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 884 257.2 12958910 96.9% 12557183 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,854,389 G→A G116G (GGG→GGA)  yidI → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,854,3890GA99.2% 899.2 / ‑3.7 242G116G (GGG→GGA) yidIhypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (2/0);  new base A (91/148);  total (94/148)
Fisher's exact test for biased strand distribution p-value = 1.48e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.23e-01

Only 100 of 248 total aligned reads displayed.

GGCCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGGACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACCGGCG  >  NC_000913/3854299‑3854477
                                                                                          |                                                                                        
ggCCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAAc                                                                                        <  1:3957180/93‑1 (MQ=255)
ggCCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAAc                                                                                        <  2:417914/93‑1 (MQ=255)
ggCCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAAc                                                                                        <  2:3583892/93‑1 (MQ=255)
ggCCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAAc                                                                                        >  1:544217/1‑93 (MQ=255)
 gCCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACg                                                                                       >  1:2807967/1‑93 (MQ=255)
  ccATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGc                                                                                      <  2:4447612/93‑1 (MQ=255)
  ccATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGc                                                                                      <  2:5697880/93‑1 (MQ=255)
    aTTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGGACGCTg                                                                                    >  2:1541867/1‑93 (MQ=255)
      tgctgcGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGc                                                                                  <  1:119130/93‑1 (MQ=255)
      tgctgcGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGc                                                                                  <  1:682344/93‑1 (MQ=255)
       gctgcGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCt                                                                                 <  2:4239/93‑1 (MQ=255)
       gctgcGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCt                                                                                 <  1:2674639/93‑1 (MQ=255)
       gctgcGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCt                                                                                 <  2:2811346/93‑1 (MQ=255)
       gctgcGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCt                                                                                 >  1:5953302/1‑93 (MQ=255)
           cgcTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTcc                                                                             <  1:1265180/93‑1 (MQ=255)
            gcTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCa                                                                            >  2:3554485/1‑93 (MQ=255)
            gcTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCa                                                                            >  2:1750662/1‑93 (MQ=255)
              tACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGCACGCTGGCTTTCCATa                                                                          >  2:2508282/1‑93 (MQ=255)
               aCTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATAc                                                                         >  1:5718336/1‑93 (MQ=255)
               aCTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATAc                                                                         <  2:6393868/93‑1 (MQ=255)
                cTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATAcc                                                                        >  2:6337261/1‑93 (MQ=255)
                 tttGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCt                                                                       <  1:2915632/93‑1 (MQ=255)
                 tttGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCt                                                                       >  2:4639164/1‑93 (MQ=255)
                  ttGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCtt                                                                      <  1:6179178/93‑1 (MQ=255)
                    gcgcATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGc                                                                    <  1:6193327/93‑1 (MQ=255)
                      gcATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCtt                                                                  >  1:4989073/1‑93 (MQ=255)
                      gcATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCtt                                                                  <  2:1402906/93‑1 (MQ=255)
                      gcATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCtt                                                                  >  1:1471584/1‑93 (MQ=255)
                         tttATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCttttt                                                               <  2:5585039/93‑1 (MQ=255)
                         tttATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCttttt                                                               <  1:5626871/93‑1 (MQ=255)
                         attATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCttttt                                                               >  2:2384113/2‑93 (MQ=255)
                               ggCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATc                                                         <  2:1976482/93‑1 (MQ=255)
                               ggCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATc                                                         <  2:217284/93‑1 (MQ=255)
                               ggCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATc                                                         >  1:2718775/1‑93 (MQ=255)
                                  ggTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGc                                                      <  2:3189962/93‑1 (MQ=255)
                                  ggTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCCTTCCATACCTTGCTTTTTGGTATCGGc                                                      >  1:4841216/1‑93 (MQ=255)
                                   gTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCa                                                     <  1:3699081/93‑1 (MQ=255)
                                   gTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCa                                                     >  1:6408294/1‑93 (MQ=255)
                                   gTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCa                                                     <  2:4957598/93‑1 (MQ=255)
                                   gTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCa                                                     >  2:4685594/1‑93 (MQ=255)
                                    tATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCAt                                                    >  2:2977315/1‑93 (MQ=255)
                                    tATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCAt                                                    <  2:3967298/93‑1 (MQ=255)
                                     aTGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATc                                                   >  1:2077916/1‑93 (MQ=255)
                                       gCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATATCTTGCTTTTTGGTATCGGCATCgt                                                 >  1:4623142/1‑93 (MQ=255)
                                        cGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTCTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCgtg                                                <  1:3768527/93‑1 (MQ=255)
                                         gTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCgtgt                                               <  1:2312035/93‑1 (MQ=255)
                                          tAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGtgtg                                              >  1:2491790/1‑93 (MQ=255)
                                            aGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTgca                                            <  1:1141183/93‑1 (MQ=255)
                                            aGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTgca                                            >  1:2406199/1‑93 (MQ=255)
                                            aGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTgca                                            >  1:2246233/1‑93 (MQ=255)
                                            aGGAAAATCGCTGGGGCATTCGCGGCGCCCTGGTTTTTGGCGGCGGAACGCTGGCTTTTCATACCTTGCTTTTTGGTATCGGCATCGTGTgca                                            >  2:4477287/1‑93 (MQ=255)
                                              gAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTgcagc                                          <  1:1340320/93‑1 (MQ=255)
                                                  aTCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCAttt                                      >  1:879771/1‑93 (MQ=255)
                                                  aTCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCAttt                                      >  1:584291/1‑93 (MQ=255)
                                                   tCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCAtttt                                     >  2:5091005/1‑93 (MQ=255)
                                                    cGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTg                                    >  2:3038272/1‑93 (MQ=255)
                                                       tGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTg                                 >  2:5893962/1‑93 (MQ=255)
                                                       tGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTg                                 >  1:193607/1‑93 (MQ=255)
                                                        ggggCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGa                                <  2:5023864/93‑1 (MQ=255)
                                                        ggggCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGa                                <  1:910288/93‑1 (MQ=255)
                                                         gggCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGat                               >  1:4239984/1‑93 (MQ=255)
                                                          ggCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGata                              <  2:3819359/93‑1 (MQ=255)
                                                           gCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGatat                             >  2:1007315/1‑93 (MQ=255)
                                                               tCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCt                         <  1:5909878/93‑1 (MQ=255)
                                                                cgcgGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCtt                        <  1:3559451/93‑1 (MQ=255)
                                                                 gcggcgCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTa                       <  1:2635986/93‑1 (MQ=255)
                                                                 gcggcgCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTa                       >  2:5432981/1‑93 (MQ=255)
                                                                  cggcgCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTAt                      <  1:5239833/93‑1 (MQ=255)
                                                                   ggcgCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATc                     <  1:516338/93‑1 (MQ=255)
                                                                     cgcgcTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCtt                   <  1:5937103/93‑1 (MQ=255)
                                                                     cgcgcTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCtt                   <  1:3857074/93‑1 (MQ=255)
                                                                      gcgcTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCttt                  <  1:2003234/93‑1 (MQ=255)
                                                                      gcgcTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCttt                  <  1:5783527/93‑1 (MQ=255)
                                                                      gcgcTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCttt                  <  2:5160182/93‑1 (MQ=255)
                                                                      gcgcTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCttt                  <  2:664800/93‑1 (MQ=255)
                                                                      gcgcTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCttt                  <  2:4097741/93‑1 (MQ=255)
                                                                       cgcTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCtttt                 >  2:2594999/1‑93 (MQ=255)
                                                                         cTGGTTTTTGGCGGCGGGACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTttcc               >  1:3322931/1‑93 (MQ=255)
                                                                         cTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTttcc               <  1:1004159/93‑1 (MQ=255)
                                                                         cTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTttcc               <  2:6154095/93‑1 (MQ=255)
                                                                          tGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTttcct              <  2:1384476/93‑1 (MQ=255)
                                                                           ggTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTttcctt             <  1:4355083/93‑1 (MQ=255)
                                                                           ggTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTttcctt             >  2:2699437/1‑93 (MQ=255)
                                                                            gTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTttccttc            >  2:810504/1‑93 (MQ=255)
                                                                            gTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTttccttc            <  1:4523457/93‑1 (MQ=255)
                                                                            gTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTttccttc            >  1:5549198/1‑93 (MQ=255)
                                                                             tttttGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTttccttcc           <  2:3375987/93‑1 (MQ=255)
                                                                             tttttGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTttccttcc           <  2:6004996/93‑1 (MQ=255)
                                                                             tttttGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTttccttcc           <  1:1712347/93‑1 (MQ=255)
                                                                              ttttGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTtccttcct          <  2:4835780/93‑1 (MQ=255)
                                                                              ttttGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTtccttcct          <  1:1576927/93‑1 (MQ=255)
                                                                                 tGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGAc       <  1:2995901/93‑1 (MQ=255)
                                                                                 tGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGAc       <  1:3272566/93‑1 (MQ=255)
                                                                                  ggcggcGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGAcc      >  2:4818752/1‑93 (MQ=255)
                                                                                   gcggcgGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACcg     >  1:5611534/1‑93 (MQ=255)
                                                                                    cggcggAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACcgg    <  1:905039/93‑1 (MQ=255)
                                                                                     ggcggAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACcggc   <  2:2136623/93‑1 (MQ=255)
                                                                                     ggcggAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACcggc   >  2:1173138/1‑93 (MQ=255)
                                                                                      gcggAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACcggcg  <  2:1815309/93‑1 (MQ=255)
                                                                                      gcggAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACcggcg  <  2:1551038/93‑1 (MQ=255)
                                                                                          |                                                                                        
GGCCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGGACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACCGGCG  >  NC_000913/3854299‑3854477

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ 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
ACTGGCCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGGACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACCGGCGGTTCA  >  NC_000913/3854296‑3854482
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ACTGGCCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGA                                                                                               >  SRR4302534.4695254/1‑94 (MQ=60)
ACTGGCCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGA                                                                                               <  SRR4302534.699207/94‑1 (MQ=60)
  TGGCCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAAC                                                                                             >  SRR4302534.557657/1‑94 (MQ=60)
  TGGCCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAAC                                                                                             <  SRR4302534.4233581/94‑1 (MQ=60)
  TGGCCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAAC                                                                                             <  SRR4302534.6376055/94‑1 (MQ=60)
   GGCCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACG                                                                                            >  SRR4302534.2881807/1‑94 (MQ=60)
   GGCCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACG                                                                                            <  SRR4302534.4063143/94‑1 (MQ=60)
   GGCCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACG                                                                                            <  SRR4302534.4063142/94‑1 (MQ=60)
    GCCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGC                                                                                           >  SRR4302534.2399880/1‑94 (MQ=60)
    GCCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGC                                                                                           >  SRR4302534.5090923/1‑94 (MQ=60)
     CCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCT                                                                                          <  SRR4302534.1676685/94‑1 (MQ=60)
     CCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCT                                                                                          <  SRR4302534.3760497/94‑1 (MQ=60)
      CATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTG                                                                                         >  SRR4302534.912578/1‑94 (MQ=60)
         TGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCT                                                                                      >  SRR4302534.6114956/1‑94 (MQ=60)
         TGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCT                                                                                      <  SRR4302534.699009/94‑1 (MQ=60)
         TGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCT                                                                                      <  SRR4302534.122298/94‑1 (MQ=60)
         TGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCT                                                                                      <  SRR4302534.1049809/94‑1 (MQ=60)
          GCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTT                                                                                     <  SRR4302534.2745355/94‑1 (MQ=60)
             GCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCC                                                                                  >  SRR4302534.5302211/1‑94 (MQ=60)
             GCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCC                                                                                  <  SRR4302534.3497901/94‑1 (MQ=60)
             GCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCC                                                                                  >  SRR4302534.1240657/1‑94 (MQ=60)
             GCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCC                                                                                  >  SRR4302534.6170009/1‑94 (MQ=60)
              CGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCA                                                                                 <  SRR4302534.1298503/94‑1 (MQ=60)
               GCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCAT                                                                                >  SRR4302534.2004432/1‑94 (MQ=60)
                 TACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATAC                                                                              >  SRR4302534.5873264/1‑94 (MQ=60)
                  TCTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACC                                                                             <  SRR4302534.4487415/94‑1 (MQ=60)
                    TTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTT                                                                           <  SRR4302534.5540076/94‑1 (MQ=60)
                    TTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTT                                                                           <  SRR4302534.2992153/94‑1 (MQ=60)
                     TTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTG                                                                          >  SRR4302534.5699621/1‑94 (MQ=60)
                     TTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTG                                                                          <  SRR4302534.6347330/94‑1 (MQ=60)
                      TGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGC                                                                         >  SRR4302534.931620/1‑94 (MQ=60)
                       GCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCT                                                                        <  SRR4302534.6361836/94‑1 (MQ=60)
                        CGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTT                                                                       <  SRR4302534.6108481/94‑1 (MQ=60)
                        CGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTT                                                                       >  SRR4302534.1510288/1‑94 (MQ=60)
                        CGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTT                                                                       >  SRR4302534.5124050/1‑94 (MQ=60)
                         GCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTT                                                                      >  SRR4302534.5988519/1‑94 (MQ=60)
                         GCATTTATTGGCGGTATGCATAAGGAAAATCGAGGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTT                                                                      <  SRR4302534.2290576/94‑1 (MQ=60)
                            TTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTG                                                                   <  SRR4302534.3886897/94‑1 (MQ=60)
                            TTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTG                                                                   <  SRR4302534.5779149/94‑1 (MQ=60)
                             TTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGG                                                                  <  SRR4302534.4853303/94‑1 (MQ=60)
                             TTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGG                                                                  <  SRR4302534.4304268/94‑1 (MQ=60)
                                 TGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATC                                                              >  SRR4302534.6096549/1‑94 (MQ=60)
                                 TGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATC                                                              >  SRR4302534.2790523/1‑94 (MQ=60)
                                   GCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGG                                                            >  SRR4302534.4814776/1‑94 (MQ=60)
                                    CGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGC                                                           >  SRR4302534.1340006/1‑94 (MQ=60)
                                    CGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGC                                                           >  SRR4302534.4059809/1‑94 (MQ=60)
                                    CGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCCTTCCATACCTTGCTTTTTGGTATCGGC                                                           >  SRR4302534.4972544/1‑94 (MQ=60)
                                     GGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTTGTATCGGCA                                                          >  SRR4302534.3376112/1‑94 (MQ=60)
                                     GGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCA                                                          >  SRR4302534.6581244/1‑94 (MQ=60)
                                      GTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCAT                                                         <  SRR4302534.1407720/94‑1 (MQ=60)
                                      GTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCAT                                                         <  SRR4302534.3798529/94‑1 (MQ=60)
                                      GTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCAT                                                         <  SRR4302534.769571/94‑1 (MQ=60)
                                       TATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATC                                                        >  SRR4302534.2132324/1‑94 (MQ=60)
                                         TGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATATCTTGCTTTTTGGTATCGGCATCGT                                                      >  SRR4302534.4748584/1‑94 (MQ=60)
                                          GCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTG                                                     >  SRR4302534.5896699/1‑94 (MQ=60)
                                           CGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTCTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGT                                                    <  SRR4302534.3869709/94‑1 (MQ=60)
                                            GTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTG                                                   <  SRR4302534.2373391/94‑1 (MQ=60)
                                            GTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTG                                                   <  SRR4302534.5771853/94‑1 (MQ=60)
                                            GTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTG                                                   >  SRR4302534.2557987/1‑94 (MQ=60)
                                             TAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGC                                                  >  SRR4302534.5329806/1‑94 (MQ=60)
                                              AAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCA                                                 >  SRR4302534.2305770/1‑94 (MQ=60)
                                              AAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCA                                                 <  SRR4302534.331719/94‑1 (MQ=60)
                                              AAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCA                                                 >  SRR4302534.2470149/1‑94 (MQ=60)
                                              AAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCA                                                 >  SRR4302534.2860967/1‑94 (MQ=60)
                                               AGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAG                                                <  SRR4302534.1171059/94‑1 (MQ=60)
                                                 GAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCA                                              <  SRR4302534.1375647/94‑1 (MQ=60)
                                                  AAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCAT                                             <  SRR4302534.3816416/94‑1 (MQ=60)
                                                  AAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGCATCGGCATCGTGTGCAGCAT                                             >  SRR4302534.2274559/1‑94 (MQ=60)
                                                    AATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTT                                           <  SRR4302534.5712712/94‑1 (MQ=60)
                                                    AATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTT                                           >  SRR4302534.902022/1‑94 (MQ=60)
                                                    AATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTT                                           >  SRR4302534.598575/1‑94 (MQ=60)
                                                     ATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTttgggcatgtgtggcaccatttt                                          >  SRR4302534.3800390/1‑71 (MQ=60)
                                                     ATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTT                                          <  SRR4302534.3345320/94‑1 (MQ=60)
                                                     ATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTT                                          <  SRR4302534.2887333/94‑1 (MQ=60)
                                                     ATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTT                                          <  SRR4302534.2011352/94‑1 (MQ=60)
                                                      TCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTG                                         >  SRR4302534.2505724/1‑94 (MQ=60)
                                                         CTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTG                                      >  SRR4302534.198672/1‑94 (MQ=60)
                                                          TGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGA                                     <  SRR4302534.6519300/94‑1 (MQ=60)
                                                          TGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGA                                     >  SRR4302534.2971957/1‑94 (MQ=60)
                                                          TGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGA                                     >  SRR4302534.2096944/1‑94 (MQ=60)
                                                           GGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGAT                                    <  SRR4302534.5850654/94‑1 (MQ=60)
                                                           GGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGAT                                    <  SRR4302534.933433/94‑1 (MQ=60)
                                                           GGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGAT                                    >  SRR4302534.4354295/1‑94 (MQ=60)
                                                           GGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGAT                                    >  SRR4302534.2777745/1‑94 (MQ=60)
                                                             GGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATAT                                  <  SRR4302534.1173634/94‑1 (MQ=60)
                                                              GCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATT                                 <  SRR4302534.6263289/94‑1 (MQ=60)
                                                              GCATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATT                                 >  SRR4302534.5690534/1‑94 (MQ=60)
                                                               CATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTC                                <  SRR4302534.2780142/94‑1 (MQ=60)
                                                               CATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTC                                <  SRR4302534.444719/94‑1 (MQ=60)
                                                                ATTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGATGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGGTAGTCC                               >  SRR4302534.2828065/1‑94 (MQ=60)
                                                                 TTCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCT                              <  SRR4302534.2157465/94‑1 (MQ=60)
                                                                  TCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTT                             <  SRR4302534.3041378/94‑1 (MQ=60)
                                                                  TCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTT                             <  SRR4302534.5995473/94‑1 (MQ=60)
                                                                  TCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTT                             <  SRR4302534.6070351/94‑1 (MQ=60)
                                                                  TCGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTT                             <  SRR4302534.6439752/94‑1 (MQ=60)
                                                                   CGCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTA                            <  SRR4302534.3655216/94‑1 (MQ=60)
                                                                    GCGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTAT                           <  SRR4302534.2705728/94‑1 (MQ=60)
                                                                     CGGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATC                          <  SRR4302534.5381314/94‑1 (MQ=60)
                                                                      GGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCT                         <  SRR4302534.529181/94‑1 (MQ=60)
                                                                      GGCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCT                         >  SRR4302534.708136/1‑94 (MQ=60)
                                                                       GCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTT                        <  SRR4302534.6053989/94‑1 (MQ=60)
                                                                       GCGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTT                        <  SRR4302534.1011330/94‑1 (MQ=60)
                                                                        CGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTT                       <  SRR4302534.3960620/94‑1 (MQ=60)
                                                                        CGCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTT                       <  SRR4302534.6098320/94‑1 (MQ=60)
                                                                         GCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTT                      <  SRR4302534.5940406/94‑1 (MQ=60)
                                                                         GCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTT                      <  SRR4302534.2381457/94‑1 (MQ=60)
                                                                         GCGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTT                      <  SRR4302534.2055671/94‑1 (MQ=60)
                                                                          CGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTC                     <  SRR4302534.4510738/94‑1 (MQ=60)
                                                                          CGCTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTC                     <  SRR4302534.341637/94‑1 (MQ=60)
                                                                           GCTGGTTTTTGGCGGCGGGACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCC                    >  SRR4302534.3411797/1‑94 (MQ=60)
                                                                            CTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCT                   >  SRR4302534.100696/1‑94 (MQ=60)
                                                                            CTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCT                   >  SRR4302534.4717610/1‑94 (MQ=60)
                                                                            CTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCT                   <  SRR4302534.1029920/94‑1 (MQ=60)
                                                                            CTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCT                   <  SRR4302534.5268064/94‑1 (MQ=60)
                                                                            CTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCT                   >  SRR4302534.2704305/1‑94 (MQ=60)
                                                                            CTGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCATTATCTTTTCCT                   >  SRR4302534.2738482/1‑94 (MQ=60)
                                                                            CTGGTTGTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCT                   <  SRR4302534.1946244/94‑1 (MQ=60)
                                                                             TGGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTT                  >  SRR4302534.2333304/1‑94 (MQ=60)
                                                                              GGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTC                 >  SRR4302534.5698981/1‑94 (MQ=60)
                                                                              GGTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTC                 <  SRR4302534.4472631/94‑1 (MQ=60)
                                                                               GTTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCC                <  SRR4302534.4645995/94‑1 (MQ=60)
                                                                                TTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCT               <  SRR4302534.5454253/94‑1 (MQ=60)
                                                                                TTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCT               <  SRR4302534.1461285/94‑1 (MQ=60)
                                                                                TTTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCT               <  SRR4302534.1756827/94‑1 (MQ=60)
                                                                                 TTTTGGCGGCGGAACGCTGGCTTTCCATTCCTTGCTTGTTGGTAACGGCATCGTGTGCAGCATTTTGCTGATATTCCTTAACTTTTCCTTCCTG              <  SRR4302534.4473926/94‑1 (MQ=60)
                                                                                 TTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTG              <  SRR4302534.257227/94‑1 (MQ=60)
                                                                                 TTTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTG              <  SRR4302534.1618190/94‑1 (MQ=60)
                                                                                  TTTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGA             <  SRR4302534.1589080/94‑1 (MQ=60)
                                                                                   TTGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGAC            <  SRR4302534.681066/94‑1 (MQ=60)
                                                                                    TGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACC           <  SRR4302534.1230606/94‑1 (MQ=60)
                                                                                    TGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACC           <  SRR4302534.6355131/94‑1 (MQ=60)
                                                                                    TGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACC           <  SRR4302534.3074235/94‑1 (MQ=60)
                                                                                    TGGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACC           <  SRR4302534.3359770/94‑1 (MQ=60)
                                                                                     GGCGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACCG          >  SRR4302534.5763345/1‑94 (MQ=60)
                                                                                       CGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACCGGC        >  SRR4302534.1677006/1‑94 (MQ=60)
                                                                                       CGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACCGGC        <  SRR4302534.928031/94‑1 (MQ=60)
                                                                                       CGGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACCGGC        <  SRR4302534.6086779/94‑1 (MQ=60)
                                                                                        GGCGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACCGGCG       <  SRR4302534.5853684/94‑1 (MQ=60)
                                                                                          CGGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACCGGCGGT     >  SRR4302534.4798277/1‑94 (MQ=60)
                                                                                           GGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACCGGCGGTT    <  SRR4302534.796829/94‑1 (MQ=60)
                                                                                           GGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACCGGCGGTT    >  SRR4302534.4844202/1‑94 (MQ=60)
                                                                                           GGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACCGGCGGTT    >  SRR4302534.4175750/1‑94 (MQ=60)
                                                                                           GGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACCGGCGGTT    <  SRR4302534.5178264/94‑1 (MQ=60)
                                                                                           GGAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACCGGCGGTT    <  SRR4302534.5725640/94‑1 (MQ=60)
                                                                                            GAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACCGGCGGTTC   <  SRR4302534.6191157/94‑1 (MQ=60)
                                                                                            GAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACCGGCGGTTC   <  SRR4302534.4406259/94‑1 (MQ=60)
                                                                                            GAACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACCGGCGGTTC   >  SRR4302534.5689303/1‑94 (MQ=60)
                                                                                             AACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACCGGCGGTTCA  >  SRR4302534.924604/1‑94 (MQ=60)
                                                                                             |                                                                                             
ACTGGCCATTGCTGCGCTACTTTGCGCATTTATTGGCGGTATGCGTAAGGAAAATCGCTGGGGCATTCGCGGCGCGCTGGTTTTTGGCGGCGGGACGCTGGCTTTCCATACCTTGCTTTTTGGTATCGGCATCGTGTGCAGCATTTTGCTGATATTCCTTATCTTTTCCTTCCTGACCGGCGGTTCA  >  NC_000913/3854296‑3854482

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 2 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑