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 I1 R1 521 238.2 12299412 96.0% 11807435 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,166,935 2 bp→CG coding (312‑313/483 nt) b3023 ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,166,9350GC99.1% 783.3 / NA 221L105V (CTT→GTT) b3023hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  major base C (97/121);  minor base A (2/0);  total (99/122)
Fisher's exact test for biased strand distribution p-value = 2.01e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
*NC_0009133,166,9360CG99.6% 788.1 / ‑4.8 221Q104H (CAG→CAC) b3023hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (0/1);  new base G (99/121);  total (99/122)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.66e-01

Only 100 of 227 total aligned reads displayed.

TGCTTTACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAAGCTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACGCTGC  >  NC_000913/3166849‑3167021
                                                                                      ||                                                                                     
 gCTTTACGCATTTTCTCGCCTCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCgg                                                                                 <  1:2042002/93‑1 (MQ=255)
 gCTTTACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCgg                                                                                 >  2:3827515/1‑93 (MQ=255)
 gCTTTACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCgg                                                                                 >  2:84911/1‑93 (MQ=255)
  cTTTACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCggg                                                                                <  2:5726422/93‑1 (MQ=255)
   tttACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGc                                                                               >  2:1749153/1‑93 (MQ=255)
   tttACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGc                                                                               >  2:2534165/1‑93 (MQ=255)
   tttACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGc                                                                               >  2:221279/1‑93 (MQ=255)
     tACGCTTTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCa                                                                             <  2:4163586/93‑1 (MQ=255)
      aCGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGcccc                                                                            >  2:1664854/1‑91 (MQ=255)
        gCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACgg                                                                          <  2:4057975/93‑1 (MQ=255)
          aTTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCa                                                                        >  1:5335372/1‑93 (MQ=255)
          aTTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCa                                                                        >  2:3021394/1‑93 (MQ=255)
           ttttCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGGCACGGCAt                                                                       >  1:2622222/1‑93 (MQ=255)
            tttCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATa                                                                      >  2:4557723/1‑93 (MQ=255)
            tttCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGGGGCGGGCCACGGCATa                                                                      >  2:1463444/1‑93 (MQ=255)
              tctcGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAAc                                                                    <  2:4209910/93‑1 (MQ=255)
                 cgccgcTTGCAGGGAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTc                                                                 <  1:1566973/93‑1 (MQ=255)
                 cgccgcTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTc                                                                 >  2:3394132/1‑93 (MQ=255)
                    cgcTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTTGCTAACGTGGCGGGCCACGGCATAACGTCCAc                                                              >  1:5643537/1‑93 (MQ=255)
                    cgcTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCAc                                                              <  2:264512/93‑1 (MQ=255)
                     gcTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGGCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCAcc                                                             >  2:4285045/1‑93 (MQ=255)
                      cTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCg                                                            <  2:298262/93‑1 (MQ=255)
                        tGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACTGGt                                                          <  2:542350/93‑1 (MQ=255)
                         gcaggcagCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTa                                                         <  2:5634740/93‑1 (MQ=255)
                          caggcagCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTaa                                                        <  1:1058811/93‑1 (MQ=255)
                                  cAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCa                                                >  2:3441428/1‑93 (MQ=255)
                                  cAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCa                                                <  2:3104223/93‑1 (MQ=255)
                                  cAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCa                                                <  2:3905702/93‑1 (MQ=255)
                                   cgTGGCGAATGATGCCCCATGCCGTGTGTGAAATCTCGTCCAGCTCGCCACCGTGGCGGGCCACGGCCTACCGTCCACCGGTAAGTTCACCAt                                               <  2:5495227/92‑1 (MQ=255)
                                   aGTGGCGAATGATGCGCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCAt                                               >  2:5994658/1‑93 (MQ=255)
                                   aGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCAt                                               >  1:5508038/1‑93 (MQ=255)
                                   aGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCAt                                               <  2:646489/93‑1 (MQ=255)
                                   aGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCAt                                               >  2:5234897/1‑93 (MQ=255)
                                    gTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCCCGGCATAACGTCCACCCGTAAGTTCCCCAtt                                              >  1:83908/1‑93 (MQ=255)
                                    gTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCAtt                                              >  1:2059763/1‑93 (MQ=255)
                                     tGGCGAATGACGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTg                                             >  1:2335820/1‑93 (MQ=255)
                                         gAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGATACGGCATAACGTCCACCGGTAAGTTCACCATTGCTca                                         >  2:4396012/1‑93 (MQ=255)
                                            tgatgCCCCATTCCTTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCCCCGGTAAGTTCACCATTGCTCacac                                      <  1:352172/93‑1 (MQ=255)
                                             gatgCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACAcc                                     >  2:6082912/1‑93 (MQ=255)
                                              atgCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCa                                    >  2:4657229/1‑93 (MQ=255)
                                               tgCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCAt                                   <  2:1545772/93‑1 (MQ=255)
                                               tgCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCAt                                   <  1:3547960/93‑1 (MQ=255)
                                               tgCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCAt                                   <  1:2210589/93‑1 (MQ=255)
                                               tgCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCAt                                   <  2:1006223/93‑1 (MQ=255)
                                                 ccccATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATaa                                 <  2:4698567/93‑1 (MQ=255)
                                                  gcaaTACCGTGTGAGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAAc                                <  2:4871583/90‑1 (MQ=255)
                                                  cccATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAAc                                <  2:2950566/93‑1 (MQ=255)
                                                  cccATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAAc                                >  2:2736967/1‑93 (MQ=255)
                                                   ccATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACg                               >  2:1364154/1‑93 (MQ=255)
                                                   ccATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACg                               >  1:543398/1‑93 (MQ=255)
                                                    cATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGa                              >  1:1363177/1‑93 (MQ=255)
                                                    cATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGa                              >  1:4659828/1‑93 (MQ=255)
                                                    cATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGa                              <  2:2566426/93‑1 (MQ=255)
                                                    cATACCGTGTGTGAAAGATCGTCCAGCTCGCCAACGTGGCGGGACACGGCATAACGTCCAGCGGTAAGTTCACCATTGCTCACACCATAACGa                              <  2:2492350/93‑1 (MQ=255)
                                                     aTACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGAt                             >  1:1193796/1‑93 (MQ=255)
                                                     aTACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACAGGTAAGTTCACCATTGCTCACACCATAACGAt                             >  1:2231041/1‑93 (MQ=255)
                                                      tACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGAtt                            <  2:5875756/93‑1 (MQ=255)
                                                       aCCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTa                           <  1:2836812/93‑1 (MQ=255)
                                                       aCCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTa                           <  1:4480027/93‑1 (MQ=255)
                                                        ccGTGGTTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTAt                          <  2:2086772/93‑1 (MQ=255)
                                                          gtgtgtGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCg                        >  1:3026452/1‑93 (MQ=255)
                                                          gtgtgtGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCg                        <  1:4693578/93‑1 (MQ=255)
                                                           tgtgtgAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCgg                       <  1:4015777/93‑1 (MQ=255)
                                                           tgtgtgAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACAGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCgg                       <  2:2330606/93‑1 (MQ=255)
                                                            gtgtgAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCggg                      <  2:2364135/93‑1 (MQ=255)
                                                            gtgtgAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCggg                      >  2:817753/1‑93 (MQ=255)
                                                              gtgAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGaa                    >  2:3680413/1‑93 (MQ=255)
                                                              gtgAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGaa                    <  2:936725/93‑1 (MQ=255)
                                                               tgAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAAt                   <  2:2006448/93‑1 (MQ=255)
                                                               tgAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAAt                   <  2:1855850/93‑1 (MQ=255)
                                                                gAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATc                  >  1:3458568/1‑93 (MQ=255)
                                                                gAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATc                  <  1:2221374/93‑1 (MQ=255)
                                                                gAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATc                  >  1:3674606/1‑93 (MQ=255)
                                                                 aaaTATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCg                 <  1:2104777/93‑1 (MQ=255)
                                                                 aaaTATCGTCCAGCTCGCCAA‑CGTGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCgg                <  1:76068/93‑1 (MQ=255)
                                                                   atatCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGt               >  2:1071575/1‑93 (MQ=255)
                                                                    tatCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGtt              <  2:1221098/93‑1 (MQ=255)
                                                                    tatCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGtt              <  1:3728140/93‑1 (MQ=255)
                                                                    tatCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGtt              <  1:4247416/93‑1 (MQ=255)
                                                                     atCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTc             >  1:1087592/1‑93 (MQ=255)
                                                                     atCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTc             >  1:4052199/1‑93 (MQ=255)
                                                                     atCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTc             <  1:5930571/93‑1 (MQ=255)
                                                                      tCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCg            >  1:3116331/1‑93 (MQ=255)
                                                                       tgTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGc           <  1:5677879/92‑1 (MQ=255)
                                                                       cGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGc           <  2:5465344/93‑1 (MQ=255)
                                                                       cGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGc           >  1:4870063/1‑93 (MQ=255)
                                                                        ctCCAGCGCCCCAACGGGGCGGGCCACGGCATAACGTCCACCGGTAAATTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCt          <  1:4779488/92‑1 (MQ=255)
                                                                         tCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTa         >  1:4942198/1‑93 (MQ=255)
                                                                          ccAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTaa        <  1:336593/93‑1 (MQ=255)
                                                                          ccAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTaa        <  2:2847709/93‑1 (MQ=255)
                                                                          ccAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTaa        <  1:6117109/93‑1 (MQ=255)
                                                                           cAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAAc       >  1:4115714/1‑93 (MQ=255)
                                                                           cAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAAc       <  1:721706/93‑1 (MQ=255)
                                                                           cAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAAc       <  1:2574603/93‑1 (MQ=255)
                                                                            aGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACg      <  1:3884127/93‑1 (MQ=255)
                                                                             gCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACGc     >  2:2794574/1‑93 (MQ=255)
                                                                             gCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACGc     >  1:311355/1‑93 (MQ=255)
                                                                             gCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACGc     <  1:319358/93‑1 (MQ=255)
                                                                              cTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACGCt    <  2:4776631/93‑1 (MQ=255)
                                                                               tCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACGCTg   >  2:5375205/1‑93 (MQ=255)
                                                                                      ||                                                                                     
TGCTTTACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAAGCTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACGCTGC  >  NC_000913/3166849‑3167021

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
GAATCGGTGCTTTACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAAGCTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACGCTGCCG  >  NC_000913/3166842‑3167023
                                                                                             |                                                                                        
GAATCGGTGCTTTACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAAC                                                                                          <  SRR4302532.75789/94‑1 (MQ=60)
GAATCGGTGCTTTACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAAC                                                                                          >  SRR4302532.236190/1‑94 (MQ=60)
     GGTGCTTTACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGC                                                                                     <  SRR4302532.1884130/94‑1 (MQ=60)
      GTGCTTTACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCG                                                                                    <  SRR4302532.3796114/94‑1 (MQ=60)
       TGCTTTACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGG                                                                                   >  SRR4302532.757907/1‑94 (MQ=60)
       TGCTTTACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGG                                                                                   >  SRR4302532.5584563/1‑94 (MQ=60)
       TGCTTTACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGG                                                                                   <  SRR4302532.3674533/94‑1 (MQ=60)
       TGCTTTACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGG                                                                                   <  SRR4302532.4875213/94‑1 (MQ=60)
        GCTTTACGCATTTTCTCGCCTCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGG                                                                                  <  SRR4302532.2110011/94‑1 (MQ=60)
        GCTTTACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGG                                                                                  <  SRR4302532.2804328/94‑1 (MQ=60)
        GCTTTACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGG                                                                                  <  SRR4302532.5363084/94‑1 (MQ=60)
        GCTTTACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGG                                                                                  >  SRR4302532.4046515/1‑94 (MQ=60)
           TTCCGCATTTCCTCGCCGCTTGCAGGCAGCCAGGGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCA                                                                               <  SRR4302532.1588330/94‑1 (MQ=60)
           TTACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCA                                                                               >  SRR4302532.1121368/1‑94 (MQ=60)
             TCGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACG                                                                             <  SRR4302532.2697014/94‑1 (MQ=60)
                CATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCA                                                                          >  SRR4302532.5520405/1‑94 (MQ=60)
                 ATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGGCACGGCAT                                                                         >  SRR4302532.2710021/1‑94 (MQ=60)
                  TTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATA                                                                        >  SRR4302532.2116520/1‑94 (MQ=60)
                    TTCTCGCGGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTTTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAAC                                                                      <  SRR4302532.2833795/94‑1 (MQ=60)
                    TTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAAC                                                                      <  SRR4302532.4179075/94‑1 (MQ=60)
                        CGCCGCTTGCAGGGAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCC                                                                  <  SRR4302532.1619997/94‑1 (MQ=60)
                        CGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCC                                                                  <  SRR4302532.5000542/94‑1 (MQ=60)
                         GCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCA                                                                 <  SRR4302532.49514/94‑1 (MQ=60)
                          CCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTTGCTAACGTGGCGGGCCACGGCATAACGTCCAC                                                                >  SRR4302532.5839765/1‑94 (MQ=60)
                            GCTTGCAGTCAGCCAGTGGCGAATGATGCCTCATCCCGTGTGTGAAATATCGTCCAGCTCGCCAGCGTGGCGGGCCACGGCATAACGTCCGCCG                                                              <  SRR4302532.2479390/94‑1 (MQ=60)
                            GCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCcatgcctaagcgccaccg                                                              >  SRR4302532.3774087/1‑76 (MQ=60)
                            GCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCG                                                              >  SRR4302532.5101490/1‑94 (MQ=60)
                              TTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGT                                                            <  SRR4302532.293530/94‑1 (MQ=60)
                               TGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAAAGTGGCGGGCCACGGCATAACGgcaaccggga                                                           >  SRR4302532.3150516/1‑84 (MQ=60)
                                 CAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAG                                                         <  SRR4302532.1094492/94‑1 (MQ=60)
                                      AGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCAC                                                    >  SRR4302532.2164975/1‑94 (MQ=60)
                                         CAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCAT                                                 >  SRR4302532.5699113/1‑94 (MQ=60)
                                          AGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCCCGGCATAACGTCCACCCGTAAGTTCCCCATT                                                >  SRR4302532.86879/1‑94 (MQ=60)
                                          AGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATT                                                >  SRR4302532.2128367/1‑94 (MQ=60)
                                           GTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGTCATAACGTCCACCGGTAAGTTCACCATTG                                               <  SRR4302532.115938/94‑1 (MQ=60)
                                           GTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTG                                               >  SRR4302532.3607087/1‑94 (MQ=60)
                                           GTGGCGAATGACGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTG                                               >  SRR4302532.2413633/1‑94 (MQ=60)
                                            TGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGC                                              <  SRR4302532.800488/94‑1 (MQ=60)
                                                GAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCAC                                          <  SRR4302532.2341202/94‑1 (MQ=60)
                                                GAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCAC                                          <  SRR4302532.4147422/94‑1 (MQ=60)
                                                GAATGATGCCCCATACCGTGTGTCAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCAC                                          <  SRR4302532.3648768/94‑1 (MQ=60)
                                                 AATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACA                                         >  SRR4302532.1502572/1‑94 (MQ=60)
                                                 AATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACA                                         >  SRR4302532.6036227/1‑94 (MQ=60)
                                                 AATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACA                                         >  SRR4302532.6211114/1‑94 (MQ=60)
                                                   TGATGCCCCATTCCTTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCCCCGGTAAGTTCACCATTGCTCACACC                                       <  SRR4302532.364365/94‑1 (MQ=60)
                                                    GATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCA                                      >  SRR4302532.5807276/1‑94 (MQ=60)
                                                      TGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATA                                    <  SRR4302532.2284047/94‑1 (MQ=60)
                                                      TGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATA                                    <  SRR4302532.3666676/94‑1 (MQ=60)
                                                      TGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATA                                    <  SRR4302532.686569/94‑1 (MQ=60)
                                                       GCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAA                                   <  SRR4302532.474059/94‑1 (MQ=60)
                                                       GCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAA                                   <  SRR4302532.383700/94‑1 (MQ=60)
                                                        CCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAAC                                  <  SRR4302532.1636164/94‑1 (MQ=60)
                                                         CCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACG                                 >  SRR4302532.562332/1‑94 (MQ=60)
                                                          CCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGA                                >  SRR4302532.2524254/1‑94 (MQ=60)
                                                          CCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGA                                >  SRR4302532.1408840/1‑94 (MQ=60)
                                                          CCATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGA                                >  SRR4302532.4818691/1‑94 (MQ=60)
                                                           CATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGAT                               >  SRR4302532.3460387/1‑94 (MQ=60)
                                                           CATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGAT                               >  SRR4302532.1233707/1‑94 (MQ=60)
                                                           CATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACAGGTAAGTTCACCATTGCTCACACCATAACGAT                               >  SRR4302532.2305081/1‑94 (MQ=60)
                                                            ATACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATT                              >  SRR4302532.832469/1‑94 (MQ=60)
                                                              atttttTGTGAAATATCTTCCAGCTCGCCAACGTGGCGGGCCACGGCATATCGTCCACCGGTAAGTTCACCATTTCTCACACCATAACGATTAT                            >  SRR4302532.5681742/7‑94 (MQ=60)
                                                              ACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACCCCATAACGATTAT                            <  SRR4302532.1399290/94‑1 (MQ=60)
                                                              ACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTAT                            <  SRR4302532.4632873/94‑1 (MQ=60)
                                                              ACCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTAT                            <  SRR4302532.2931648/94‑1 (MQ=60)
                                                               CCGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATC                           <  SRR4302532.6031166/94‑1 (MQ=60)
                                                                CGTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCG                          >  SRR4302532.3126291/1‑94 (MQ=60)
                                                                 GTGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGG                         <  SRR4302532.4853659/94‑1 (MQ=60)
                                                                  TGTGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGG                        <  SRR4302532.4151096/94‑1 (MQ=60)
                                                                    TGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAA                      <  SRR4302532.379590/94‑1 (MQ=60)
                                                                    TGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAA                      <  SRR4302532.2295255/94‑1 (MQ=60)
                                                                    TGTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAA                      <  SRR4302532.1010537/94‑1 (MQ=60)
                                                                     GTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAAT                     <  SRR4302532.2273826/94‑1 (MQ=60)
                                                                     GTGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCAACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAAT                     <  SRR4302532.2286619/94‑1 (MQ=60)
                                                                      TGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATC                    >  SRR4302532.3798041/1‑94 (MQ=60)
                                                                      TGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATC                    <  SRR4302532.4819205/94‑1 (MQ=60)
                                                                      TGAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATC                    >  SRR4302532.3574399/1‑94 (MQ=60)
                                                                       GAAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCG                   <  SRR4302532.2295123/94‑1 (MQ=60)
                                                                        AAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGG                  <  SRR4302532.2175023/94‑1 (MQ=60)
                                                                        AAATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGG                  <  SRR4302532.2962408/94‑1 (MQ=60)
                                                                        AAATATCGTCCAGCTCGCCAA‑CGTGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGT                 <  SRR4302532.78787/94‑1 (MQ=60)
                                                                          ATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTT                >  SRR4302532.4277293/1‑94 (MQ=60)
                                                                          ATATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGGCCACCGGTAAGTTAACCATTGCTCACACCATAACGATTATCTGGATTCGGTT                >  SRR4302532.4066957/1‑94 (MQ=60)
                                                                          ATATCGCCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTT                <  SRR4302532.2491194/94‑1 (MQ=60)
                                                                           TATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTC               <  SRR4302532.4390124/94‑1 (MQ=60)
                                                                           TATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTC               >  SRR4302532.1124008/1‑94 (MQ=60)
                                                                           TATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTC               >  SRR4302532.4188528/1‑94 (MQ=60)
                                                                           TATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTC               <  SRR4302532.5641040/94‑1 (MQ=60)
                                                                           TATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTC               <  SRR4302532.3853372/94‑1 (MQ=60)
                                                                            ATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCG              <  SRR4302532.3423950/94‑1 (MQ=60)
                                                                            ATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCG              <  SRR4302532.6135869/94‑1 (MQ=60)
                                                                            ATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCG              >  SRR4302532.3219729/1‑94 (MQ=60)
                                                                            ATCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGAGAATCGGTTCG              >  SRR4302532.3219725/1‑94 (MQ=60)
                                                                             TCGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGC             >  SRR4302532.5037499/1‑94 (MQ=60)
                                                                              TGTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCT            <  SRR4302532.5876101/94‑1 (MQ=60)
                                                                               GTCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTA           >  SRR4302532.5111833/1‑94 (MQ=60)
                                                                                TCCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAA          <  SRR4302532.4200784/94‑1 (MQ=60)
                                                                                 CCAGCTCGCCACCGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAAC         <  SRR4302532.5655509/94‑1 (MQ=60)
                                                                                 CCAGCTCGCCAACGTGGCGGGCCTCGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAAC         <  SRR4302532.4446594/94‑1 (MQ=60)
                                                                                 CCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCCCCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAAC         <  SRR4302532.3258401/94‑1 (MQ=60)
                                                                                 CCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAAC         >  SRR4302532.4253855/1‑94 (MQ=60)
                                                                                 CCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAAC         <  SRR4302532.348248/94‑1 (MQ=60)
                                                                                 CCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAAC         <  SRR4302532.2200999/94‑1 (MQ=60)
                                                                                 CCAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAAC         <  SRR4302532.6328213/94‑1 (MQ=60)
                                                                                  CAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACG        <  SRR4302532.2660608/94‑1 (MQ=60)
                                                                                  CAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACG        <  SRR4302532.746334/94‑1 (MQ=60)
                                                                                  CAGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGGTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACG        >  SRR4302532.3485001/1‑94 (MQ=60)
                                                                                   AGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACGC       <  SRR4302532.4015205/94‑1 (MQ=60)
                                                                                   AGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACGC       >  SRR4302532.322154/1‑94 (MQ=60)
                                                                                   AGCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACGC       >  SRR4302532.4867759/1‑94 (MQ=60)
                                                                                    GCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACGCT      <  SRR4302532.3875370/94‑1 (MQ=60)
                                                                                    GCTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACGCT      <  SRR4302532.330445/94‑1 (MQ=60)
                                                                                     CTCGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACGCTG     >  SRR4302532.5841577/1‑94 (MQ=60)
                                                                                       CGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACGCTGCC   >  SRR4302532.3595661/1‑94 (MQ=60)
                                                                                       CGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACGCTGCC   >  SRR4302532.4406932/1‑94 (MQ=60)
                                                                                       CGCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACGCTGCC   <  SRR4302532.4415965/94‑1 (MQ=60)
                                                                                       CGCCAACGTGGCGGGCCACGGCATAACGTCCACCAGTAAGTTCccccttgctcctaccctctcgactaacgggactcggttccctaccggtgac   <  SRR4302532.3209223/94‑52 (MQ=52)
                                                                                        GCCAACGTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACGCTGCCG  >  SRR4302532.2955879/1‑94 (MQ=60)
                                                                                             |                                                                                        
GAATCGGTGCTTTACGCATTTTCTCGCCGCTTGCAGGCAGCCAGTGGCGAATGATGCCCCATACCGTGTGTGAAATATCGTCCAGCTCGCCAAGCTGGCGGGCCACGGCATAACGTCCACCGGTAAGTTCACCATTGCTCACACCATAACGATTATCGGGAATCGGTTCGCTAACGCTGCCG  >  NC_000913/3166842‑3167023

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 2 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑