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 3,675,076 +G coding (920/2076 nt) yhjG ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,675,0721.G99.6% 785.1 / ‑5.4 229P308P (CCG→CCC) yhjGhypothetical protein
Reads supporting (aligned to +/- strand):  ref base . (0/1);  major base G (111/116);  minor base A (1/0);  total (112/117)
Fisher's exact test for biased strand distribution p-value = 4.91e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01

Only 100 of 266 total aligned reads displayed.

TCACCAATTCGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑GGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGCCC  >  NC_000913/3674980‑3675159
                                                                                              |                                                                                       
tCACCAATTCGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAAcgg‑c                                                                                          >  1:529115/1‑93 (MQ=255)
 cACCAATTCGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAAcgg‑c‑g                                                                                        <  2:2748852/93‑1 (MQ=255)
 cACCAATTCGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAAcgg‑c‑g                                                                                        <  2:2186662/93‑1 (MQ=255)
   ccAATTCGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑ggg                                                                                      <  1:1295755/93‑1 (MQ=255)
   ccAATTCGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑ggg                                                                                      <  2:2373813/93‑1 (MQ=255)
    cAATTCGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑gggg                                                                                     >  1:5059826/1‑93 (MQ=255)
     aaTTCGCCCATTAAACCCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑ggggg                                                                                    <  1:5953147/93‑2 (MQ=255)
     aaTTCGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑ggggg                                                                                    <  1:269070/93‑2 (MQ=255)
       ttCGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑gggggta                                                                                  >  1:1120137/1‑90 (MQ=255)
       ttCGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑gggggta                                                                                  <  1:3245260/93‑4 (MQ=255)
        tCGCCCATGAAAACCGCGACAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGGCC‑GGGGTAt                                                                                  >  1:6263244/1‑93 (MQ=255)
           cccATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCgg                                                                               <  1:3267741/93‑1 (MQ=255)
             cATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGgc                                                                             >  2:361053/1‑93 (MQ=255)
              aTTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGgca                                                                            <  2:3172180/93‑1 (MQ=255)
              aTTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGgca                                                                            <  2:4240639/93‑1 (MQ=255)
                tAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGgcagc                                                                          <  2:3843139/93‑1 (MQ=255)
                 aaaaCCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGgcagca                                                                         <  1:3779346/93‑1 (MQ=255)
                  aaaCCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGcagcag                                                                        >  1:550651/1‑93 (MQ=255)
                  aaaCCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGCATCGGGcagcag                                                                        >  2:3745369/1‑93 (MQ=255)
                   aaCCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGa                                                                       >  2:5079995/1‑93 (MQ=255)
                    aCCGCGATAATTAAAGACCGACGATCTTTCAGTGTCGATTTTCGCCACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGaa                                                                      <  2:2873652/93‑1 (MQ=255)
                      cgcgATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGaaag                                                                    >  2:1663219/1‑91 (MQ=255)
                       gcgATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTCCCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGc                                                                   <  2:5434702/93‑1 (MQ=255)
                       gcgATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCCGAACGc                                                                   >  1:6126004/1‑93 (MQ=255)
                       gcgATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGc                                                                   <  1:4148343/93‑1 (MQ=255)
                         gATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGccc                                                                 >  2:4200340/1‑93 (MQ=255)
                         gATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAATGccc                                                                 >  1:3524271/1‑93 (MQ=255)
                         gATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGccc                                                                 >  1:2498172/1‑93 (MQ=255)
                         gATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCCGGGAGCAGCACGccc                                                                 >  2:4824237/1‑93 (MQ=255)
                          aTAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCg                                                                >  1:343308/1‑93 (MQ=255)
                          aTAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGCCCg                                                                >  1:571515/1‑93 (MQ=255)
                            aaTCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGta                                                              >  1:80876/1‑92 (MQ=255)
                            aaTCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTc                                                              >  2:2232012/1‑93 (MQ=255)
                            aaTCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTc                                                              <  1:3575093/93‑1 (MQ=255)
                              tCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAg                                                            <  1:2089239/93‑1 (MQ=255)
                              tCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAg                                                            <  2:289270/93‑1 (MQ=255)
                                aaaGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGtt                                                          >  2:5202243/1‑93 (MQ=255)
                                aaaGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGtt                                                          >  2:405295/1‑93 (MQ=255)
                                 aaGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTc                                                         >  2:6406810/1‑93 (MQ=255)
                                 aaGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTc                                                         <  2:4629962/93‑1 (MQ=255)
                                 aaGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTc                                                         >  1:3882473/1‑93 (MQ=255)
                                 aaGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAAAGCCCGTCACTTc                                                         >  2:5552145/1‑93 (MQ=255)
                                  aGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CAGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCa                                                        >  1:1594367/1‑93 (MQ=255)
                                   aaCCGACGATTTTTCATTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCAt                                                       <  2:3336727/92‑1 (MQ=255)
                                     ccGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATag                                                     >  1:1400500/1‑93 (MQ=255)
                                      cgacgaTTGTTCAGTGTCGATTCTCGCTACCAGCCGACCGTCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGGTCATaga                                                    <  1:6437475/93‑1 (MQ=255)
                                        acgaTTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAgaga                                                  >  2:4299431/1‑93 (MQ=255)
                                        acgaTTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGGAGCAGAACGCCCGTCAGTTCATAgaga                                                  >  1:5633210/1‑93 (MQ=255)
                                          gaTTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATc                                                <  2:3533031/93‑1 (MQ=255)
                                           aTTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCa                                               <  2:1465417/93‑1 (MQ=255)
                                             ttttCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCAcc                                             <  1:6381921/93‑1 (MQ=255)
                                             ttttCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCAcc                                             >  1:2862798/1‑93 (MQ=255)
                                             ttttCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCAcc                                             <  2:2650213/93‑1 (MQ=255)
                                                tCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAg                                          <  2:1192888/93‑1 (MQ=255)
                                                 cAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGt                                         <  1:4311057/93‑1 (MQ=255)
                                                  aGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTg                                        >  2:6319238/1‑93 (MQ=255)
                                                   gtgtCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGa                                       >  2:2942224/1‑93 (MQ=255)
                                                   gtgtCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGa                                       <  1:5700218/93‑1 (MQ=255)
                                                   gtgtCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGa                                       >  2:5826540/1‑93 (MQ=255)
                                                     gtCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAAt                                     <  2:2295873/93‑1 (MQ=255)
                                                     gtCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAAt                                     >  2:5691451/1‑93 (MQ=255)
                                                     gtCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAAt                                     <  2:1819761/93‑1 (MQ=255)
                                                     gtCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAAt                                     <  2:170281/93‑1 (MQ=255)
                                                       cGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCg                                   >  2:4482195/1‑93 (MQ=255)
                                                       cGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCg                                   >  1:3229382/1‑93 (MQ=255)
                                                       cGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCg                                   <  2:1533272/93‑1 (MQ=255)
                                                        gATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGc                                  >  1:142657/1‑93 (MQ=255)
                                                          ttttCGCTACCAGCCGCCCATCCGTGTCAAACGG‑CGGGGGTATCGAGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCa                                <  1:310670/93‑1 (MQ=255)
                                                           tttCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGAGAATCGCCAg                               >  2:3373057/1‑93 (MQ=255)
                                                                cTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAAt                          <  2:5273067/93‑1 (MQ=255)
                                                                 tACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAAtt                         >  2:4306592/1‑93 (MQ=255)
                                                                  aCCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCCGTGAATCGCCAGAAAAttt                        >  1:1719271/1‑93 (MQ=255)
                                                                    cAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTaa                      >  1:4473414/1‑93 (MQ=255)
                                                                    cAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTaa                      <  2:4181878/93‑1 (MQ=255)
                                                                     aGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAg                     <  1:4073975/93‑1 (MQ=255)
                                                                      gCCGACCATCCGTTTCAAACGG‑CGGGGGTATTGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGACAGAAAATTTAAGc                    >  2:6062897/1‑93 (MQ=255)
                                                                      gCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGCGAATCGCCAGAAAATTTCAGc                    >  2:5455786/1‑93 (MQ=255)
                                                                         gACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGt                 >  2:1048689/1‑93 (MQ=255)
                                                                         gACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGt                 >  1:6102205/1‑93 (MQ=255)
                                                                         gACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGt                 <  2:4752637/93‑1 (MQ=255)
                                                                         gACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGt                 >  1:3685339/1‑93 (MQ=255)
                                                                          aCCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTa                >  2:2052943/1‑93 (MQ=255)
                                                                          aCCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTa                >  1:4544133/1‑93 (MQ=255)
                                                                          aCCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTa                >  2:3484863/1‑93 (MQ=255)
                                                                            cATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTaaa              <  1:1210707/93‑1 (MQ=255)
                                                                            cATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTaaa              <  1:5584263/93‑1 (MQ=255)
                                                                            cATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTaaa              >  2:3898738/1‑93 (MQ=255)
                                                                             aTCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAAt             <  1:1687727/93‑1 (MQ=255)
                                                                             aTCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTCAGACGTAAAt             >  1:2231696/1‑93 (MQ=255)
                                                                              tCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATc            <  1:5023385/93‑1 (MQ=255)
                                                                              tCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATc            >  2:2259166/1‑93 (MQ=255)
                                                                               ccGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCg           <  2:4774904/93‑1 (MQ=255)
                                                                                 gTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGac         <  1:2931754/93‑1 (MQ=255)
                                                                                 gTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGac         <  1:4847989/93‑1 (MQ=255)
                                                                                   ttCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGacac       >  2:1004827/1‑93 (MQ=255)
                                                                                   tgcAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGacac       <  2:59161/91‑1 (MQ=255)
                                                                                    tCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACAcc      <  1:1043414/93‑1 (MQ=255)
                                                                                      aaaCGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGGGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGc    >  1:1016542/1‑93 (MQ=255)
                                                                                        aCGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGccc  <  2:6450554/93‑1 (MQ=255)
                                                                                        aCGG‑CGGGGGGATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATTACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAAACGACAcccccc  >  2:4561836/1‑93 (MQ=255)
                                                                                              |                                                                                       
TCACCAATTCGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑GGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGCCC  >  NC_000913/3674980‑3675159

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CCAATTCGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑GGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGCCCATCTTCATTG  >  NC_000913/3674983‑3675169
                                                                                               |                                                                                             
CCAATTCGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑GGGG                                                                                               >  SRR4302534.5196472/1‑94 (MQ=60)
CCAATTCGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑GGGG                                                                                               <  SRR4302534.1329902/94‑1 (MQ=60)
 CAATTCGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑GGGGG                                                                                              >  SRR4302534.3339001/1‑94 (MQ=60)
  AATTCGCCCATTAAACCCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑GGGGgt                                                                                             <  SRR4302534.6114798/94‑3 (MQ=60)
  AATTCGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑GGGGGA                                                                                             <  SRR4302534.276048/94‑1 (MQ=60)
   ATTCGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑GGGGgta                                                                                            >  SRR4302534.1149399/1‑91 (MQ=60)
    TTCGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTAT                                                                                            <  SRR4302534.3331643/94‑1 (MQ=60)
    TTCGCCCATGAAAACCGCGACAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGGCC‑GGGGTAT                                                                                            >  SRR4302534.6432894/1‑94 (MQ=60)
      CGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑GGGGggatcg                                                                                         >  SRR4302534.5862922/1‑88 (MQ=60)
      CGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑GGGGggatcg                                                                                         >  SRR4302534.3775339/1‑88 (MQ=60)
       GCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGG                                                                                         >  SRR4302534.4075517/1‑94 (MQ=60)
       GCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑GGGGggatcgg                                                                                        >  SRR4302534.877136/1‑87 (MQ=60)
        CCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGG                                                                                        <  SRR4302534.3354779/94‑1 (MQ=60)
          CATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCA                                                                                      <  SRR4302534.5756499/94‑1 (MQ=60)
          CATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCA                                                                                      <  SRR4302534.3347073/94‑1 (MQ=60)
           ATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAG                                                                                     >  SRR4302534.2628516/1‑94 (MQ=60)
           ATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑GGGGggatcggggag                                                                                    >  SRR4302534.70443/1‑83 (MQ=60)
           ATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑GGGGggatccggcag                                                                                    >  SRR4302534.3421688/1‑83 (MQ=60)
            TTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑GGGGggatcgggcaga                                                                                   >  SRR4302534.4606769/1‑82 (MQ=60)
             taaacccgcgatattaagagttCGACGATTTTTCAGTGTCGATTTTCGCTACCAGGCGTCCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCA                                                                                   <  SRR4302534.2905859/72‑1 (MQ=60)
             TAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCA                                                                                   >  SRR4302534.3672746/1‑94 (MQ=60)
              AAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAG                                                                                  <  SRR4302534.3593425/94‑1 (MQ=60)
              AAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAG                                                                                  <  SRR4302534.3880812/94‑1 (MQ=60)
              AAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAG                                                                                  >  SRR4302534.564229/1‑94 (MQ=60)
               AAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGA                                                                                 >  SRR4302534.1271297/1‑94 (MQ=60)
               AAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGA                                                                                 >  SRR4302534.6031469/1‑94 (MQ=60)
               AAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGA                                                                                 >  SRR4302534.5837692/1‑94 (MQ=60)
                 ACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAAC                                                                               <  SRR4302534.6119354/94‑1 (MQ=60)
                 ACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAAC                                                                               <  SRR4302534.4167684/94‑1 (MQ=60)
                 ACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAAC                                                                               <  SRR4302534.1657508/94‑1 (MQ=60)
                  CCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACG                                                                              <  SRR4302534.148368/94‑1 (MQ=60)
                   CGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCCGAACGC                                                                             >  SRR4302534.6292630/1‑94 (MQ=60)
                   CGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGC                                                                             >  SRR4302534.1393665/1‑94 (MQ=60)
                    GCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCC                                                                            <  SRR4302534.4260320/94‑1 (MQ=60)
                    GCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCC                                                                            <  SRR4302534.2693695/94‑1 (MQ=60)
                    GCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCC                                                                            >  SRR4302534.515495/1‑94 (MQ=60)
                    GCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCC                                                                            >  SRR4302534.1058062/1‑94 (MQ=60)
                     CGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAATGCCC                                                                           >  SRR4302534.3619062/1‑94 (MQ=60)
                     CGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGCCC                                                                           >  SRR4302534.2564517/1‑94 (MQ=60)
                      GATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCG                                                                          >  SRR4302534.352097/1‑94 (MQ=60)
                      GATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCG                                                                          <  SRR4302534.1084685/94‑1 (MQ=60)
                      GATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGCCCG                                                                          >  SRR4302534.585530/1‑94 (MQ=60)
                        TAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTC                                                                        <  SRR4302534.1325919/94‑1 (MQ=60)
                        TAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTA                                                                        >  SRR4302534.83051/1‑94 (MQ=60)
                         AATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCA                                                                       <  SRR4302534.3671254/94‑1 (MQ=60)
                           TCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGT                                                                     <  SRR4302534.2144013/94‑1 (MQ=60)
                           TCAAAGACCGACGATTTTTCAGTGTCGATTTTAGCTACCAGCCGACCATCCGTTTCACACGG‑C‑GGGGggatgcgggtgcaggacggccgtcagt                                                                    >  SRR4302534.5730664/1‑67 (MQ=60)
                           TCAAAGACAGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGCCCGTCAGT                                                                     >  SRR4302534.6577759/1‑94 (MQ=60)
                           ACAAAGACCGACGATTTGTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGT                                                                     <  SRR4302534.697126/94‑1 (MQ=60)
                            CAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGCCCGTCAGTT                                                                    >  SRR4302534.4973477/1‑94 (MQ=60)
                             AAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTC                                                                   >  SRR4302534.3986715/1‑94 (MQ=60)
                             AAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTGC                                                                   >  SRR4302534.5781474/1‑94 (MQ=60)
                             AAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGCCCGTCAGTTC                                                                   >  SRR4302534.1762082/1‑94 (MQ=60)
                              AAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGCCCGTCAGTTCA                                                                  >  SRR4302534.4695196/1‑94 (MQ=60)
                              AAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CAGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCA                                                                  >  SRR4302534.1636046/1‑94 (MQ=60)
                                 ACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAG                                                               <  SRR4302534.1856867/94‑1 (MQ=60)
                                 ACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAG                                                               >  SRR4302534.1437339/1‑94 (MQ=60)
                                 ACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAG                                                               <  SRR4302534.6095628/94‑1 (MQ=60)
                                   CGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAG                                                             >  SRR4302534.3306038/1‑94 (MQ=60)
                                   CGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAG                                                             <  SRR4302534.3315689/94‑1 (MQ=60)
                                   CGACGATTGTTCAGTGTCGATTCTCGCTACCAGCCGACCGTCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGGTCATAGAG                                                             <  SRR4302534.6610978/94‑1 (MQ=60)
                                    GACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGA                                                            <  SRR4302534.319562/94‑1 (MQ=60)
                                    GACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGGAGCAGAACGCCCGTCAGTTCATAGAGA                                                            >  SRR4302534.5785674/1‑94 (MQ=60)
                                     taatccactcctcctacagccactaccatcccccccgtctacacccaatcgggcgGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGA                                                            <  SRR4302534.5147012/39‑1 (MQ=60)
                                      CGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATC                                                          >  SRR4302534.2155651/1‑94 (MQ=60)
                                      CGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATC                                                          <  SRR4302534.625126/94‑1 (MQ=60)
                                       GATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGCCCGTCAGTTCATAAAGATCA                                                         >  SRR4302534.3422643/1‑94 (MQ=60)
                                         TTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACC                                                       <  SRR4302534.303299/94‑1 (MQ=60)
                                         TTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACC                                                       >  SRR4302534.2937988/1‑94 (MQ=60)
                                          TTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCC                                                      <  SRR4302534.6554308/94‑1 (MQ=60)
                                              CAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTG                                                  <  SRR4302534.4427852/94‑1 (MQ=60)
                                              CAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTG                                                  <  SRR4302534.3493193/94‑1 (MQ=60)
                                              CAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTA                                                  <  SRR4302534.203429/94‑1 (MQ=60)
                                              CAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTG                                                  >  SRR4302534.4444728/1‑94 (MQ=60)
                                              CAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTG                                                  >  SRR4302534.285263/1‑94 (MQ=60)
                                              CAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGCATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTG                                                  >  SRR4302534.3938336/1‑94 (MQ=60)
                                               AGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGA                                                 >  SRR4302534.622273/1‑94 (MQ=60)
                                                GTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAA                                                <  SRR4302534.5854631/94‑1 (MQ=60)
                                                 TGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGGTCACCCAGTGAAT                                               >  SRR4302534.4226121/1‑94 (MQ=60)
                                                  GTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATC                                              <  SRR4302534.1416875/94‑1 (MQ=60)
                                                  GTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATC                                              >  SRR4302534.3644053/1‑94 (MQ=60)
                                                   TCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCG                                             >  SRR4302534.3315195/1‑94 (MQ=60)
                                                   TCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCG                                             <  SRR4302534.2553829/94‑1 (MQ=60)
                                                    CGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGC                                            >  SRR4302534.146389/1‑94 (MQ=60)
                                                      TTTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCA                                          <  SRR4302534.5864175/94‑1 (MQ=60)
                                                      ATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCA                                          <  SRR4302534.650491/94‑1 (MQ=60)
                                                       TTTTCGCTACCAGCCGCCCATCCGTGTCAAACGG‑CGGGGGTATCGAGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAG                                         <  SRR4302534.318685/94‑1 (MQ=60)
                                                        TTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGA                                        <  SRR4302534.1499932/94‑1 (MQ=60)
                                                          TCGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAA                                      <  SRR4302534.769321/94‑1 (MQ=60)
                                                           CGCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGAATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATAACCCAGTGAATCGCCAGAAAA                                     >  SRR4302534.3937433/1‑94 (MQ=60)
                                                            GCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAAT                                    >  SRR4302534.892252/1‑94 (MQ=60)
                                                            GCTACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAAT                                    <  SRR4302534.1442603/94‑1 (MQ=60)
                                                              TACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATGGGGCAGCAGGAAGCCCGTCAGGTCATAGAGATCACCCAGTGAATCGCCAGAAAATTT                                  >  SRR4302534.2619149/1‑94 (MQ=60)
                                                              TACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTT                                  >  SRR4302534.4433245/1‑94 (MQ=60)
                                                              TACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTT                                  <  SRR4302534.5525913/94‑1 (MQ=60)
                                                              TACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCCGTGAATCGCCAGAAAATTT                                  >  SRR4302534.1763930/1‑94 (MQ=60)
                                                               ACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTA                                 <  SRR4302534.1685803/94‑1 (MQ=60)
                                                               ACCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTA                                 <  SRR4302534.55906/94‑1 (MQ=60)
                                                                CCAGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAA                                >  SRR4302534.4594421/1‑94 (MQ=60)
                                                                  AGCCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGC                              <  SRR4302534.4183311/94‑1 (MQ=60)
                                                                    CCGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCG                            <  SRR4302534.3000016/94‑1 (MQ=60)
                                                                     CGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGT                           >  SRR4302534.6393373/1‑94 (MQ=60)
                                                                     CGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGT                           >  SRR4302534.6268137/1‑94 (MQ=60)
                                                                     CGACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGT                           >  SRR4302534.3784426/1‑94 (MQ=60)
                                                                     CGACCATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGT                           >  SRR4302534.3784425/1‑94 (MQ=60)
                                                                      GACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTA                          >  SRR4302534.4667323/1‑94 (MQ=60)
                                                                      GACCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTA                          <  SRR4302534.2289857/94‑1 (MQ=60)
                                                                        CCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAA                        >  SRR4302534.6306129/1‑94 (MQ=60)
                                                                        CCATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAA                        >  SRR4302534.988418/1‑94 (MQ=60)
                                                                         CATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAAT                       <  SRR4302534.5735159/94‑1 (MQ=60)
                                                                         CATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAAT                       <  SRR4302534.1242561/94‑1 (MQ=60)
                                                                         CATCCGTTTCAAACGG‑CGGGGGGATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTCAGACGTAAAT                       >  SRR4302534.2290804/1‑94 (MQ=60)
                                                                          ATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATC                      <  SRR4302534.5393565/94‑1 (MQ=60)
                                                                          ATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATC                      <  SRR4302534.1731612/94‑1 (MQ=60)
                                                                          ATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATC                      <  SRR4302534.4418535/94‑1 (MQ=60)
                                                                          ATCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATC                      >  SRR4302534.28358/1‑94 (MQ=60)
                                                                           TCCGTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCG                     <  SRR4302534.5159082/94‑1 (MQ=60)
                                                                              GTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACA                  <  SRR4302534.50295/94‑1 (MQ=60)
                                                                              GTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACA                  <  SRR4302534.4979513/94‑1 (MQ=60)
                                                                              GTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACA                  <  SRR4302534.3008718/94‑1 (MQ=60)
                                                                              GTTTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATAGACA                  >  SRR4302534.453415/1‑94 (MQ=60)
                                                                                TTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAATTCGACCCC                >  SRR4302534.5002324/1‑94 (MQ=60)
                                                                                TTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACC                <  SRR4302534.1155993/94‑1 (MQ=60)
                                                                                TTCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACC                <  SRR4302534.3813182/94‑1 (MQ=60)
                                                                                 TCAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCG               <  SRR4302534.1070360/94‑1 (MQ=60)
                                                                                  CAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGGGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGC              >  SRR4302534.1042713/1‑94 (MQ=60)
                                                                                  CAAACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGC              >  SRR4302534.3146671/1‑94 (MQ=60)
                                                                                     ACGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGCCCA           <  SRR4302534.1127346/94‑1 (MQ=60)
                                                                                      CGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGCCCAT          <  SRR4302534.5655404/94‑1 (MQ=60)
                                                                                      CGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGCCCAT          >  SRR4302534.2605747/1‑94 (MQ=60)
                                                                                      CGG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGCCCAT          >  SRR4302534.5223323/1‑94 (MQ=60)
                                                                                       GG‑CGGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGCCCATC         >  SRR4302534.2466494/1‑94 (MQ=60)
                                                                                          cgGGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGCCCATCTT       >  SRR4302534.595756/3‑94 (MQ=60)
                                                                                          G‑GGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGCCCATCTTC      <  SRR4302534.3890587/94‑1 (MQ=60)
                                                                                          G‑GGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGCCCATCTTC      >  SRR4302534.1131576/1‑94 (MQ=60)
                                                                                            GGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGCCCATCTTCA     >  SRR4302534.1445980/1‑94 (MQ=60)
                                                                                            GGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGCCCATCTTCA     >  SRR4302534.1039570/1‑94 (MQ=60)
                                                                                             GGGGATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGCCCATCTTCAT    <  SRR4302534.2475367/94‑1 (MQ=60)
                                                                                              GGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGCCCATCTTCATT   <  SRR4302534.5611312/94‑1 (MQ=60)
                                                                                               GTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGCCCATCTTCATTG  <  SRR4302534.1951037/94‑1 (MQ=60)
                                                                                               GTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGCCCATCTTCATTG  >  SRR4302534.956408/1‑94 (MQ=60)
                                                                                               |                                                                                             
CCAATTCGCCCATTAAAACCGCGATAATCAAAGACCGACGATTTTTCAGTGTCGATTTTCGCTACCAGCCGACCATCCGTTTCAAACGG‑C‑GGGGTATCGGGCAGCAGAACGCCCGTCAGTTCATAGAGATCACCCAGTGAATCGCCAGAAAATTTAAGCCGTAAATCGACACCGCCCATCTTCATTG  >  NC_000913/3674983‑3675169

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 2 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑