                                        cAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCAtt                                                 <  1:1240270/93‑1 (MQ=255)
                                           cGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCAttgtt                                              <  1:2556048/93‑1 (MQ=255)
                                            ggAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCAttgttg                                             <  2:2303974/93‑1 (MQ=255)
                                            ggAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCAttgttg                                             >  1:5677579/1‑93 (MQ=255)
                                              aaaGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTgca                                           <  2:1839905/93‑1 (MQ=255)
                                               aaGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTgcag                                          >  2:2074351/1‑93 (MQ=255)
                                               aaGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTgcag                                          >  1:5377191/1‑93 (MQ=255)
                                                aGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTgcagc                                         >  1:6296187/1‑93 (MQ=255)
                                                 ggTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTgcagca                                        <  1:6427910/93‑1 (MQ=255)
                                                 ggTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTgcagca                                        >  2:3742217/1‑93 (MQ=255)
                                                  gTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCAc                                       <  1:788092/93‑1 (MQ=255)
                                                  gTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGCTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCAc                                       <  1:4543213/93‑1 (MQ=255)
                                                  gTACGGCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCAc                                       <  2:1246078/93‑1 (MQ=255)
                                                   tACGTCAGCTGTCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACt                                      <  2:3675802/93‑1 (MQ=255)
                                                   tACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACt                                      >  2:3328802/1‑93 (MQ=255)
                                                    aCGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTg                                     <  1:3398242/93‑1 (MQ=255)
                                                      gTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCa                                   >  1:1568620/1‑93 (MQ=255)
                                                       tCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCaa                                  >  2:4622031/1‑93 (MQ=255)
                                                       tCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCaa                                  >  1:3834853/1‑93 (MQ=255)
                                                        cAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAAc                                 <  2:5510755/93‑1 (MQ=255)
                                                        cAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAAc                                 <  1:5036891/93‑1 (MQ=255)
                                                        cAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAAc                                 <  1:4674075/93‑1 (MQ=255)
                                                         aGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACt                                >  2:840752/1‑93 (MQ=255)
                                                            tGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCt                             >  1:4343171/1‑93 (MQ=255)
                                                              gCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTg                           >  1:1854241/1‑93 (MQ=255)
                                                              gCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTg                           >  1:3715687/1‑93 (MQ=255)
                                                              gCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTg                           <  2:2364437/93‑1 (MQ=255)
                                                               cAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGa                          <  1:3304621/93‑1 (MQ=255)
                                                               cAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGa                          <  1:808385/93‑1 (MQ=255)
                                                               cAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGa                          <  2:4412848/93‑1 (MQ=255)
                                                                 gTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATg                        <  2:2908276/93‑1 (MQ=255)
                                                                 gTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATg                        <  1:3653303/93‑1 (MQ=255)
                                                                  tGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGc                       <  2:632173/93‑1 (MQ=255)
                                                                   gCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCt                      >  1:323289/1‑93 (MQ=255)
                                                                     tCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGt                    <  2:5623120/93‑1 (MQ=255)
                                                                     tCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGt                    >  2:5703917/1‑93 (MQ=255)
                                                                     tCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGt                    >  2:3470593/1‑93 (MQ=255)
                                                                      ccTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGtt                   >  1:229109/1‑93 (MQ=255)
                                                                       ctaaaCCACAGGAGACGCGCAGGAGCCTGTTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTc                  <  1:5837263/90‑1 (MQ=255)
                                                                            ccACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGaaa             <  2:2149084/93‑1 (MQ=255)
                                                                             cacaGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAAt            >  1:1760749/1‑93 (MQ=255)
                                                                              acaGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATa           <  2:3147127/93‑1 (MQ=255)
                                                                               caGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATAc          >  2:5791485/1‑93 (MQ=255)
                                                                                aGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATAcc         <  1:2626446/93‑1 (MQ=255)
                                                                                aGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATAcc         <  1:4572245/93‑1 (MQ=255)
                                                                                 ggAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCt        <  1:712472/93‑1 (MQ=255)
                                                                                  gagaCGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTg       <  2:1897183/93‑1 (MQ=255)
                                                                                     aCGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAAg    <  2:4859630/93‑1 (MQ=255)
                                                                                       gcgcATGAACCTGGTGGATATCGCCATTCTTATCCTCAATCTCATTGTTGCAGCAGTGCAACTGCTTGATGCTGTTCTGAAATACCTGAAGTa  <  2:2415198/93‑1 (MQ=255)
                                                                                       gcgcATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAAGTa  <  2:6076520/93‑1 (MQ=255)
                                                                                       gcgcATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAAGTa  >  1:4011441/1‑93 (MQ=255)
                                                                                          |                                                                                         
TTCTCCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGTATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAAGTA  >  NC_000913/3851089‑3851268

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CGTTTCTCCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGTATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAAGTAATTC  >  NC_000913/3851086‑3851272
                                                                                             |                                                                                             
CGTTTCTCCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGC                                                                                               >  SRR4302537.3432274/1‑94 (MQ=60)
CGTTTCTCCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGC                                                                                               >  SRR4302537.2376305/1‑94 (MQ=60)
 GTTTCTCCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCA                                                                                              >  SRR4302537.2152573/1‑94 (MQ=60)
  TTTCTCCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCAT                                                                                             <  SRR4302537.6406014/94‑1 (MQ=60)
  TTTCTCCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCAT                                                                                             <  SRR4302537.4838958/94‑1 (MQ=60)
   TTCTCCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATG                                                                                            >  SRR4302537.980248/1‑94 (MQ=60)
   TTCTCCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATG                                                                                            <  SRR4302537.1087320/94‑1 (MQ=60)
   TTCTCCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATG                                                                                            >  SRR4302537.2177858/1‑94 (MQ=60)
      TCCTTGAGATCCCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAAC                                                                                         <  SRR4302537.1013749/94‑1 (MQ=60)
      TCCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAAC                                                                                         <  SRR4302537.3752390/94‑1 (MQ=60)
      TCCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAAC                                                                                         >  SRR4302537.802368/1‑94 (MQ=60)
      TCCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAAC                                                                                         <  SRR4302537.5126332/94‑1 (MQ=60)
      TCCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAAC                                                                                         >  SRR4302537.2893753/1‑94 (MQ=60)
       CCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGCACC                                                                                        >  SRR4302537.890492/1‑94 (MQ=60)
       CCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACC                                                                                        >  SRR4302537.2571080/1‑94 (MQ=60)
       CCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACC                                                                                        >  SRR4302537.1342870/1‑94 (MQ=60)
        CTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCT                                                                                       <  SRR4302537.4228335/94‑1 (MQ=60)
        CTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCT                                                                                       <  SRR4302537.3702562/94‑1 (MQ=60)
        CTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCT                                                                                       <  SRR4302537.5864406/94‑1 (MQ=60)
        CTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCT                                                                                       >  SRR4302537.2079063/1‑94 (MQ=60)
         TTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTG                                                                                      <  SRR4302537.6282339/94‑1 (MQ=60)
           GAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGT                                                                                    <  SRR4302537.1547392/94‑1 (MQ=60)
            AGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTG                                                                                   >  SRR4302537.3745792/1‑94 (MQ=60)
            AGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTG                                                                                   <  SRR4302537.4892063/94‑1 (MQ=60)
            AGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTG                                                                                   >  SRR4302537.1317642/1‑94 (MQ=60)
            AGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTG                                                                                   <  SRR4302537.1979962/94‑1 (MQ=60)
             GATACCGCGTGCACAACAGCCGGCAACAGGCAGAGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGG                                                                                  <  SRR4302537.4219139/94‑1 (MQ=60)
              ATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGA                                                                                 <  SRR4302537.4217889/94‑1 (MQ=60)
               TACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGAT                                                                                >  SRR4302537.5199044/1‑94 (MQ=60)
               TACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGAT                                                                                >  SRR4302537.6147587/1‑94 (MQ=60)
                ACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATA                                                                               <  SRR4302537.2304216/94‑1 (MQ=60)
                ACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATA                                                                               <  SRR4302537.4166693/94‑1 (MQ=60)
                 CCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATAT                                                                              <  SRR4302537.1546672/94‑1 (MQ=60)
                   GCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCG                                                                            >  SRR4302537.4113396/1‑94 (MQ=60)
                   GCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCG                                                                            >  SRR4302537.5215976/1‑94 (MQ=60)
                   GCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCG                                                                            >  SRR4302537.3411760/1‑94 (MQ=60)
                    CGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGC                                                                           >  SRR4302537.6310492/1‑94 (MQ=60)
                     GTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCC                                                                          >  SRR4302537.3779400/1‑94 (MQ=60)
                      TGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCA                                                                         <  SRR4302537.2671666/94‑1 (MQ=60)
                       GCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCAT                                                                        <  SRR4302537.489798/94‑1 (MQ=60)
                       GCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCAT                                                                        >  SRR4302537.616680/1‑94 (MQ=60)
                         ACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTC                                                                      >  SRR4302537.475709/1‑94 (MQ=60)
                         ACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTC                                                                      >  SRR4302537.1725575/1‑94 (MQ=60)
                          CAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCT                                                                     >  SRR4302537.5638209/1‑94 (MQ=60)
                          CAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCT                                                                     >  SRR4302537.3139454/1‑94 (MQ=60)
                            ACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTA                                                                   <  SRR4302537.4294144/94‑1 (MQ=60)
                            ACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTA                                                                   >  SRR4302537.6114233/1‑94 (MQ=60)
                             CAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTAT                                                                  >  SRR4302537.344729/1‑94 (MQ=60)
                              AGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATC                                                                 <  SRR4302537.5837524/94‑1 (MQ=60)
                               GCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCC                                                                >  SRR4302537.2847281/1‑94 (MQ=60)
                               GCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCC                                                                <  SRR4302537.451645/94‑1 (MQ=60)
                                CTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCC                                                               >  SRR4302537.745452/1‑94 (MQ=60)
                                 TGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTC                                                              >  SRR4302537.3587847/1‑94 (MQ=60)
                                 TGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTC                                                              >  SRR4302537.4601692/1‑94 (MQ=60)
                                  GGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCA                                                             <  SRR4302537.2824903/94‑1 (MQ=60)
                                  GGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCA                                                             <  SRR4302537.2645719/94‑1 (MQ=60)
                                  GGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCA                                                             >  SRR4302537.2510182/1‑94 (MQ=60)
                                   GCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAA                                                            >  SRR4302537.1645380/1‑94 (MQ=60)
                                   GCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAA                                                            <  SRR4302537.2208961/94‑1 (MQ=60)
                                   GCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAA                                                            <  SRR4302537.4205041/94‑1 (MQ=60)
                                   GCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAA                                                            <  SRR4302537.1473801/94‑1 (MQ=60)
                                    CAACAGTCAGCGGAAAGGTACGTCAGCTGGTAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAA                                                           <  SRR4302537.21867/94‑1 (MQ=60)
                                    CAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAA                                                           <  SRR4302537.679632/94‑1 (MQ=60)
                                    CAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAA                                                           >  SRR4302537.4516777/1‑94 (MQ=60)
                                     AACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAAC                                                          >  SRR4302537.1573802/1‑94 (MQ=60)
                                     AACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAAC                                                          <  SRR4302537.1664017/94‑1 (MQ=60)
                                     AACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAAC                                                          <  SRR4302537.365738/94‑1 (MQ=60)
                                      ACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACT                                                         <  SRR4302537.2980079/94‑1 (MQ=60)
                                      ACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACT                                                         <  SRR4302537.2975225/94‑1 (MQ=60)
                                      ACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACT                                                         <  SRR4302537.1752114/94‑1 (MQ=60)
                                       CAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTC                                                        <  SRR4302537.3073751/94‑1 (MQ=60)
                                       CAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTC                                                        >  SRR4302537.1786013/1‑94 (MQ=60)
                                       CAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTC                                                        >  SRR4302537.4132039/1‑94 (MQ=60)
                                        AGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCA                                                       >  SRR4302537.6233968/1‑94 (MQ=60)
                                         GGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCAT                                                      <  SRR4302537.842498/94‑1 (MQ=60)
                                         GGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCAT                                                      <  SRR4302537.3626684/94‑1 (MQ=60)
                                           CAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTG                                                    <  SRR4302537.5087163/94‑1 (MQ=60)
                                           CAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTG                                                    <  SRR4302537.1248892/94‑1 (MQ=60)
                                            AGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTTATTGT                                                   >  SRR4302537.4100961/1‑94 (MQ=60)
                                            AGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGT                                                   >  SRR4302537.5263724/1‑94 (MQ=60)
                                              CGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTG                                                 >  SRR4302537.5716425/1‑94 (MQ=60)
                                              CGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTG                                                 <  SRR4302537.2573966/94‑1 (MQ=60)
                                                 AAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAG                                              >  SRR4302537.5413977/1‑94 (MQ=60)
                                                 AAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAG                                              >  SRR4302537.2855226/1‑94 (MQ=60)
                                                  AAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGC                                             >  SRR4302537.3689321/1‑94 (MQ=60)
                                                  AAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGC                                             >  SRR4302537.1544044/1‑94 (MQ=60)
                                                  AAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGC                                             >  SRR4302537.6339315/1‑94 (MQ=60)
                                                    GGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCAC                                           >  SRR4302537.3859435/1‑94 (MQ=60)
                                                    GGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCAC                                           <  SRR4302537.6471587/94‑1 (MQ=60)
                                                     GTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACT                                          <  SRR4302537.793501/94‑1 (MQ=60)
                                                     GTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACT                                          >  SRR4302537.1026520/1‑94 (MQ=60)
                                                     GTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGCTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACT                                          <  SRR4302537.4574658/94‑1 (MQ=60)
                                                      TACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTG                                         <  SRR4302537.730523/94‑1 (MQ=60)
                                                       ACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGC                                        <  SRR4302537.3606078/94‑1 (MQ=60)
                                                       ACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGC                                        <  SRR4302537.3422314/94‑1 (MQ=60)
                                                        CGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCA                                       >  SRR4302537.1579565/1‑94 (MQ=60)
                                                        CGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCA                                       >  SRR4302537.1302210/1‑94 (MQ=60)
                                                         GTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAA                                      >  SRR4302537.3861729/1‑94 (MQ=60)
                                                         GTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAA                                      <  SRR4302537.3297983/94‑1 (MQ=60)
                                                         GTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAA                                      >  SRR4302537.5938658/1‑94 (MQ=60)
                                                           CAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACT                                    <  SRR4302537.5071565/94‑1 (MQ=60)
                                                           CAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACT                                    <  SRR4302537.4706409/94‑1 (MQ=60)
                                                            AGCTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTG                                   <  SRR4302537.4558538/94‑1 (MQ=60)
                                                              CTGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCT                                 >  SRR4302537.4373291/1‑94 (MQ=60)
                                                               TGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTT                                >  SRR4302537.1440269/1‑94 (MQ=60)
                                                               TGGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTT                                <  SRR4302537.2835374/94‑1 (MQ=60)
                                                                GGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTG                               >  SRR4302537.1867135/1‑94 (MQ=60)
                                                                GGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTG                               <  SRR4302537.3145244/94‑1 (MQ=60)
                                                                GGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTG                               >  SRR4302537.3741803/1‑94 (MQ=60)
                                                                GGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTG                               >  SRR4302537.3591706/1‑94 (MQ=60)
                                                                GGCAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTG                               <  SRR4302537.2622961/94‑1 (MQ=60)
                                                                  CAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGAT                             <  SRR4302537.3327985/94‑1 (MQ=60)
                                                                  CAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGAT                             <  SRR4302537.813932/94‑1 (MQ=60)
                                                                  CAGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGAT                             <  SRR4302537.813933/94‑1 (MQ=60)
                                                                   AGTGCTCCTGAACCACAGGAGACGCGTATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATG                            >  SRR4302537.3278865/1‑94 (MQ=60)
                                                                   AGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATG                            <  SRR4302537.5005355/94‑1 (MQ=60)
                                                                   AGTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATG                            >  SRR4302537.1127834/1‑94 (MQ=60)
                                                                    GTGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGC                           <  SRR4302537.3679014/94‑1 (MQ=60)
                                                                     TGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCT                          >  SRR4302537.325531/1‑94 (MQ=60)
                                                                     TGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCT                          >  SRR4302537.5666425/1‑94 (MQ=60)
                                                                     TGCTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCT                          <  SRR4302537.6230904/94‑1 (MQ=60)
                                                                       CTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGT                        >  SRR4302537.3116777/1‑94 (MQ=60)
                                                                       CTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGT                        >  SRR4302537.3074409/1‑94 (MQ=60)
                                                                       CTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGT                        >  SRR4302537.6475601/1‑94 (MQ=60)
                                                                       CTCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGT                        <  SRR4302537.4059911/94‑1 (MQ=60)
                                                                        TCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTT                       >  SRR4302537.4677493/1‑94 (MQ=60)
                                                                        TCCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTT                       >  SRR4302537.230730/1‑94 (MQ=60)
                                                                         CCTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTC                      >  SRR4302537.4299135/1‑94 (MQ=60)
                                                                          CTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCCAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCT                     <  SRR4302537.4698868/94‑1 (MQ=60)
                                                                          CTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCT                     >  SRR4302537.3911003/1‑94 (MQ=60)
                                                                          CTGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCT                     <  SRR4302537.5414052/94‑1 (MQ=60)
                                                                          CTAAACCACAGGAGACGCGCAGGAGCCTGTTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCT                     <  SRR4302537.5877271/94‑1 (MQ=60)
                                                                           TGAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGCTCTG                    >  SRR4302537.4509203/1‑94 (MQ=60)
                                                                            GAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGA                   >  SRR4302537.3474752/1‑94 (MQ=60)
                                                                            GAACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGA                   <  SRR4302537.1862841/94‑1 (MQ=60)
                                                                             AACCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAA                  >  SRR4302537.4512546/1‑94 (MQ=60)
                                                                               CCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAAT                <  SRR4302537.1279072/94‑1 (MQ=60)
                                                                               CCACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAAT                >  SRR4302537.1773021/1‑94 (MQ=60)
                                                                                CACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATA               >  SRR4302537.5603971/1‑94 (MQ=60)
                                                                                 ACAGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATAC              >  SRR4302537.2855263/1‑94 (MQ=60)
                                                                                   AGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCT            <  SRR4302537.6350742/94‑1 (MQ=60)
                                                                                   AGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCT            <  SRR4302537.2644846/94‑1 (MQ=60)
                                                                                   AGGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCT            <  SRR4302537.4603896/94‑1 (MQ=60)
                                                                                    GGAGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTG           <  SRR4302537.717349/94‑1 (MQ=60)
                                                                                      AGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAA         >  SRR4302537.2577479/1‑94 (MQ=60)
                                                                                      AGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAA         >  SRR4302537.3811827/1‑94 (MQ=60)
                                                                                      AGACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAA         >  SRR4302537.3177753/1‑94 (MQ=60)
                                                                                       GACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAAG        <  SRR4302537.2131461/94‑1 (MQ=60)
                                                                                       GACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAAG        >  SRR4302537.1475493/1‑94 (MQ=60)
                                                                                       GACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAAG        <  SRR4302537.6408955/94‑1 (MQ=60)
                                                                                       GACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTCCTGAAATACCTGAAG        <  SRR4302537.1156793/94‑1 (MQ=60)
                                                                                        ACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAAGT       >  SRR4302537.4907774/1‑94 (MQ=60)
                                                                                        ACGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAAGA       >  SRR4302537.3627980/1‑94 (MQ=60)
                                                                                         CGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAAGTA      <  SRR4302537.2022876/94‑1 (MQ=60)
                                                                                         CGCGCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAAGTA      >  SRR4302537.4039534/1‑94 (MQ=60)
                                                                                            GCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAAGTAATT   <  SRR4302537.4152299/94‑1 (MQ=60)
                                                                                            GCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAAGTAATT   >  SRR4302537.639582/1‑94 (MQ=60)
                                                                                            GCATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAAGTAATT   >  SRR4302537.5959155/1‑94 (MQ=60)
                                                                                             CATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAAGTAATTC  >  SRR4302537.800664/1‑94 (MQ=60)
                                                                                             |                                                                                             
CGTTTCTCCTTGAGATACCGCGTGCACAACAGCTGGCAACAGGCAGCGGAAAGGTACGTCAGCTGGCAGTGCTCCTGAACCACAGGAGACGCGTATGAACCTGGTGGATATCGCCATTCTTATCCTCAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTGAAGTAATTC  >  NC_000913/3851086‑3851272

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑