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 1061 294.1 15065038 98.6% 14854127 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,119,382 A→G Y162Y (TAT→TAC)  hslV ← heat shock protein hslVU proteasome‑related peptidase subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,119,3820AG79.3% 463.6 / 133.9 242Y162Y (TAT→TAC) hslVheat shock protein hslVU proteasome‑related peptidase subunit
Reads supporting (aligned to +/- strand):  ref base A (25/25);  new base G (99/93);  total (124/118)
Fisher's exact test for biased strand distribution p-value = 8.75e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.90e-01

Only 100 of 247 total aligned reads displayed.

TTCGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCGCCGC  >  NC_000913/4119292‑4119471
                                                                                          |                                                                                         
ttCGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGtgta                                                                                         <  1:504609/93‑1 (MQ=255)
 tCGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAg                                                                                        >  2:5486425/1‑93 (MQ=255)
 tCGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAg                                                                                        >  1:3905391/1‑93 (MQ=255)
  cGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGa                                                                                       <  2:6154483/93‑1 (MQ=255)
  cGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGa                                                                                       <  2:5333177/93‑1 (MQ=255)
  cGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGa                                                                                       <  1:1231878/93‑1 (MQ=255)
  cGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGa                                                                                       <  2:1712404/93‑1 (MQ=255)
   gCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGAt                                                                                      <  1:829008/93‑1 (MQ=255)
   gCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGAt                                                                                      <  2:6493543/93‑1 (MQ=255)
    cTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATg                                                                                     >  1:4588851/1‑93 (MQ=255)
     tGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGc                                                                                    >  2:6711349/1‑93 (MQ=255)
      gACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCa                                                                                   <  2:2535412/93‑1 (MQ=255)
        cGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCaaa                                                                                 <  1:5965899/93‑1 (MQ=255)
        cGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCaaa                                                                                 <  1:3065717/93‑1 (MQ=255)
         gATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAAt                                                                                <  1:3295625/93‑1 (MQ=255)
           tttCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGt                                                                              >  2:6006253/1‑93 (MQ=255)
               gcgTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGcc                                                                          <  1:2450873/93‑1 (MQ=255)
               gcgTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGcc                                                                          <  1:4454766/93‑1 (MQ=255)
               cagTGGGGGCATTTCAGAAATGGGAGTCCCTTCCCCTTTGTAGCTTAATTCTTCGATGGTTTGGAAATGGTTGGTATAGATGCAAATGTCGcc                                                                          <  1:7474735/91‑1 (MQ=255)
                ggTGGGGCCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCt                                                                         <  1:3659648/92‑1 (MQ=255)
                cgTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCt                                                                         <  2:1778671/93‑1 (MQ=255)
                 gTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTg                                                                        >  1:1027809/1‑93 (MQ=255)
                  tGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGc                                                                       >  1:5552464/1‑93 (MQ=255)
                    gggTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCaa                                                                     <  2:3896280/93‑1 (MQ=255)
                     ggTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAat                                                                    >  2:1035807/1‑93 (MQ=255)
                      gTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAata                                                                   <  1:999447/93‑1 (MQ=255)
                       tCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAatat                                                                  <  2:2616289/93‑1 (MQ=255)
                         aTTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATcc                                                                <  1:6360150/93‑1 (MQ=255)
                         aTTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATcc                                                                >  2:5095457/1‑93 (MQ=255)
                         aTTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATcc                                                                >  2:1942553/1‑93 (MQ=255)
                         aTTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATcc                                                                >  1:1870037/1‑93 (MQ=255)
                          tttCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCa                                                               >  2:3188621/1‑93 (MQ=255)
                          tttCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCa                                                               <  1:4876534/93‑1 (MQ=255)
                           ttCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCaa                                                              <  2:744788/93‑1 (MQ=255)
                            tCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAAc                                                             >  2:2899202/1‑93 (MQ=255)
                            tCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAAc                                                             <  2:4281320/93‑1 (MQ=255)
                               gACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGcc                                                          >  1:3042335/1‑93 (MQ=255)
                                 cATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCtt                                                        >  2:2132825/1‑93 (MQ=255)
                                 cATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCtt                                                        >  1:5940976/1‑93 (MQ=255)
                                   tGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCtttt                                                      >  2:6960916/1‑93 (MQ=255)
                                   tGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCtttt                                                      >  1:920733/1‑93 (MQ=255)
                                   tGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCtttt                                                      <  2:3126147/93‑1 (MQ=255)
                                    gggAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTc                                                     <  2:4021777/93‑1 (MQ=255)
                                    gggAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTc                                                     >  1:4062936/1‑93 (MQ=255)
                                    gggAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTc                                                     <  2:5629149/93‑1 (MQ=255)
                                     ggAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCa                                                    <  1:7152910/93‑1 (MQ=255)
                                     ggAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCa                                                    <  2:3479206/93‑1 (MQ=255)
                                      gagaTCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAg                                                   >  2:5375846/1‑93 (MQ=255)
                                      gagaTCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAg                                                   >  2:120222/1‑93 (MQ=255)
                                      gagaTCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAg                                                   <  1:5244821/93‑1 (MQ=255)
                                        gaTCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCa                                                 >  2:3215231/1‑93 (MQ=255)
                                         aTCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCaa                                                >  1:7002928/1‑93 (MQ=255)
                                         aTCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCaa                                                >  2:5145250/1‑93 (MQ=255)
                                         aTCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCaa                                                <  2:7215248/93‑1 (MQ=255)
                                            cTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAAttt                                             >  1:2285172/1‑93 (MQ=255)
                                            cTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAAttt                                             <  1:4710214/93‑1 (MQ=255)
                                              tACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCa                                           <  2:6296559/93‑1 (MQ=255)
                                              tACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCa                                           <  2:6669914/93‑1 (MQ=255)
                                               aCGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCAc                                          <  1:3803055/93‑1 (MQ=255)
                                                 gCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACgg                                        >  2:5972938/1‑93 (MQ=255)
                                                 gCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACgg                                        <  1:1962488/93‑1 (MQ=255)
                                                  cTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACggg                                       <  2:856925/93‑1 (MQ=255)
                                                   tttGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGgc                                      >  2:2040487/1‑93 (MQ=255)
                                                   tttGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGgc                                      <  1:1675278/93‑1 (MQ=255)
                                                     tGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGgcgc                                    >  1:7381216/1‑93 (MQ=255)
                                                        aGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTaa                                 <  1:420917/93‑1 (MQ=255)
                                                         gCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAg                                <  1:4687077/93‑1 (MQ=255)
                                                          cTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGt                               >  1:5745129/1‑93 (MQ=255)
                                                          cTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACCCCTTTTCAGCAATTTCACGGGCGCTAAGt                               <  1:7282066/93‑1 (MQ=255)
                                                           ttAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGtt                              >  1:2747325/1‑93 (MQ=255)
                                                            tAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTc                             <  2:549384/93‑1 (MQ=255)
                                                             aaTTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCa                            >  2:2401760/1‑93 (MQ=255)
                                                             aaTTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCa                            >  2:7347698/1‑93 (MQ=255)
                                                               ttcttcGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAgt                          >  2:2761163/1‑93 (MQ=255)
                                                               ttcttcGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAgt                          <  1:2932085/93‑1 (MQ=255)
                                                                     gATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTc                    >  2:844515/1‑93 (MQ=255)
                                                                      aTGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCt                   >  2:5579729/1‑93 (MQ=255)
                                                                       tGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTa                  >  2:4311348/1‑93 (MQ=255)
                                                                        ggTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTaa                 <  1:4415896/93‑1 (MQ=255)
                                                                        ggTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTaa                 <  1:5838757/93‑1 (MQ=255)
                                                                         gtgtGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAAc                <  1:2070396/93‑1 (MQ=255)
                                                                         gtgtGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAAc                <  2:46127/93‑1 (MQ=255)
                                                                          tgtgGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACa               <  1:5694252/93‑1 (MQ=255)
                                                                          tgtgGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACa               <  2:4118048/93‑1 (MQ=255)
                                                                          tgtgGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACa               <  1:3510623/93‑1 (MQ=255)
                                                                          tgtgGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACa               <  2:482414/93‑1 (MQ=255)
                                                                           gtgGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAg              >  1:6942992/1‑93 (MQ=255)
                                                                            tgGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAgc             >  2:3736107/1‑93 (MQ=255)
                                                                            tgGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAgc             <  2:7402239/93‑1 (MQ=255)
                                                                            tgGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAgc             >  2:6633845/1‑93 (MQ=255)
                                                                             ggAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAgcg            >  2:7021677/1‑93 (MQ=255)
                                                                               aaaTGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAgcgcg          >  2:3306447/1‑93 (MQ=255)
                                                                                aaTGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAgcgcgc         >  2:2442970/1‑93 (MQ=255)
                                                                                 aTGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAgcgcgcg        >  1:4398279/1‑93 (MQ=255)
                                                                                  tggttggtGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAgcgcgcgc       <  1:1757003/93‑1 (MQ=255)
                                                                                    gttggtGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAgcgcgcgcgc     >  1:1331791/1‑93 (MQ=255)
                                                                                      tggtGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGcgccg   >  2:2250958/1‑93 (MQ=255)
                                                                                       ggtGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGcgccgc  <  1:1477191/93‑1 (MQ=255)
                                                                                       ggtGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGcgccgc  <  2:5962517/93‑1 (MQ=255)
                                                                                       ggtGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGcgccgc  <  1:62292/93‑1 (MQ=255)
                                                                                          |                                                                                         
TTCGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCGCCGC  >  NC_000913/4119292‑4119471

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
AGTTCGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCGCCGCAGCC  >  NC_000913/4119290‑4119475
                                                                                            |                                                                                             
AGTTCGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGT                                                                                              >  SRR4302542.3257132/1‑94 (MQ=60)
 GTTCGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTA                                                                                             <  SRR4302542.5701368/94‑1 (MQ=60)
  TTCGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAG                                                                                            >  SRR4302542.3943944/1‑94 (MQ=60)
  TTCGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAG                                                                                            <  SRR4302542.1376820/94‑1 (MQ=60)
  TTCGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAG                                                                                            <  SRR4302542.508995/94‑1 (MQ=60)
  TTCGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAG                                                                                            <  SRR4302542.2593033/94‑1 (MQ=60)
  TTCGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAG                                                                                            <  SRR4302542.222677/94‑1 (MQ=60)
  TTCGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAG                                                                                            <  SRR4302542.2215781/94‑1 (MQ=60)
    CGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGAT                                                                                          >  SRR4302542.3423542/1‑94 (MQ=60)
    CGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGAT                                                                                          >  SRR4302542.6352861/1‑94 (MQ=60)
    CGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGCAGAT                                                                                          <  SRR4302542.7039725/94‑1 (MQ=60)
    CGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGAT                                                                                          <  SRR4302542.1242473/94‑1 (MQ=60)
     GCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATG                                                                                         <  SRR4302542.836169/94‑1 (MQ=60)
     GCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATG                                                                                         >  SRR4302542.4633731/1‑94 (MQ=60)
     GCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATG                                                                                         <  SRR4302542.5806720/94‑1 (MQ=60)
     GCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATG                                                                                         <  SRR4302542.4455321/94‑1 (MQ=60)
       TGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCA                                                                                       <  SRR4302542.3764146/94‑1 (MQ=60)
       TGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCA                                                                                       >  SRR4302542.3013993/1‑94 (MQ=60)
       TGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCA                                                                                       <  SRR4302542.2469532/94‑1 (MQ=60)
          CGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAAT                                                                                    <  SRR4302542.3094949/94‑1 (MQ=60)
          CGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAAT                                                                                    <  SRR4302542.7535295/94‑1 (MQ=60)
          CGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAAT                                                                                    <  SRR4302542.6023654/94‑1 (MQ=60)
           GATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATG                                                                                   >  SRR4302542.1095822/1‑94 (MQ=60)
           GATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATG                                                                                   <  SRR4302542.3326719/94‑1 (MQ=60)
           GATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATG                                                                                   >  SRR4302542.5059010/1‑94 (MQ=60)
             TTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTC                                                                                 >  SRR4302542.7360066/1‑94 (MQ=60)
             TTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTC                                                                                 <  SRR4302542.872467/94‑1 (MQ=60)
                 caGTGGGGGCATTTCAGAAATGGGAGTCCCTTCCCCTTTGTAGCTTAATTCTTCGATGGTTTGGAAATGGTTGGTATAGATGCAAATGTCGCCT                                                                             <  SRR4302542.7547983/92‑1 (MQ=60)
                 GCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCT                                                                             <  SRR4302542.2474710/94‑1 (MQ=60)
                 GCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCT                                                                             <  SRR4302542.4498468/94‑1 (MQ=60)
                  GGTGGGGCCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTG                                                                            <  SRR4302542.3694110/94‑1 (MQ=60)
                  CGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTG                                                                            >  SRR4302542.1036669/1‑94 (MQ=60)
                  CGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATCCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTG                                                                            <  SRR4302542.4651020/94‑1 (MQ=60)
                   GTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGC                                                                           >  SRR4302542.5606417/1‑94 (MQ=60)
                      GGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAAT                                                                        <  SRR4302542.742178/94‑1 (MQ=60)
                        GTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATAT                                                                      >  SRR4302542.4486184/1‑94 (MQ=60)
                        GTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATAT                                                                      <  SRR4302542.1008051/94‑1 (MQ=60)
                          CATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCC                                                                    >  SRR4302542.1886205/1‑94 (MQ=60)
                           ATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCA                                                                   >  SRR4302542.4329372/1‑94 (MQ=60)
                           ATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCA                                                                   <  SRR4302542.6422784/94‑1 (MQ=60)
                            TTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAA                                                                  <  SRR4302542.17656/94‑1 (MQ=60)
                            TTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAA                                                                  <  SRR4302542.4923995/94‑1 (MQ=60)
                               CAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGC                                                               <  SRR4302542.1955089/94‑1 (MQ=60)
                                AGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCC                                                              >  SRR4302542.3071383/1‑94 (MQ=60)
                                  ACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTT                                                            >  SRR4302542.5998528/1‑94 (MQ=60)
                                    ATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTT                                                          >  SRR4302542.928663/1‑94 (MQ=60)
                                    ATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTT                                                          <  SRR4302542.5963862/94‑1 (MQ=60)
                                     TGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTC                                                         >  SRR4302542.4103002/1‑94 (MQ=60)
                                       GGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAG                                                       <  SRR4302542.7223086/94‑1 (MQ=60)
                                        GAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGC                                                      <  SRR4302542.5295802/94‑1 (MQ=60)
                                         AGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCA                                                     >  SRR4302542.2061178/1‑94 (MQ=60)
                                         AGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCA                                                     >  SRR4302542.4081371/1‑94 (MQ=60)
                                          GATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAA                                                    >  SRR4302542.7071716/1‑94 (MQ=60)
                                          GATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAA                                                    >  SRR4302542.824689/1‑94 (MQ=60)
                                           ATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAAT                                                   <  SRR4302542.5954645/94‑1 (MQ=60)
                                             CCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTT                                                 >  SRR4302542.2304809/1‑94 (MQ=60)
                                             CCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTT                                                 >  SRR4302542.5156958/1‑94 (MQ=60)
                                              CTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTC                                                <  SRR4302542.4756151/94‑1 (MQ=60)
                                               TTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCA                                               >  SRR4302542.4005423/1‑94 (MQ=60)
                                                TACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCAC                                              >  SRR4302542.6012817/1‑94 (MQ=60)
                                                TACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCAC                                              <  SRR4302542.4487121/94‑1 (MQ=60)
                                                 ACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACG                                             <  SRR4302542.164633/94‑1 (MQ=60)
                                                 ACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACG                                             >  SRR4302542.3861160/1‑94 (MQ=60)
                                                 ACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACG                                             <  SRR4302542.3840699/94‑1 (MQ=60)
                                                   GCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGG                                           <  SRR4302542.7273310/94‑1 (MQ=60)
                                                   GCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGG                                           <  SRR4302542.1979454/94‑1 (MQ=60)
                                                    CTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGC                                          >  SRR4302542.7034172/1‑94 (MQ=60)
                                                     TTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCG                                         <  SRR4302542.1689755/94‑1 (MQ=60)
                                                      TTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGC                                        >  SRR4302542.178548/1‑94 (MQ=60)
                                                      TTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGC                                        >  SRR4302542.7453488/1‑94 (MQ=60)
                                                        GTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTA                                      >  SRR4302542.3082234/1‑94 (MQ=60)
                                                         TAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAA                                     >  SRR4302542.2966785/1‑94 (MQ=60)
                                                          AGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAG                                    >  SRR4302542.4785290/1‑94 (MQ=60)
                                                          AGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAG                                    <  SRR4302542.424535/94‑1 (MQ=60)
                                                           GCTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGT                                   <  SRR4302542.4744435/94‑1 (MQ=60)
                                                           GCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGT                                   >  SRR4302542.5800904/1‑94 (MQ=60)
                                                           GCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGT                                   <  SRR4302542.4732851/94‑1 (MQ=60)
                                                           GCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGT                                   <  SRR4302542.1900359/94‑1 (MQ=60)
                                                            CTTAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTT                                  >  SRR4302542.6829284/1‑94 (MQ=60)
                                                            CTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTT                                  >  SRR4302542.2773813/1‑94 (MQ=60)
                                                            CTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACCCCTTTTCAGCAATTTCACGGGCGCTAAGTT                                  <  SRR4302542.7353475/94‑1 (MQ=60)
                                                             TTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTC                                 >  SRR4302542.796088/1‑94 (MQ=60)
                                                              TAATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCA                                <  SRR4302542.3564781/94‑1 (MQ=60)
                                                              TAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCA                                >  SRR4302542.3729427/1‑94 (MQ=60)
                                                               AATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAG                               >  SRR4302542.4173686/1‑94 (MQ=60)
                                                               AATTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAG                               >  SRR4302542.3114319/1‑94 (MQ=60)
                                                                 TTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTG                             >  SRR4302542.5659672/1‑94 (MQ=60)
                                                                 TTCTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTG                             <  SRR4302542.2960172/94‑1 (MQ=60)
                                                                   CTTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTT                           >  SRR4302542.4683946/1‑94 (MQ=60)
                                                                   CTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTT                           <  SRR4302542.4781887/94‑1 (MQ=60)
                                                                    TTCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGTCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTT                          >  SRR4302542.6272504/1‑94 (MQ=60)
                                                                     TCGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTT                         <  SRR4302542.3223808/94‑1 (MQ=60)
                                                                      CGATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTC                        >  SRR4302542.1007933/1‑94 (MQ=60)
                                                                       GATGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCT                       <  SRR4302542.2493315/94‑1 (MQ=60)
                                                                         TGGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAA                     >  SRR4302542.1393564/1‑94 (MQ=60)
                                                                          GGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAAC                    <  SRR4302542.93207/94‑1 (MQ=60)
                                                                          GGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAAC                    <  SRR4302542.5895399/94‑1 (MQ=60)
                                                                          GGTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAAC                    <  SRR4302542.4459265/94‑1 (MQ=60)
                                                                           GTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACTGGCGCTAAGTTCAGTGTTTTCTAACA                   >  SRR4302542.686091/1‑94 (MQ=60)
                                                                           GTGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACA                   <  SRR4302542.2088291/94‑1 (MQ=60)
                                                                           GTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACA                   >  SRR4302542.5225893/1‑94 (MQ=60)
                                                                            TGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAG                  <  SRR4302542.5786399/94‑1 (MQ=60)
                                                                            TGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAG                  <  SRR4302542.5749538/94‑1 (MQ=60)
                                                                            TGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAG                  <  SRR4302542.4274173/94‑1 (MQ=60)
                                                                            TGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAG                  <  SRR4302542.5684235/94‑1 (MQ=60)
                                                                            TGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAG                  <  SRR4302542.3543439/94‑1 (MQ=60)
                                                                            TGTGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAG                  >  SRR4302542.7011211/1‑94 (MQ=60)
                                                                              TGGAAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCG                <  SRR4302542.4567008/94‑1 (MQ=60)
                                                                                 AAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGC             >  SRR4302542.6077031/1‑94 (MQ=60)
                                                                                 AAATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGC             >  SRR4302542.126290/1‑94 (MQ=60)
                                                                                  AATGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCG            >  SRR4302542.4441464/1‑94 (MQ=60)
                                                                                  AATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCG            <  SRR4302542.7113659/94‑1 (MQ=60)
                                                                                    TGGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCG          <  SRR4302542.1772253/94‑1 (MQ=60)
                                                                                    TGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCG          <  SRR4302542.2905490/94‑1 (MQ=60)
                                                                                     GGTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCGC         >  SRR4302542.1343263/1‑94 (MQ=60)
                                                                                     GGTTGGTATAGATGCAAATGTCGCCTGGAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCGC         >  SRR4302542.1746889/1‑94 (MQ=60)
                                                                                      GTTGGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCGCC        >  SRR4302542.713878/1‑94 (MQ=60)
                                                                                      GTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCGCC        >  SRR4302542.5421885/1‑94 (MQ=60)
                                                                                         GGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCGCCGCA     >  SRR4302542.4103664/1‑94 (MQ=60)
                                                                                         GGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCGCCGCA     >  SRR4302542.4741648/1‑94 (MQ=60)
                                                                                         GGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCGCCGCA     <  SRR4302542.62798/94‑1 (MQ=60)
                                                                                         GGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCGCCGCA     <  SRR4302542.1489934/94‑1 (MQ=60)
                                                                                         GGTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCGCCGCA     >  SRR4302542.6254229/1‑94 (MQ=60)
                                                                                          GTGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCGCCGCAG    >  SRR4302542.509707/1‑94 (MQ=60)
                                                                                           TGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCGCCGCAGC   >  SRR4302542.5722693/1‑94 (MQ=60)
                                                                                           TGTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCGCCGCAGC   >  SRR4302542.3719648/1‑94 (MQ=60)
                                                                                            GTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCGCCGCAGCC  >  SRR4302542.4814212/1‑94 (MQ=60)
                                                                                            GTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCGCCGCAGCC  >  SRR4302542.7550499/1‑94 (MQ=60)
                                                                                            GTAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCGCCGCAGCC  >  SRR4302542.4354822/1‑94 (MQ=60)
                                                                                            |                                                                                             
AGTTCGCTGACGATTTCGCGTGGGGTCATTTCAGACATGGGAGATCCTTACGCTTTGTAGCTTAATTCTTCGATGGTGTGGAAATGGTTGGTATAGATGCAAATGTCGCCTGCAATATCCAACGCCTTTTCAGCAATTTCACGGGCGCTAAGTTCAGTGTTTTCTAACAGCGCGCGCGCCGCAGCC  >  NC_000913/4119290‑4119475

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑