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 647 270.1 21258240 98.4% 20918108 94.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,419,398 (T)7→6 coding (441/1107 nt) yhdY → putative transport system permease protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,419,3920T.98.9% 2103.8 / 10.4 470coding (435/1107 nt)yhdYputative transport system permease protein
Reads supporting (aligned to +/- strand):  ref base T (2/3);  new base . (202/263);  total (204/266)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.79e-01

Only 100 of 509 total aligned reads displayed.

AATGTTCTGGAAAATACTCCCGCATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGGTTTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCT  >  NC_000913/3419299‑3419481
                                                                                             |                                                                                         
      cTGGAAAATACTCCCGCATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCCCTGATTGTCTGGTGGCTGATGTATGGCGGttttttg                                                                                     >  2:10415815/1‑93 (MQ=255)
      cTGGAAAATACTCCCGCATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGGttttttg                                                                                     >  2:10137595/1‑93 (MQ=255)
        ggAAAATACTCCCGCATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGGtttttttct                                                                                   >  2:3887133/1‑92 (MQ=255)
          gaaaTACTCCCGCATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGctct                                                                                <  2:2558180/93‑1 (MQ=255)
          aaaaTACTCCCGCATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGctct                                                                                >  2:10523927/1‑94 (MQ=255)
             attcTCCCGGATCGCGGTCGCTTTTTTGCGGCCTGGGCGGGGATTTCCCCCCTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGa                                                                             <  2:3074229/91‑1 (MQ=255)
             aTACTCCCGCATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGa                                                                             <  2:231484/94‑1 (MQ=255)
              tACTCCCGCATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAg                                                                            <  2:9546517/94‑1 (MQ=255)
              tACTCCCGCATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAg                                                                            <  1:259877/94‑1 (MQ=255)
              tACTCCCGCATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAg                                                                            <  1:7927999/94‑1 (MQ=255)
               aCTCCCGCATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAgg                                                                           >  2:9061959/1‑93 (MQ=255)
                cTCCCGCATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCg                                                                          >  2:3234376/1‑94 (MQ=255)
                 tCCCGCATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCgg                                                                         <  2:1362657/94‑1 (MQ=255)
                 tCCCGCATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCgg                                                                         >  2:7026502/1‑94 (MQ=255)
                  cccGCATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCggg                                                                        >  2:5883021/1‑94 (MQ=255)
                  cccGCATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCggg                                                                        >  1:478117/1‑94 (MQ=255)
                   ccGCATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGt                                                                       >  2:6230418/1‑94 (MQ=255)
                    cGCATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGtt                                                                      <  1:2783355/94‑1 (MQ=255)
                    cGCATCGCGGGCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGATCGGGtt                                                                      >  1:5702571/1‑94 (MQ=255)
                      cATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGa                                                                    <  1:3280737/94‑1 (MQ=255)
                      cATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGa                                                                    >  2:1489470/1‑94 (MQ=255)
                       aTCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGaa                                                                   <  1:9061818/94‑1 (MQ=255)
                       aTCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGaa                                                                   >  2:7328277/1‑94 (MQ=255)
                       aTCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGaa                                                                   >  2:7147996/1‑94 (MQ=255)
                       aTCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGaa                                                                   >  2:8928740/1‑94 (MQ=255)
                       aTCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGaa                                                                   <  2:6387996/94‑1 (MQ=255)
                         cgcgGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAAc                                                                 >  2:4120531/1‑94 (MQ=255)
                          gcgGTCGCTCTATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAAcc                                                                >  1:5456944/1‑94 (MQ=255)
                            ggTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCg                                                              <  1:3932072/94‑1 (MQ=255)
                            ggTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCg                                                              <  2:1655885/94‑1 (MQ=255)
                             gTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCgg                                                             >  1:2278446/1‑94 (MQ=255)
                              tCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGc                                                            >  2:9818398/1‑94 (MQ=255)
                                 cTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAAt                                                         <  1:5203408/94‑1 (MQ=255)
                                 cTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAAt                                                         <  1:7178744/94‑1 (MQ=255)
                                 cTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAAt                                                         <  2:6875553/94‑1 (MQ=255)
                                 cTATATTGCGGCCTGGGCGGCGATTTAACCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGATTGAAACCCGGCAAt                                                         >  1:9563316/1‑94 (MQ=255)
                                  tataTTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATg                                                        >  2:8527497/1‑94 (MQ=255)
                                  tataTTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATg                                                        >  1:4590603/1‑94 (MQ=255)
                                   atatTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATgg                                                       <  2:3614553/94‑1 (MQ=255)
                                    tatTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATggg                                                      >  1:667668/1‑94 (MQ=255)
                                    tatTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATggg                                                      <  2:3783491/94‑1 (MQ=255)
                                    tatTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCAGGCAATggg                                                      >  1:4540101/1‑94 (MQ=255)
                                      ttGCGGCCTGGGCGGTGATTTGCCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGgggc                                                    <  1:3035145/94‑1 (MQ=255)
                                        gCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGgggcgg                                                  <  1:3830286/94‑1 (MQ=255)
                                          ggCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGgggcgggc                                                >  1:5103097/1‑94 (MQ=255)
                                           gCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCt                                               <  2:43598/94‑1 (MQ=255)
                                           gCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCt                                               >  2:4564676/1‑94 (MQ=255)
                                           gCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCt                                               >  2:3013571/1‑94 (MQ=255)
                                            ccTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAACCCCGGCAATGGGGCGGGCTg                                              <  2:8244902/94‑1 (MQ=255)
                                            ccTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTg                                              >  2:2757221/1‑94 (MQ=255)
                                            ccTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTg                                              >  2:5085529/1‑94 (MQ=255)
                                            ccTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTg                                              >  1:6307382/1‑94 (MQ=255)
                                             cTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGTAATGGGGCGGGCTGa                                             >  1:2084057/1‑94 (MQ=255)
                                             cTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGa                                             <  1:9978859/94‑1 (MQ=255)
                                             cTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGa                                             >  1:701639/1‑94 (MQ=255)
                                               gggCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACg                                           <  2:1143435/94‑1 (MQ=255)
                                               gggCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACg                                           >  1:10296555/1‑94 (MQ=255)
                                               gggCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACg                                           <  2:1268766/94‑1 (MQ=255)
                                                ggCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGc                                          <  1:1758501/94‑1 (MQ=255)
                                                 gCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCt                                         <  2:1826211/94‑1 (MQ=255)
                                                 gCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCt                                         <  2:9456519/94‑1 (MQ=255)
                                                    gTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAAc                                      <  1:9242678/94‑1 (MQ=255)
                                                     tGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACt                                     <  1:4360399/94‑1 (MQ=255)
                                                      gATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACtt                                    >  1:8830062/1‑94 (MQ=255)
                                                         ttACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTaa                                 <  2:2268706/94‑1 (MQ=255)
                                                          tACCCACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAat                                >  2:8740434/1‑94 (MQ=255)
                                                           aCCCACTGATTGTCTGGTGGCTGCTGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAatt                               <  1:5839064/94‑1 (MQ=255)
                                                              cACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAattatt                            <  1:9126912/94‑1 (MQ=255)
                                                              cACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAattatt                            <  2:4042205/94‑1 (MQ=255)
                                                              cACTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAattatt                            >  1:9657568/1‑94 (MQ=255)
                                                              cACTGATTGTCTGGTGGCTGATGTATGGCGG‑TATTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAattatt                            >  2:7682059/1‑94 (MQ=255)
                                                               aCTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTg                           <  1:6556099/94‑1 (MQ=255)
                                                                cTGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGc                          <  2:487688/94‑1 (MQ=255)
                                                                 tGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCa                         <  1:2413693/94‑1 (MQ=255)
                                                                 tGATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCa                         <  1:8134081/94‑1 (MQ=255)
                                                                  gATTGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCAt                        <  2:6725487/94‑1 (MQ=255)
                                                                    ttGTCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCa                      <  2:6171302/94‑1 (MQ=255)
                                                                       tCTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGtt                   <  2:6013814/94‑1 (MQ=255)
                                                                        cTGGTGGCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTg                  >  1:5616215/1‑94 (MQ=255)
                                                                         tggtggCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTgg                 >  1:3465955/1‑94 (MQ=255)
                                                                         tggtggCTGATGTATGGCGG‑TTTTTGGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGGATCAGTTgg                 <  2:7235159/94‑1 (MQ=255)
                                                                          ggtggCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTggg                <  2:5710699/94‑1 (MQ=255)
                                                                          ggtggCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTggg                <  2:1120049/94‑1 (MQ=255)
                                                                          ggtggCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTggg                <  2:7959896/94‑1 (MQ=255)
                                                                             ggCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGAtt             <  2:3363928/94‑1 (MQ=255)
                                                                             ggCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGAtt             >  1:765759/1‑94 (MQ=255)
                                                                              gCTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAACCCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTg            <  1:1327265/94‑1 (MQ=255)
                                                                               cTGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGc           >  1:9428920/1‑94 (MQ=255)
                                                                                tGATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCg          >  1:8542980/1‑94 (MQ=255)
                                                                                 gATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCgg         >  2:2012471/1‑94 (MQ=255)
                                                                                 gATGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCgg         <  1:2386154/94‑1 (MQ=255)
                                                                                  aTGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCggg        <  1:10024205/94‑1 (MQ=255)
                                                                                  aTGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCggg        >  1:10569093/1‑94 (MQ=255)
                                                                                   tGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCgggg       <  2:7916096/94‑1 (MQ=255)
                                                                                   tGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCgggg       <  2:5563370/94‑1 (MQ=255)
                                                                                   tGTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTCCATCAGGTGGGATTGCgggg       >  2:5314218/1‑94 (MQ=255)
                                                                                    gTATGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGACTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCggggg      <  1:3150032/94‑1 (MQ=255)
                                                                                    gTATGGCGG‑TTTTTGGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCggggg      <  2:9216331/94‑1 (MQ=255)
                                                                                      aTGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGgcg    <  1:4235411/94‑1 (MQ=255)
                                                                                      aTGGCGG‑TTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGgcg    >  1:6130338/1‑94 (MQ=255)
                                                                                             |                                                                                         
AATGTTCTGGAAAATACTCCCGCATCGCGGTCGCTATATTGCGGCCTGGGCGGTGATTTACCCACTGATTGTCTGGTGGCTGATGTATGGCGGTTTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCT  >  NC_000913/3419299‑3419481

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCTAAA  >  NC_000913/3421027‑3421213
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CAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGT                                                                                               <  SRR4302545.8141864/94‑1 (MQ=36)
 AGTCTTCTGACTGAGCCTTTTGTTTTATTTGGTGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTT                                                                                              <  SRR4302545.5947570/94‑1 (MQ=26)
 AGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTT                                                                                              >  SRR4302545.1819863/1‑94 (MQ=34)
 AGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTT                                                                                              <  SRR4302545.3421671/94‑1 (MQ=34)
 AGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTT                                                                                              >  SRR4302545.3201686/1‑94 (MQ=34)
 AGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTT                                                                                              >  SRR4302545.7980774/1‑94 (MQ=34)
  GTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTT                                                                                             >  SRR4302545.4255940/1‑94 (MQ=31)
  GTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTT                                                                                             >  SRR4302545.6175302/1‑94 (MQ=31)
  GTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTT                                                                                             <  SRR4302545.3622632/94‑1 (MQ=31)
  GTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTT                                                                                             >  SRR4302545.8815877/1‑94 (MQ=31)
  GTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGATT                                                                                             >  SRR4302545.2255678/1‑94 (MQ=38)
     TTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCAC                                                                                         <  SRR4302545.9239604/94‑1 (MQ=14)
     TTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCAC                                                                                         <  SRR4302545.9239932/94‑1 (MQ=14)
      TCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACT                                                                                        >  SRR4302545.6342107/1‑94 (MQ=9)
      TCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACT                                                                                        >  SRR4302545.10230126/1‑94 (MQ=9)
        CGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTC                                                                                      >  SRR4302545.8534115/1‑94 (MQ=4)
        CGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTC                                                                                      >  SRR4302545.2749690/1‑94 (MQ=4)
        CGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTC                                                                                      <  SRR4302545.441964/94‑1 (MQ=4)
         GACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCT                                                                                     <  SRR4302545.9884384/94‑1 (MQ=4)
         GACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCT                                                                                     >  SRR4302545.5845039/1‑94 (MQ=4)
         GACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCT                                                                                     <  SRR4302545.6209124/94‑1 (MQ=4)
         GACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCT                                                                                     >  SRR4302545.6238956/1‑94 (MQ=4)
         GACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCT                                                                                     >  SRR4302545.698618/1‑94 (MQ=4)
         GACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCT                                                                                     >  SRR4302545.10171879/1‑94 (MQ=4)
          ACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTG                                                                                    >  SRR4302545.4968609/1‑94 (MQ=4)
          ACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTG                                                                                    >  SRR4302545.5089444/1‑94 (MQ=4)
          ACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTG                                                                                    <  SRR4302545.8266060/94‑1 (MQ=4)
          ACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTG                                                                                    >  SRR4302545.2666972/1‑94 (MQ=4)
          ACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTG                                                                                    <  SRR4302545.10056490/94‑1 (MQ=4)
          ACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTG                                                                                    >  SRR4302545.2465413/1‑94 (MQ=4)
           CTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGA                                                                                   <  SRR4302545.4624253/94‑1 (MQ=4)
           CTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGA                                                                                   >  SRR4302545.4506224/1‑94 (MQ=4)
            TGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAG                                                                                  <  SRR4302545.2289349/94‑1 (MQ=4)
            TGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAG                                                                                  >  SRR4302545.3590485/1‑94 (MQ=4)
            TGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAG                                                                                  >  SRR4302545.3405846/1‑94 (MQ=4)
            TGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAG                                                                                  >  SRR4302545.1496418/1‑94 (MQ=4)
            TGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAG                                                                                  >  SRR4302545.6231137/1‑94 (MQ=4)
            TGAGCCTTTTGTTTTATTTGATGTCTGGCAGCTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAG                                                                                  <  SRR4302545.10836722/94‑1 (MQ=4)
            CGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAG                                                                                  <  SRR4302545.3809817/94‑1 (MQ=4)
             GAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGT                                                                                 <  SRR4302545.374116/94‑1 (MQ=4)
             GAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGT                                                                                 <  SRR4302545.5096441/94‑1 (MQ=4)
             GAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGT                                                                                 >  SRR4302545.3036797/1‑94 (MQ=4)
             GAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGT                                                                                 >  SRR4302545.4933407/1‑94 (MQ=4)
             GAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGT                                                                                 <  SRR4302545.1632493/94‑1 (MQ=4)
              AGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTT                                                                                <  SRR4302545.5382441/94‑1 (MQ=4)
              AGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTT                                                                                <  SRR4302545.6989294/94‑1 (MQ=4)
              AGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTT                                                                                <  SRR4302545.6989295/94‑1 (MQ=4)
              AGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTT                                                                                <  SRR4302545.951701/94‑1 (MQ=4)
               GCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTC                                                                               <  SRR4302545.8406727/94‑1 (MQ=4)
                CTTTTTGTTTTATTTGATGTCTGGTAGTTCCCTACTCTCGCATGGGGAGGCCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCG                                                                              <  SRR4302545.7711720/94‑1 (MQ=0)
                CCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCG                                                                              <  SRR4302545.6050798/94‑1 (MQ=4)
                CCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCG                                                                              >  SRR4302545.9052737/1‑94 (MQ=4)
                CCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGGTCG                                                                              >  SRR4302545.2011209/1‑94 (MQ=4)
                 CTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGG                                                                             >  SRR4302545.7198655/1‑94 (MQ=4)
                 CTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGG                                                                             >  SRR4302545.4904689/1‑94 (MQ=4)
                 CTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGG                                                                             <  SRR4302545.4805280/94‑1 (MQ=4)
                 CTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGG                                                                             <  SRR4302545.9478614/94‑1 (MQ=4)
                  TTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGC                                                                            >  SRR4302545.1092217/1‑94 (MQ=0)
                  TTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGC                                                                            >  SRR4302545.10375159/1‑94 (MQ=0)
                                             TCCTACTCTCGCATGGGGGGACCCCACACTACCCTCGGCGCTACGGCGGTTT‑ACTTCTGAGTTCGGCATGGGGGCAGGTGGGACCACCGCGCTA                                                 >  SRR4302545.10001594/1‑94 (MQ=0)
                                                    CTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGGTTTtcttttttgttttgcatggggggagggggggggaccgcgcccccgccgc                                           >  SRR4302545.10404623/1‑45 (MQ=16)
                                                               AGACCCCACACTACCATCGTCGCTAAGGCGGTTT‑ACTTCTGAGTTCGGCATGGGCTCAGGACGGACCACCGCGCTgagggcgccagcgaaatgt                               >  SRR4302545.3140032/1‑75 (MQ=0)
                                                                  CCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTT                            <  SRR4302545.230762/94‑1 (MQ=0)
                                                                  CCCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTT                            >  SRR4302545.3969244/1‑94 (MQ=0)
                                                                   CCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTATTGCCGCCAGACAAATTCTTTT                           <  SRR4302545.5167568/94‑1 (MQ=0)
                                                                   CCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTT                           >  SRR4302545.3243751/1‑94 (MQ=0)
                                                                   CCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTT                           <  SRR4302545.5541911/94‑1 (MQ=0)
                                                                   CCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTT                           <  SRR4302545.7821983/94‑1 (MQ=0)
                                                                   CCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTT                           <  SRR4302545.7821982/94‑1 (MQ=0)
                                                                   CCCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTT                           <  SRR4302545.8938022/94‑1 (MQ=0)
                                                                    CCACACTCCCATCGGCGCGACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTC                          <  SRR4302545.5570789/94‑1 (MQ=0)
                                                                    CCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTC                          <  SRR4302545.2224579/94‑1 (MQ=0)
                                                                    CCACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTC                          >  SRR4302545.1945861/1‑94 (MQ=0)
                                                                     CACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGAGCACCGCGCTACTGCCGCCAGACAAATTCTTTTCT                         >  SRR4302545.8100733/1‑94 (MQ=1)
                                                                     CACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCT                         <  SRR4302545.135419/94‑1 (MQ=1)
                                                                     CACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCT                         <  SRR4302545.5656623/94‑1 (MQ=1)
                                                                      ACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTA                        <  SRR4302545.1751936/94‑1 (MQ=4)
                                                                      ACACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTA                        >  SRR4302545.8029200/1‑94 (MQ=4)
                                                                       CACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAT                       >  SRR4302545.10617234/1‑94 (MQ=4)
                                                                       CACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAA                       <  SRR4302545.2299522/94‑1 (MQ=6)
                                                                       CACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAA                       >  SRR4302545.7346886/1‑94 (MQ=6)
                                                                        ACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAGATTCTTTTCTAAT                      >  SRR4302545.7142284/1‑94 (MQ=6)
                                                                        ACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAAT                      >  SRR4302545.7895449/1‑94 (MQ=9)
                                                                        ACTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAAT                      >  SRR4302545.90758/1‑94 (MQ=9)
                                                                         CTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATC                     >  SRR4302545.4353151/1‑94 (MQ=11)
                                                                         CTACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATC                     <  SRR4302545.6143659/94‑1 (MQ=11)
                                                                          TACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCT                    <  SRR4302545.10760587/94‑1 (MQ=20)
                                                                          TACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCT                    <  SRR4302545.881761/94‑1 (MQ=20)
                                                                          TACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCT                    <  SRR4302545.4543674/94‑1 (MQ=20)
                                                                          TACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCT                    >  SRR4302545.535965/1‑94 (MQ=20)
                                                                           ACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTG                   >  SRR4302545.3214957/1‑94 (MQ=22)
                                                                           ACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTG                   <  SRR4302545.962195/94‑1 (MQ=22)
                                                                           ACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTG                   <  SRR4302545.4221864/94‑1 (MQ=22)
                                                                           ACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTG                   <  SRR4302545.962194/94‑1 (MQ=22)
                                                                           ACCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTG                   <  SRR4302545.8880354/94‑1 (MQ=22)
                                                                            CCATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGATGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGC                  <  SRR4302545.7373812/94‑1 (MQ=23)
                                                                             CATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTATTCTGCC                 >  SRR4302545.6981729/1‑94 (MQ=8)
                                                                             CATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTATTCTGCC                 >  SRR4302545.8858997/1‑94 (MQ=8)
                                                                             CATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCC                 >  SRR4302545.10616462/1‑94 (MQ=27)
                                                                             CATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCC                 <  SRR4302545.41324/94‑1 (MQ=27)
                                                                              ATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCG                >  SRR4302545.6237183/1‑94 (MQ=29)
                                                                              ATCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCG                >  SRR4302545.3378207/1‑94 (MQ=29)
                                                                               TCGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGA               <  SRR4302545.5587866/94‑1 (MQ=32)
                                                                                CGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAA              <  SRR4302545.5232100/94‑1 (MQ=34)
                                                                                CGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAA              <  SRR4302545.5232099/94‑1 (MQ=34)
                                                                                CGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAA              <  SRR4302545.9284409/94‑1 (MQ=34)
                                                                                CGGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAA              <  SRR4302545.9284410/94‑1 (MQ=34)
                                                                                 GGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAAT             >  SRR4302545.7453210/1‑94 (MQ=34)
                                                                                 GGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAAC             <  SRR4302545.4552233/94‑1 (MQ=37)
                                                                                 GGCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAAC             <  SRR4302545.9527665/94‑1 (MQ=37)
                                                                                  GCGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGCACT            >  SRR4302545.4194277/1‑94 (MQ=28)
                                                                                   CGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTT           <  SRR4302545.10278405/94‑1 (MQ=41)
                                                                                   CGCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTT           <  SRR4302545.8474629/94‑1 (MQ=41)
                                                                                    GCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTT          >  SRR4302545.2506966/1‑94 (MQ=44)
                                                                                    GCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTT          <  SRR4302545.6292130/94‑1 (MQ=44)
                                                                                    GCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTT          <  SRR4302545.6292126/94‑1 (MQ=44)
                                                                                    GCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTT          <  SRR4302545.3929687/94‑1 (MQ=44)
                                                                                    GCTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTT          <  SRR4302545.10845509/94‑1 (MQ=44)
                                                                                    GCTACGGC‑GTTTCACTTCTGAGTTCGGCAGGGGGTCAGGTGGGACCACCGCGCTCTTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTT          <  SRR4302545.3929686/94‑1 (MQ=39)
                                                                                    GCAACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGGCCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAATTTT          >  SRR4302545.9564658/1‑94 (MQ=47)
                                                                                     CTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTA         >  SRR4302545.3989158/1‑94 (MQ=46)
                                                                                     CTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTA         <  SRR4302545.6875512/94‑1 (MQ=46)
                                                                                     CTACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTA         <  SRR4302545.7748723/94‑1 (MQ=46)
                                                                                      TACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAGTCTGCCAAACCTTAA        >  SRR4302545.9143255/1‑94 (MQ=9)
                                                                                      TACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGCACTTTAA        >  SRR4302545.1009327/1‑94 (MQ=38)
                                                                                      TACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAA        >  SRR4302545.3614706/1‑94 (MQ=52)
                                                                                      TACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAA        <  SRR4302545.1782139/94‑1 (MQ=52)
                                                                                       ACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAAC       <  SRR4302545.387693/94‑1 (MQ=57)
                                                                                       ACGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAAC       >  SRR4302545.7586002/1‑94 (MQ=57)
                                                                                        CGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACC      <  SRR4302545.3939577/94‑1 (MQ=60)
                                                                                        CGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACC      >  SRR4302545.10819796/1‑94 (MQ=60)
                                                                                        CGGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACC      <  SRR4302545.9202737/94‑1 (MQ=60)
                                                                                         GGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGGCCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCT     <  SRR4302545.10383475/94‑1 (MQ=60)
                                                                                         GGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCT     <  SRR4302545.455233/94‑1 (MQ=60)
                                                                                         GGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCT     >  SRR4302545.595970/1‑94 (MQ=60)
                                                                                         GGC‑GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCT     >  SRR4302545.5402528/1‑94 (MQ=60)
                                                                                           gcGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCTA    <  SRR4302545.2204742/92‑1 (MQ=60)
                                                                                            CGTTTCACTTCTTAGTTCGGCCTGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAATTTGAACCTAA   >  SRR4302545.10877544/1‑94 (MQ=46)
                                                                                            CGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGGCCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCTAA   >  SRR4302545.7735701/1‑94 (MQ=60)
                                                                                            CGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTCTCTAATCTGCCGAACTTTAACCTAA   <  SRR4302545.10448066/94‑1 (MQ=60)
                                                                                             GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTTTAATCTGCCGCACCTTAACCTAGA  >  SRR4302545.4767993/1‑94 (MQ=34)
                                                                                             GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTATTCTGCCGCACCTTAACCTAAA  >  SRR4302545.4753868/1‑94 (MQ=41)
                                                                                             GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCTAAA  >  SRR4302545.7691334/1‑94 (MQ=60)
                                                                                             GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCTAAA  >  SRR4302545.6354484/1‑94 (MQ=60)
                                                                                             GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCTAAA  >  SRR4302545.4962529/1‑94 (MQ=60)
                                                                                             GTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATATGCCGAACTTTAACCTAAA  >  SRR4302545.9908749/1‑94 (MQ=60)
                                                                                             |                                                                                             
CAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCTAAA  >  NC_000913/3421027‑3421213

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 2 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑