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 593 264.2 13311096 97.8% 13018251 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,061,961 Δ1 bp coding (1386/1458 nt) b3876 ← putative permease

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,061,9590C.99.6% 1153.2 / ‑3.7 245coding (1388/1458 nt)b3876putative permease
Reads supporting (aligned to +/- strand):  ref base C (1/0);  new base . (146/98);  total (147/98)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 267 total aligned reads displayed.

TTTTTCATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAGCCCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGTGTGTA  >  NC_000913/4061867‑4062047
                                                                                            |                                                                                        
tttttCATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAGc                                                                                          >  1:6546308/1‑93 (MQ=255)
tttttCATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAGc                                                                                          >  1:5502453/1‑93 (MQ=255)
tttttCATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAGc                                                                                          >  2:4302683/1‑93 (MQ=255)
 ttttCATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCGGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAGcc                                                                                         <  1:1815313/93‑1 (MQ=255)
  tttCATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAGccg                                                                                        >  2:2659121/1‑92 (MQ=255)
   ttCATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAGccgt                                                                                       <  2:3672203/93‑3 (MQ=255)
     cATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAGccgttt                                                                                     >  1:753918/1‑89 (MQ=255)
     cATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAGccgttt                                                                                     <  1:6097759/93‑5 (MQ=255)
     cATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAGccgttt                                                                                     >  1:2938211/1‑89 (MQ=255)
      ataataAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGtttt                                                                                   >  2:1485769/1‑93 (MQ=255)
        aataaGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGtttttt                                                                                 >  2:309971/1‑93 (MQ=255)
        aataaGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGtttttt                                                                                 <  2:6109150/93‑1 (MQ=255)
         ataaGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTttc                                                                                <  2:2885088/93‑1 (MQ=255)
          taaGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTttct                                                                               >  1:1091485/1‑93 (MQ=255)
          taaGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTttct                                                                               >  1:3894414/1‑93 (MQ=255)
          taaGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTttct                                                                               >  2:5516836/1‑93 (MQ=255)
          aaaGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTttct                                                                               <  1:6321317/92‑1 (MQ=255)
             gTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTtcttct                                                                            >  1:6603277/1‑93 (MQ=255)
              tcgaTTTTTTAAACGTAGGGAGGCCGCCACCGACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTg                                                                           >  1:4202749/4‑93 (MQ=255)
              tCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTtcttctt                                                                           >  2:2479216/1‑92 (MQ=255)
              tCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTg                                                                           >  1:2182833/1‑93 (MQ=255)
              tCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTg                                                                           >  1:570057/1‑93 (MQ=255)
              tCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTg                                                                           >  1:1851702/1‑93 (MQ=255)
              tCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTg                                                                           >  2:6602172/1‑93 (MQ=255)
              tCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTg                                                                           >  2:703646/1‑93 (MQ=255)
              tCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTg                                                                           >  1:2668939/1‑93 (MQ=255)
               ccATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGt                                                                          >  1:3491605/1‑93 (MQ=255)
               ccATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGt                                                                          >  2:5761882/1‑93 (MQ=255)
                 aTTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCg                                                                        >  1:5641999/1‑93 (MQ=255)
                 aTTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCg                                                                        >  1:4563550/1‑93 (MQ=255)
                 aTTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCg                                                                        >  2:1107626/1‑93 (MQ=255)
                     tttAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCAt                                                                    >  2:3762811/1‑93 (MQ=255)
                       tAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCAtct                                                                  >  2:4521457/1‑93 (MQ=255)
                        aaaCGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCAtctc                                                                 <  1:4266942/93‑1 (MQ=255)
                         aaCGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATctct                                                                <  1:859868/93‑1 (MQ=255)
                          aCGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCtt                                                               <  2:2079558/93‑1 (MQ=255)
                          aCGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCtt                                                               >  2:1852130/1‑93 (MQ=255)
                          aCGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCtt                                                               <  1:338022/93‑1 (MQ=255)
                            gTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTa                                                             >  2:349513/1‑93 (MQ=255)
                            gTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTa                                                             >  2:5373491/1‑93 (MQ=255)
                            gTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTa                                                             <  2:3987757/93‑1 (MQ=255)
                             tAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTAt                                                            >  2:2248816/1‑93 (MQ=255)
                             tAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTAt                                                            >  1:6381815/1‑93 (MQ=255)
                              aGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTAtt                                                           <  1:5050524/93‑1 (MQ=255)
                                ggAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTAtttt                                                         >  2:3843773/1‑93 (MQ=255)
                                 gAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTAttttt                                                        >  1:3656038/1‑93 (MQ=255)
                                 gAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTAttttt                                                        >  2:898992/1‑93 (MQ=255)
                                   ggCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGc                                                      <  2:5062291/93‑1 (MQ=255)
                                   ggCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGc                                                      >  1:2379531/1‑93 (MQ=255)
                                    gccgccACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCg                                                     <  1:1724078/93‑1 (MQ=255)
                                      cgccACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCgtt                                                   <  2:2517765/93‑1 (MQ=255)
                                      cgccACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCgtt                                                   >  2:2124549/1‑93 (MQ=255)
                                      cgccACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCgtt                                                   >  1:2268542/1‑93 (MQ=255)
                                       gccACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCgttg                                                  >  2:6004256/1‑93 (MQ=255)
                                       gccACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCgttg                                                  >  2:1247299/1‑93 (MQ=255)
                                         cacccaccAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCgttggt                                                >  1:1283345/1‑93 (MQ=255)
                                         cacccaccAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCgttggt                                                >  2:293864/1‑93 (MQ=255)
                                          acccaccAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCgttggtt                                               >  2:4414012/1‑93 (MQ=255)
                                          acccaccAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCgttggtt                                               >  2:4732976/1‑93 (MQ=255)
                                             caccaGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGAt                                            <  2:3069918/93‑1 (MQ=255)
                                              accaGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGAtt                                           >  1:2480169/1‑93 (MQ=255)
                                              accaGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGAtt                                           <  2:522236/93‑1 (MQ=255)
                                                  ggATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCt                                       >  1:3216329/1‑93 (MQ=255)
                                                  ggATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCt                                       >  1:5158288/1‑93 (MQ=255)
                                                    aTGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCa                                     >  1:5089238/1‑93 (MQ=255)
                                                     tGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCaa                                    <  1:5199059/93‑1 (MQ=255)
                                                      ggAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCaat                                   <  2:5188939/93‑1 (MQ=255)
                                                      ggAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCaat                                   >  2:4079461/1‑93 (MQ=255)
                                                      ggAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCaat                                   <  2:6285331/93‑1 (MQ=255)
                                                       gAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCaata                                  <  1:4597248/93‑1 (MQ=255)
                                                        aaaTAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCaataa                                 <  1:5428170/93‑1 (MQ=255)
                                                          aTAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATc                               >  2:6458575/1‑93 (MQ=255)
                                                            aGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCaa                             <  2:4156399/93‑1 (MQ=255)
                                                             gCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAAt                            <  2:362306/93‑1 (MQ=255)
                                                               ggCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGc                          <  2:5946011/93‑1 (MQ=255)
                                                               ggCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGc                          >  1:1041177/1‑93 (MQ=255)
                                                                  tATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCaaa                       >  2:359168/1‑93 (MQ=255)
                                                                   aTTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAAc                      >  2:1940491/1‑93 (MQ=255)
                                                                   aTTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAAc                      <  1:1419665/93‑1 (MQ=255)
                                                                      gACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGt                   <  1:5551212/93‑1 (MQ=255)
                                                                      gACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGt                   <  2:2993675/93‑1 (MQ=255)
                                                                       aCATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGtt                  >  2:401997/1‑93 (MQ=255)
                                                                       aCATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGtt                  >  1:1624639/1‑93 (MQ=255)
                                                                       aCATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGtt                  <  2:6527146/93‑1 (MQ=255)
                                                                       aCATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGtt                  >  2:1423877/1‑93 (MQ=255)
                                                                       aCATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGtt                  <  1:5762015/93‑1 (MQ=255)
                                                                         aTTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGtttt                <  2:3263988/93‑1 (MQ=255)
                                                                          tttATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGttttt               >  1:5992228/1‑93 (MQ=255)
                                                                             ataACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCAt            >  2:971987/1‑93 (MQ=255)
                                                                             ataACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCAt            >  2:5471584/1‑93 (MQ=255)
                                                                              taACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCCATAATCAATGCAAACCGTTTTTCAtt           >  2:1199554/1‑93 (MQ=255)
                                                                              taACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCAtt           >  2:1562946/1‑93 (MQ=255)
                                                                               aaCGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTg          <  1:3850205/93‑1 (MQ=255)
                                                                               aaCGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTg          >  1:4037491/1‑93 (MQ=255)
                                                                               aaCGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTg          <  2:1795809/93‑1 (MQ=255)
                                                                               aaCGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTg          >  1:4806982/1‑93 (MQ=255)
                                                                                   ttACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCCATGCAAACCGTTTTTCATTGAgtg      <  1:6404471/93‑1 (MQ=255)
                                                                                   ttACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAgtg      >  1:4829317/1‑93 (MQ=255)
                                                                                    tACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAgtgt     <  1:3733100/93‑1 (MQ=255)
                                                                                     aCGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAgtgtg    >  1:4700569/1‑93 (MQ=255)
                                                                                            |                                                                                        
TTTTTCATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAGCCCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGTGTGTA  >  NC_000913/4061867‑4062047

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
TTTTCATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAGCCCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGTGTGTAAAAGAAT  >  NC_000913/4061868‑4062054
                                                                                             |                                                                                             
TTTTCATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCGGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAGCCG                                                                                               <  SRR4302547.1851179/94‑1 (MQ=60)
  TTCATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTT                                                                                            <  SRR4302547.1852948/94‑1 (MQ=60)
  TTCATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTT                                                                                            >  SRR4302547.4288469/1‑94 (MQ=60)
   TCATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTT                                                                                           >  SRR4302547.768129/1‑94 (MQ=60)
   TCATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTT                                                                                           >  SRR4302547.2996753/1‑94 (MQ=60)
   TCATAATAAATCCATTTTTTTAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTT                                                                                           >  SRR4302547.6641099/1‑94 (MQ=60)
    CATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTT                                                                                          >  SRR4302547.5209721/1‑94 (MQ=60)
    CATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTT                                                                                          <  SRR4302547.6385652/94‑1 (MQ=60)
    CATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTT                                                                                          <  SRR4302547.6224250/94‑1 (MQ=60)
     ATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTT                                                                                         >  SRR4302547.4398692/1‑94 (MQ=60)
        ATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCT                                                                                      >  SRR4302547.855997/1‑94 (MQ=60)
        ATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCT                                                                                      >  SRR4302547.3973608/1‑94 (MQ=60)
        ATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCT                                                                                      >  SRR4302547.1113360/1‑94 (MQ=60)
         TAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTT                                                                                     <  SRR4302547.1754120/94‑1 (MQ=60)
         AAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTT                                                                                     <  SRR4302547.6452753/94‑1 (MQ=60)
           AGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCT                                                                                   >  SRR4302547.4006297/1‑94 (MQ=60)
           AGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCT                                                                                   >  SRR4302547.6740729/1‑94 (MQ=60)
           AGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCT                                                                                   <  SRR4302547.3750422/94‑1 (MQ=60)
            GTCGATTTTTTAAACGTAGGGAGGCCGCCACCGACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTG                                                                                  >  SRR4302547.4288484/1‑94 (MQ=60)
            GTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTG                                                                                  >  SRR4302547.2722563/1‑94 (MQ=60)
            GTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTG                                                                                  >  SRR4302547.5279347/1‑94 (MQ=60)
            GTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTG                                                                                  >  SRR4302547.2226563/1‑94 (MQ=60)
            GTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTG                                                                                  >  SRR4302547.580305/1‑94 (MQ=60)
            GTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTG                                                                                  >  SRR4302547.1888292/1‑94 (MQ=60)
             TCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGT                                                                                 >  SRR4302547.3562856/1‑94 (MQ=60)
              CCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTC                                                                                <  SRR4302547.4746948/94‑1 (MQ=60)
              CCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTC                                                                                >  SRR4302547.5444802/1‑94 (MQ=60)
              CCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTC                                                                                <  SRR4302547.563446/94‑1 (MQ=60)
               CATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCG                                                                               >  SRR4302547.1710441/1‑94 (MQ=60)
               CATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCG                                                                               >  SRR4302547.4657962/1‑94 (MQ=60)
               CATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCG                                                                               >  SRR4302547.5758465/1‑94 (MQ=60)
                ATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGCTTTTTCTTCTGTCGC                                                                              >  SRR4302547.4352109/1‑94 (MQ=60)
                  TTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCA                                                                            >  SRR4302547.2234369/1‑94 (MQ=60)
                   TTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCAT                                                                           <  SRR4302547.5278723/94‑1 (MQ=60)
                     TTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCT                                                                         <  SRR4302547.3658/94‑1 (MQ=60)
                      TAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTC                                                                        <  SRR4302547.6519201/94‑1 (MQ=60)
                      TAAACGTAGGGAGGACGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTC                                                                        >  SRR4302547.3307955/1‑94 (MQ=60)
                       AAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAGCCGG‑‑TTTTCTTCTGTCGCCATCTCTT                                                                      >  SRR4302547.75599/1‑94 (MQ=60)
                       AAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCT                                                                       <  SRR4302547.4354407/94‑1 (MQ=60)
                       AAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCT                                                                       >  SRR4302547.1064537/1‑94 (MQ=60)
                        AACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTT                                                                      <  SRR4302547.876297/94‑1 (MQ=60)
                        AACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTT                                                                      <  SRR4302547.2524878/94‑1 (MQ=60)
                         ACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTT                                                                     <  SRR4302547.344304/94‑1 (MQ=60)
                         ACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTT                                                                     <  SRR4302547.6459908/94‑1 (MQ=60)
                          CGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTA                                                                    >  SRR4302547.4005617/1‑94 (MQ=60)
                          CGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTA                                                                    >  SRR4302547.5751680/1‑94 (MQ=60)
                          CGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTA                                                                    <  SRR4302547.2898486/94‑1 (MQ=60)
                           GTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTAT                                                                   >  SRR4302547.6514994/1‑94 (MQ=60)
                             AGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTT                                                                 <  SRR4302547.5154797/94‑1 (MQ=60)
                             AGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTT                                                                 >  SRR4302547.6386483/1‑94 (MQ=60)
                               GGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTT                                                               <  SRR4302547.1508502/94‑1 (MQ=60)
                               GGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTT                                                               >  SRR4302547.3730621/1‑94 (MQ=60)
                                 AGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGC                                                             <  SRR4302547.2118125/94‑1 (MQ=60)
                                 AGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGC                                                             >  SRR4302547.2427742/1‑94 (MQ=60)
                                   GCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGT                                                           <  SRR4302547.1757969/94‑1 (MQ=60)
                                    CCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTT                                                          <  SRR4302547.5708469/94‑1 (MQ=60)
                                    CCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTT                                                          >  SRR4302547.2314419/1‑94 (MQ=60)
                                     CGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTG                                                         <  SRR4302547.6651107/94‑1 (MQ=60)
                                     CGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTG                                                         >  SRR4302547.1393417/1‑94 (MQ=60)
                                     CGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTG                                                         >  SRR4302547.1918445/1‑94 (MQ=60)
                                     CGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTG                                                         <  SRR4302547.306154/94‑1 (MQ=60)
                                       CCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGT                                                       >  SRR4302547.1309204/1‑94 (MQ=60)
                                       CCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGT                                                       >  SRR4302547.4341021/1‑94 (MQ=60)
                                       CAACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGT                                                       <  SRR4302547.2521310/94‑1 (MQ=60)
                                        CACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTT                                                      >  SRR4302547.375305/1‑94 (MQ=60)
                                            CACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATT                                                  >  SRR4302547.2530298/1‑94 (MQ=60)
                                            CACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATT                                                  <  SRR4302547.5542442/94‑1 (MQ=60)
                                             ACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTT                                                 >  SRR4302547.3657903/1‑94 (MQ=60)
                                                AGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCT                                              >  SRR4302547.3280485/1‑94 (MQ=60)
                                                AGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCT                                              >  SRR4302547.547331/1‑94 (MQ=60)
                                                AGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCT                                              >  SRR4302547.5264503/1‑94 (MQ=60)
                                                 GGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTC                                             <  SRR4302547.2258330/94‑1 (MQ=60)
                                                  GATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCA                                            >  SRR4302547.5194214/1‑94 (MQ=60)
                                                  GATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCA                                            <  SRR4302547.584554/94‑1 (MQ=60)
                                                  GATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCA                                            <  SRR4302547.3902998/94‑1 (MQ=60)
                                                   ATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAA                                           >  SRR4302547.3389682/1‑94 (MQ=60)
                                                   ATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAA                                           >  SRR4302547.1438709/1‑94 (MQ=60)
                                                   ATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAA                                           >  SRR4302547.1803773/1‑94 (MQ=60)
                                                   ATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAA                                           >  SRR4302547.5180415/1‑94 (MQ=60)
                                                   ATGGAAATAGCGGCTAATGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAA                                           >  SRR4302547.5802787/1‑94 (MQ=60)
                                                    TGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAAT                                          <  SRR4302547.6091337/94‑1 (MQ=60)
                                                    TGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAAT                                          <  SRR4302547.5306050/94‑1 (MQ=60)
                                                    TGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAAT                                          >  SRR4302547.5188768/1‑94 (MQ=60)
                                                     GGAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATA                                         <  SRR4302547.3028678/94‑1 (MQ=60)
                                                      GAAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAA                                        <  SRR4302547.4692387/94‑1 (MQ=60)
                                                       AAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAAT                                       <  SRR4302547.4975411/94‑1 (MQ=60)
                                                       AAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAAT                                       <  SRR4302547.2374028/94‑1 (MQ=60)
                                                       AAATAGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAAT                                       <  SRR4302547.5540406/94‑1 (MQ=60)
                                                           AGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAAT                                   >  SRR4302547.178483/1‑94 (MQ=60)
                                                           AGCGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAAT                                   >  SRR4302547.2568022/1‑94 (MQ=60)
                                                             CGGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGC                                 >  SRR4302547.1061708/1‑94 (MQ=60)
                                                              GGCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCA                                <  SRR4302547.2684881/94‑1 (MQ=60)
                                                               GCTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAA                               <  SRR4302547.6096546/94‑1 (MQ=60)
                                                                CTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAA                              >  SRR4302547.4747758/1‑94 (MQ=60)
                                                                CTATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAA                              >  SRR4302547.5616648/1‑94 (MQ=60)
                                                                  ATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACC                            <  SRR4302547.1448087/94‑1 (MQ=60)
                                                                  ATTGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACC                            >  SRR4302547.5819274/1‑94 (MQ=60)
                                                                    TGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGT                          >  SRR4302547.5087001/1‑94 (MQ=60)
                                                                    TGACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGT                          >  SRR4302547.6719213/1‑94 (MQ=60)
                                                                     GACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTT                         >  SRR4302547.1656781/1‑94 (MQ=60)
                                                                     GACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTT                         <  SRR4302547.5665742/94‑1 (MQ=60)
                                                                      ACATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTT                        <  SRR4302547.5881175/94‑1 (MQ=60)
                                                                       CATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTT                       <  SRR4302547.4357615/94‑1 (MQ=60)
                                                                        ATTTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTT                      >  SRR4302547.6116557/1‑94 (MQ=60)
                                                                          TTATAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCA                    <  SRR4302547.4679798/94‑1 (MQ=60)
                                                                             TAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTG                 <  SRR4302547.4801321/94‑1 (MQ=60)
                                                                             TAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTG                 >  SRR4302547.4119471/1‑94 (MQ=60)
                                                                             TAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTG                 >  SRR4302547.4906607/1‑94 (MQ=60)
                                                                             TAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTG                 <  SRR4302547.1178225/94‑1 (MQ=60)
                                                                             TAACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTG                 >  SRR4302547.3962547/1‑94 (MQ=60)
                                                                              AACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGA                <  SRR4302547.6699587/94‑1 (MQ=60)
                                                                              AACGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGA                <  SRR4302547.3928588/94‑1 (MQ=60)
                                                                                CGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGT              <  SRR4302547.4818778/94‑1 (MQ=60)
                                                                                CGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGT              <  SRR4302547.1121727/94‑1 (MQ=60)
                                                                                CGTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGT              >  SRR4302547.3966068/1‑94 (MQ=60)
                                                                                 GTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGTG             >  SRR4302547.6213150/1‑94 (MQ=60)
                                                                                 GTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGTG             >  SRR4302547.4922869/1‑94 (MQ=60)
                                                                                 GTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGTG             >  SRR4302547.857045/1‑94 (MQ=60)
                                                                                 GTTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGTG             >  SRR4302547.4929442/1‑94 (MQ=60)
                                                                                  TTACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCCATGCAAACCGTTTTTCATTGAGTGT            <  SRR4302547.6538044/94‑1 (MQ=60)
                                                                                   TACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGTGTG           >  SRR4302547.4797919/1‑94 (MQ=60)
                                                                                   TACGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGTGTG           <  SRR4302547.3809324/94‑1 (MQ=60)
                                                                                     CGGAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGTGTGTA         >  SRR4302547.6481130/1‑94 (MQ=60)
                                                                                       GAAG‑CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGTGTGTAAA       >  SRR4302547.4088615/1‑94 (MQ=60)
                                                                                          agCCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGTGTGTAAAAG     >  SRR4302547.3640367/3‑94 (MQ=60)
                                                                                          agCCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGTGTGTAAAAG     <  SRR4302547.3319407/92‑1 (MQ=60)
                                                                                          agCCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGTGTGTAAAAG     <  SRR4302547.4957159/92‑1 (MQ=60)
                                                                                            CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGTGTGTAAAAGAA   <  SRR4302547.6764046/94‑1 (MQ=60)
                                                                                            CCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGTGTGTAAAAGAA   <  SRR4302547.197561/94‑1 (MQ=60)
                                                                                             CGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGTGTGTAAAAGAAT  >  SRR4302547.5712841/1‑94 (MQ=60)
                                                                                             CGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGTGTGTAAAAGAAT  >  SRR4302547.3988269/1‑94 (MQ=60)
                                                                                             |                                                                                             
TTTTCATAATAAGTCCATTTTTTAAACGTAGGGAGGCCGCCACCCACCAGGATGGAAATAGCGGCTATTGACATTTATAACGTTACGGAAGCCCGTTTTTTCTTCTGTCGCCATCTCTTTATTTTTGCGTTGGTTGATTTCCTCAATAATCAATGCAAACCGTTTTTCATTGAGTGTGTAAAAGAAT  >  NC_000913/4061868‑4062054

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑