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 1873 183.1 9376148 98.2% 9207377 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,510,121 +G intergenic (‑358/+151) yhfZ ← / ← trpS hypothetical protein/tryptophan tRNA synthetase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,510,1201.G95.2% 507.6 / 17.1 167intergenic (‑357/+152)yhfZ/trpShypothetical protein/tryptophan tRNA synthetase
Reads supporting (aligned to +/- strand):  ref base . (7/1);  new base G (100/59);  total (107/60)
Fisher's exact test for biased strand distribution p-value = 2.61e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01

Only 100 of 191 total aligned reads displayed.

AAGATAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑C‑GTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAG  >  NC_000913/3510028‑3510208
                                                                                                |                                                                                        
aaGATAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑c‑cc‑c                                                                                           >  1:3742307/1‑93 (MQ=255)
aaGATAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑c‑cc‑c                                                                                           <  2:617776/93‑1 (MQ=255)
 aGATAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAACAAACCGGGTTT‑C‑CC‑C‑g                                                                                         >  2:4659420/1‑93 (MQ=255)
 aGATAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑C‑g                                                                                         >  1:1445649/1‑93 (MQ=255)
  gATAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑C‑gg                                                                                        >  1:1631916/1‑92 (MQ=255)
  gATAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑C‑gg                                                                                        >  2:4043287/1‑92 (MQ=255)
   aTAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑C‑ggt                                                                                       <  1:4228466/93‑3 (MQ=255)
    tAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑C‑Ggtt                                                                                      >  2:1333739/1‑93 (MQ=255)
      aGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑C‑Ggtttg                                                                                    >  1:2852224/1‑91 (MQ=255)
      aGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑C‑Ggtttc                                                                                    >  1:4613694/1‑91 (MQ=255)
      aGGAGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑C‑Ggtttc                                                                                    >  2:1257017/1‑91 (MQ=255)
          gcAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCagag                                                                                 <  1:4321652/93‑1 (MQ=255)
           cAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGt                                                                                <  2:435376/93‑1 (MQ=255)
            gaCAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGtg                                                                               >  1:4422301/2‑93 (MQ=255)
            aaCAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGtg                                                                               >  1:3429429/1‑93 (MQ=255)
             aCAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑CTCC‑G‑GTTTCAGAGtga                                                                              >  1:3287407/1‑93 (MQ=255)
             aCAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGtga                                                                              <  1:1278796/93‑1 (MQ=255)
             aCAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGgga                                                                              >  2:416836/1‑93 (MQ=255)
              cAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGtgat                                                                             >  1:1411761/1‑93 (MQ=255)
                gCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGtgatga                                                                           <  1:1877460/93‑1 (MQ=255)
                  gagaTGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATa                                                                         <  2:3814235/93‑1 (MQ=255)
                   agaTGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATaa                                                                        <  2:2673514/93‑1 (MQ=255)
                    gaTGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATaaa                                                                       <  1:4047184/93‑1 (MQ=255)
                     aTGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATaaaa                                                                      <  2:3549905/93‑1 (MQ=255)
                        tgGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCa                                                                   <  1:774831/93‑1 (MQ=255)
                         ggAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCaa                                                                  <  2:2927728/93‑1 (MQ=255)
                          gAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGATTCAGAGTGATGATAAAAGCaaa                                                                 >  2:4027123/1‑93 (MQ=255)
                            aaCGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAAt                                                               <  2:4254318/93‑1 (MQ=255)
                             aCGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCC‑CC‑C‑GTTTCAGAGTGATGATAAAAGCAAAAtt                                                              >  2:3671780/1‑93 (MQ=255)
                             aCGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAAtt                                                              <  2:794854/93‑1 (MQ=255)
                                  gAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTg                                                         >  2:2558014/1‑93 (MQ=255)
                                  gAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTg                                                         <  2:2524285/93‑1 (MQ=255)
                                  gAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTg                                                         >  2:2471470/1‑93 (MQ=255)
                                      cACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATgc                                                     <  2:4415750/93‑1 (MQ=255)
                                        cTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CCAG‑GTTTCAGAGTGATGATAAAAGCAAAGTTGCCTGATgcgc                                                   >  2:2002918/1‑93 (MQ=255)
                                        cTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATgcgc                                                   >  2:3239490/1‑93 (MQ=255)
                                        cTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATgcgc                                                   >  1:541905/1‑93 (MQ=255)
                                         ttCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCt                                                  >  1:2508329/1‑93 (MQ=255)
                                         ttCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCt                                                  >  1:747369/1‑93 (MQ=255)
                                         ttCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCt                                                  >  1:3895652/1‑93 (MQ=255)
                                          tCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTa                                                 >  1:1790488/1‑93 (MQ=255)
                                          tCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTa                                                 >  2:278014/1‑93 (MQ=255)
                                           cacaTTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTAc                                                >  2:68842/1‑93 (MQ=255)
                                           cacaTTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTAc                                                >  2:2117913/1‑93 (MQ=255)
                                           cacaTTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTAc                                                >  2:1576076/1‑93 (MQ=255)
                                            acaTTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACg                                               >  1:106809/1‑93 (MQ=255)
                                            acaTTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACg                                               >  2:4683950/1‑93 (MQ=255)
                                             caTTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGc                                              <  1:3552897/93‑1 (MQ=255)
                                             caTTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGc                                              >  2:44125/1‑93 (MQ=255)
                                              aTTTTTTCGGATTATTGCAAATGGGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCt                                             >  2:3779875/1‑93 (MQ=255)
                                               ttttttCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCtt                                            >  2:1957525/1‑93 (MQ=255)
                                                  tttCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATc                                         <  1:20596/93‑1 (MQ=255)
                                                   ttCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCa                                        >  1:2143010/1‑93 (MQ=255)
                                                    tCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAg                                       <  1:4247933/93‑1 (MQ=255)
                                                    tCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAAATGCCTGATGCGCTACGCTTATCAg                                       <  1:2667971/93‑1 (MQ=255)
                                                     cGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAgg                                      >  1:1951852/1‑93 (MQ=255)
                                                     cGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAgg                                      >  1:1081741/1‑93 (MQ=255)
                                                     cGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAgg                                      >  2:5951/1‑93 (MQ=255)
                                                      ggATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGc                                     <  1:3906397/93‑1 (MQ=255)
                                                      ggATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGGTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGc                                     >  2:1428463/1‑93 (MQ=255)
                                                        attattGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGACt                                   >  2:361344/1‑93 (MQ=255)
                                                         ttattGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTa                                  >  1:3146185/1‑93 (MQ=255)
                                                          tattGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTAc                                 <  2:1031564/93‑1 (MQ=255)
                                                          tattGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTAc                                 >  1:3806934/1‑93 (MQ=255)
                                                          tattGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTAc                                 >  1:610204/1‑93 (MQ=255)
                                                           attGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACa                                <  1:2287327/93‑1 (MQ=255)
                                                           attGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACa                                <  2:3389311/93‑1 (MQ=255)
                                                            ttGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACAt                               >  1:4584983/1‑93 (MQ=255)
                                                             tGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACAtt                              >  1:3413983/1‑93 (MQ=255)
                                                                aaaTGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTcc                           >  2:4341269/1‑93 (MQ=255)
                                                                aaaTGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTcc                           >  1:3716592/1‑93 (MQ=255)
                                                                 aaTGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCt                          >  2:3049669/1‑93 (MQ=255)
                                                                  aTGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCtt                         >  1:2365320/1‑93 (MQ=255)
                                                                  aTGAGGATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCtt                         <  2:4673556/93‑1 (MQ=255)
                                                                      ggATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCaa                     >  2:86089/1‑93 (MQ=255)
                                                                      ggATAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCaa                     >  1:3045298/1‑93 (MQ=255)
                                                                        aTAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAata                   >  2:3753189/1‑93 (MQ=255)
                                                                         tAAAAAAACCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAatat                  >  1:1230396/1‑93 (MQ=255)
                                                                            aaaaaCCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATAtgtg               >  1:4483320/1‑93 (MQ=255)
                                                                              aaaCCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCa             >  2:1805349/1‑93 (MQ=255)
                                                                               aaCCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCGTTGCAATATGTGCAt            >  2:3277061/1‑93 (MQ=255)
                                                                               aaCCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCAt            <  2:1148756/93‑1 (MQ=255)
                                                                               aaCCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCAt            <  1:931127/93‑1 (MQ=255)
                                                                               aaCCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCAt            >  1:2191597/1‑93 (MQ=255)
                                                                               aaCCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCAt            <  1:4287201/93‑1 (MQ=255)
                                                                               aaCCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCAt            >  2:525635/1‑93 (MQ=255)
                                                                               aaCCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCAt            >  2:2094649/1‑93 (MQ=255)
                                                                                aCCGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCAtt           >  1:2177271/1‑93 (MQ=255)
                                                                                  cGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTAc         >  2:1055068/1‑93 (MQ=255)
                                                                                  cGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTAc         <  1:811268/93‑1 (MQ=255)
                                                                                  cGGGTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTAc         <  1:27738/93‑1 (MQ=255)
                                                                                  cGGGTTT‑C‑CC‑CGGTTTCAGAGTGAGGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTAc         <  2:1190789/93‑1 (MQ=255)
                                                                                    ggTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCCTGGCTACATTTCCTTGCAATATGTGCATTACtt       >  1:4036682/1‑93 (MQ=37)
                                                                                    ggTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACtt       >  2:4084694/1‑93 (MQ=255)
                                                                                    ggTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACtt       <  2:1463836/93‑1 (MQ=255)
                                                                                    ggTTT‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACtt       >  2:1859811/1‑93 (MQ=255)
                                                                                      ttt‑C‑CC‑CGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTCTg     >  2:389285/1‑93 (MQ=255)
                                                                                        tcc‑cc‑g‑GTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTa   <  2:4617614/91‑1 (MQ=255)
                                                                                        tcc‑cc‑g‑GTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTa   <  2:3371697/91‑1 (MQ=255)
                                                                                         cc‑cc‑g‑GTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAg  <  2:1599537/92‑1 (MQ=255)
                                                                                                |                                                                                        
AAGATAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTT‑C‑CC‑C‑GTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAG  >  NC_000913/3510028‑3510208

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
AAGATAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCC‑GTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGG  >  NC_000913/3510028‑3510213
                                                                                               |                                                                                            
AAGATAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCC‑G                                                                                              >  SRR4302535.1455988/1‑94 (MQ=60)
 AGATAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCC‑GG                                                                                             >  SRR4302535.1643707/1‑94 (MQ=60)
 AGATAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCC‑GG                                                                                             >  SRR4302535.3024034/1‑94 (MQ=60)
  GATAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCC‑GGT                                                                                            >  SRR4302535.3709830/1‑94 (MQ=60)
  GATAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCC‑GGT                                                                                            >  SRR4302535.1283375/1‑94 (MQ=60)
   ATAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCC‑GGTT                                                                                           <  SRR4302535.4257404/94‑1 (MQ=60)
    TAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTT                                                                                           <  SRR4302535.2244294/94‑1 (MQ=60)
    TAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTT                                                                                           >  SRR4302535.219567/1‑94 (MQ=60)
     AAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTC                                                                                          >  SRR4302535.4645040/1‑94 (MQ=60)
     AAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCC‑Ggtttg                                                                                         >  SRR4302535.2872431/1‑89 (MQ=60)
          GCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGT                                                                                     <  SRR4302535.4351215/94‑1 (MQ=60)
           CGACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTG                                                                                    >  SRR4302535.4452587/1‑94 (MQ=60)
           CAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTG                                                                                    >  SRR4302535.3453266/1‑94 (MQ=60)
            AACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCTCCG‑GTTTCAGAGTGA                                                                                   >  SRR4302535.3310262/1‑94 (MQ=60)
             ACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGAT                                                                                  >  SRR4302535.1421839/1‑94 (MQ=60)
             ACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGAT                                                                                  <  SRR4302535.1287928/94‑1 (MQ=60)
              CAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATG                                                                                 <  SRR4302535.678123/94‑1 (MQ=60)
                GCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGAT                                                                               <  SRR4302535.1890985/94‑1 (MQ=60)
                GCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGAT                                                                               <  SRR4302535.1851644/94‑1 (MQ=60)
                  GAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAA                                                                             >  SRR4302535.1600363/1‑94 (MQ=60)
                    GATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAA                                                                           <  SRR4302535.4074889/94‑1 (MQ=60)
                      TGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGC                                                                         >  SRR4302535.1941203/1‑94 (MQ=60)
                      TGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGC                                                                         >  SRR4302535.3832606/1‑94 (MQ=60)
                        TGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAA                                                                       <  SRR4302535.780280/94‑1 (MQ=60)
                           AAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAAT                                                                    <  SRR4302535.3526963/94‑1 (MQ=60)
                           AAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAAT                                                                    <  SRR4302535.2801554/94‑1 (MQ=60)
                              CGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGC                                                                 <  SRR4302535.3833588/94‑1 (MQ=60)
                                   AGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGAT                                                            <  SRR4302535.3924496/94‑1 (MQ=60)
                                      CACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCG                                                         >  SRR4302535.4522464/1‑94 (MQ=60)
                                       ACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGC                                                        >  SRR4302535.545691/1‑94 (MQ=60)
                                        CTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCT                                                       >  SRR4302535.3922349/1‑94 (MQ=60)
                                        CTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCT                                                       >  SRR4302535.374339/1‑94 (MQ=60)
                                        CTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCT                                                       >  SRR4302535.2526411/1‑94 (MQ=60)
                                        CTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCT                                                       >  SRR4302535.752627/1‑94 (MQ=60)
                                         TTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTA                                                      >  SRR4302535.2040396/1‑94 (MQ=60)
                                         TTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTA                                                      >  SRR4302535.1803436/1‑94 (MQ=60)
                                           CACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACG                                                    >  SRR4302535.107566/1‑94 (MQ=60)
                                             CATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCT                                                  <  SRR4302535.3577552/94‑1 (MQ=60)
                                                 TTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATC                                              >  SRR4302535.762174/1‑94 (MQ=60)
                                                  TTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCA                                             >  SRR4302535.2158427/1‑94 (MQ=60)
                                                  TTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCA                                             <  SRR4302535.20750/94‑1 (MQ=60)
                                                    TCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGG                                           <  SRR4302535.4277026/94‑1 (MQ=60)
                                                    TCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGG                                           >  SRR4302535.1089432/1‑94 (MQ=60)
                                                    TCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGG                                           <  SRR4302535.4082408/94‑1 (MQ=60)
                                                    TCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGG                                           >  SRR4302535.1965899/1‑94 (MQ=60)
                                                    TCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAAATGCCTGATGCGCTACGCTTATCAGG                                           <  SRR4302535.2687067/94‑1 (MQ=60)
                                                     CGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGC                                          >  SRR4302535.4298865/1‑94 (MQ=60)
                                                      GGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCC                                         <  SRR4302535.3933161/94‑1 (MQ=60)
                                                       GATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCT                                        <  SRR4302535.4343681/94‑1 (MQ=60)
                                                        ATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTA                                       >  SRR4302535.3168063/1‑94 (MQ=60)
                                                        ATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTA                                       >  SRR4302535.3098358/1‑94 (MQ=60)
                                                        ATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTA                                       >  SRR4302535.2350279/1‑94 (MQ=60)
                                                         TTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTAC                                      >  SRR4302535.614455/1‑94 (MQ=60)
                                                         TTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTAC                                      >  SRR4302535.3833183/1‑94 (MQ=60)
                                                           ATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACAT                                    >  SRR4302535.2151374/1‑94 (MQ=60)
                                                           ATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACAT                                    >  SRR4302535.4616204/1‑94 (MQ=60)
                                                           ATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACAT                                    <  SRR4302535.2303668/94‑1 (MQ=60)
                                                            TTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATT                                   >  SRR4302535.3437734/1‑94 (MQ=60)
                                                             TGCAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTT                                  <  SRR4302535.2780686/94‑1 (MQ=60)
                                                               CAAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCC                                >  SRR4302535.3742342/1‑94 (MQ=60)
                                                                AAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCT                               <  SRR4302535.3445603/94‑1 (MQ=60)
                                                                AAATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCT                               >  SRR4302535.4011058/1‑94 (MQ=60)
                                                                 AATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTT                              >  SRR4302535.2382300/1‑94 (MQ=60)
                                                                 AATGAGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTT                              >  SRR4302535.4398162/1‑94 (MQ=60)
                                                                     AGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAA                          >  SRR4302535.1685467/1‑94 (MQ=60)
                                                                     AGGATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAA                          >  SRR4302535.3066630/1‑94 (MQ=60)
                                                                        ATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATAT                       >  SRR4302535.1239191/1‑94 (MQ=60)
                                                                        ATAAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATAT                       <  SRR4302535.451297/94‑1 (MQ=60)
                                                                          AAAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGT                     >  SRR4302535.3195884/1‑94 (MQ=60)
                                                                           AAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTG                    >  SRR4302535.4514088/1‑94 (MQ=60)
                                                                           AAAAAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTG                    <  SRR4302535.4617484/94‑1 (MQ=60)
                                                                              AAACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCAT                 >  SRR4302535.2207193/1‑94 (MQ=60)
                                                                               AACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATT                <  SRR4302535.937712/94‑1 (MQ=60)
                                                                               AACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATT                <  SRR4302535.4316529/94‑1 (MQ=60)
                                                                               AACCGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATT                >  SRR4302535.2192827/1‑94 (MQ=60)
                                                                                  CGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACT             >  SRR4302535.2617382/1‑94 (MQ=60)
                                                                                  CGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACT             <  SRR4302535.27959/94‑1 (MQ=60)
                                                                                  CGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACT             <  SRR4302535.816941/94‑1 (MQ=60)
                                                                                  CGGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACT             <  SRR4302535.4074526/94‑1 (MQ=60)
                                                                                   GGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCCTGGCTACATTTCCTTGCAATATGTGCATTACTT            >  SRR4302535.4064313/1‑94 (MQ=60)
                                                                                   GGGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTT            >  SRR4302535.999517/1‑94 (MQ=60)
                                                                                    GGTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTT           >  SRR4302535.1447559/1‑94 (MQ=60)
                                                                                     GTTTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTG          <  SRR4302535.2488832/94‑1 (MQ=60)
                                                                                       TTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTA        <  SRR4302535.547822/94‑1 (MQ=60)
                                                                                       TTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTA        >  SRR4302535.1148011/1‑94 (MQ=60)
                                                                                       TTC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTA        <  SRR4302535.890138/94‑1 (MQ=60)
                                                                                        TC‑CCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAG       <  SRR4302535.1372665/94‑1 (MQ=60)
                                                                                         C‑CCG‑GTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGC     >  SRR4302535.4575864/1‑94 (MQ=60)
                                                                                           CCG‑GTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCC    <  SRR4302535.4217173/94‑1 (MQ=60)
                                                                                            CG‑GTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCG   >  SRR4302535.1574443/1‑94 (MQ=60)
                                                                                            CG‑GTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCG   >  SRR4302535.3029147/1‑94 (MQ=60)
                                                                                            CG‑GTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCG   <  SRR4302535.2585704/94‑1 (MQ=60)
                                                                                             G‑GTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGG  >  SRR4302535.854755/1‑94 (MQ=60)
                                                                                               |                                                                                            
AAGATAAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTC‑CCC‑GTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGG  >  NC_000913/3510028‑3510213

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑