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 3,621,612 T→C intergenic (+199/‑397) yhhH → / → yhhI hypothetical protein/putative receptor

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,621,6120TC79.2% 536.5 / 170.4 294intergenic (+199/‑397)yhhH/yhhIhypothetical protein/putative receptor
Reads supporting (aligned to +/- strand):  ref base T (36/25);  new base C (151/82);  total (187/107)
Fisher's exact test for biased strand distribution p-value = 4.55e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.61e-01

Only 100 of 294 total aligned reads displayed.

AAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATTGAATT  >  NC_000913/3621523‑3621702
                                                                                         |                                                                                          
aaaTACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTtga                                                                                         <  1:4545745/93‑1 (MQ=34)
aaaTACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTtga                                                                                         <  2:7270970/93‑1 (MQ=34)
aaaTACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCtga                                                                                         >  2:4625129/1‑93 (MQ=21)
aaaTACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCtga                                                                                         <  1:1886088/93‑1 (MQ=21)
 aaTACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCtgat                                                                                        <  2:6334137/93‑1 (MQ=21)
 aaTACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCtgat                                                                                        >  1:3993941/1‑93 (MQ=21)
 aaTACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCtgat                                                                                        >  2:5689827/1‑93 (MQ=21)
  atacatacCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCtgatg                                                                                       >  2:5881601/1‑93 (MQ=21)
   tacatacCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCtgatga                                                                                      >  2:5207086/1‑93 (MQ=18)
    acatacCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTgatgat                                                                                     <  2:7524761/93‑1 (MQ=34)
     catacCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATc                                                                                    >  1:5871029/1‑93 (MQ=21)
         ccAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCaa                                                                                <  2:5461090/93‑1 (MQ=255)
          cAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAAt                                                                               >  2:5779558/1‑93 (MQ=255)
          cAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAAt                                                                               >  1:5159034/1‑93 (MQ=255)
          cAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAAt                                                                               <  1:2939012/93‑1 (MQ=255)
           agaaaagaaaGGCGAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAAtt                                                                              <  2:2069302/93‑1 (MQ=255)
            gaaaagaaaGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTc                                                                             <  1:1323483/93‑1 (MQ=39)
            gaaaagaaaGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTc                                                                             >  2:4577541/1‑93 (MQ=255)
             aaaagaaaGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTcc                                                                            >  2:3343964/1‑93 (MQ=255)
              aaagaaagGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCt                                                                           <  2:4778687/93‑1 (MQ=38)
              aaagaaagGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCt                                                                           >  2:3431930/1‑93 (MQ=37)
               aagaaagGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCtt                                                                          <  1:1450427/93‑1 (MQ=255)
               aagaaagGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCtt                                                                          <  2:1634197/93‑1 (MQ=255)
                agaaagGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTg                                                                         >  2:4389684/1‑93 (MQ=255)
                 gaaagGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGa                                                                        >  1:2197985/1‑93 (MQ=38)
                 gaaagGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGa                                                                        >  2:489007/1‑93 (MQ=255)
                  aaagGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGaa                                                                       >  2:572797/1‑93 (MQ=255)
                   aagGCAAGTAAAGAGTATGGTTTTTATAATAAATGGAAAAAACTAAATGATTATGAATTATTTCGCTTTCCTTATTGTCGCAATTTCTTGaaa                                                                      >  1:3640549/1‑93 (MQ=11)
                    agGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGaaaa                                                                     <  2:2633405/93‑1 (MQ=37)
                      gCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAgg                                                                   >  2:2260194/1‑93 (MQ=255)
                       cAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGa                                                                  <  1:5391776/93‑1 (MQ=255)
                         aGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGAtt                                                                <  2:1237635/93‑1 (MQ=37)
                           tAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTc                                                              >  1:4428083/1‑93 (MQ=255)
                           tAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTc                                                              >  2:2913937/1‑93 (MQ=255)
                             aaGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCAt                                                            >  1:2516751/1‑93 (MQ=255)
                              agagTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATc                                                           <  1:1168855/93‑1 (MQ=255)
                              agagTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATc                                                           <  2:357275/93‑1 (MQ=255)
                              agagTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATc                                                           >  2:5504757/1‑93 (MQ=255)
                               gagTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCt                                                          >  2:1877915/1‑93 (MQ=255)
                               gagTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCt                                                          >  1:1841255/1‑93 (MQ=255)
                                 gTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGc                                                        <  1:6064481/93‑1 (MQ=255)
                                  tATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGcc                                                       >  2:6991425/1‑93 (MQ=255)
                                    tGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCag                                                     >  1:2640668/1‑93 (MQ=39)
                                    tGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCag                                                     >  2:2823303/1‑93 (MQ=39)
                                    tGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCag                                                     >  1:1261993/1‑93 (MQ=255)
                                    tGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCag                                                     >  2:2138739/1‑93 (MQ=255)
                                     ggTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCaga                                                    <  1:3859807/93‑1 (MQ=255)
                                         tatataATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTAt                                                <  1:657726/93‑1 (MQ=38)
                                         tatataATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTAt                                                >  1:1102856/1‑93 (MQ=255)
                                           tataATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTa                                              >  1:5838240/1‑93 (MQ=255)
                                           tataATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTa                                              >  1:819866/1‑93 (MQ=255)
                                            ataataAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTAc                                             <  1:375268/93‑1 (MQ=255)
                                            ataataAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTAc                                             >  1:7018341/1‑93 (MQ=255)
                                            ataataAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTAc                                             <  1:946055/93‑1 (MQ=37)
                                             taataaATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACa                                            <  2:3110828/93‑1 (MQ=255)
                                               ataaATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGt                                          >  1:4696044/1‑93 (MQ=255)
                                               ataaATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGt                                          >  1:7157354/1‑93 (MQ=255)
                                                taaATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGtt                                         >  1:5659165/1‑93 (MQ=255)
                                                  aaTGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTaa                                       >  1:6348248/1‑93 (MQ=21)
                                                   aTGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAag                                      >  2:6054718/1‑93 (MQ=34)
                                                   aTGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAag                                      >  2:2417350/1‑93 (MQ=18)
                                                    tGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAaga                                     >  2:6481334/1‑93 (MQ=21)
                                                     gTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAagag                                    >  2:4224184/1‑93 (MQ=33)
                                                       aaGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAggg                                  <  1:6774091/93‑1 (MQ=25)
                                                        aGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAgggg                                 <  1:6756569/93‑1 (MQ=255)
                                                         gAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAggggg                                >  1:7370102/1‑93 (MQ=255)
                                                         gAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAggggg                                >  1:7469961/1‑93 (MQ=255)
                                                         gAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAggggg                                >  2:3795635/1‑93 (MQ=255)
                                                         gAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAggggg                                <  1:5502830/93‑1 (MQ=255)
                                                           aaCTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGc                              <  1:2873702/93‑1 (MQ=255)
                                                              tAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAg                           >  1:1205781/1‑93 (MQ=37)
                                                               aaaTGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGa                          >  1:3243975/1‑93 (MQ=37)
                                                                aaTGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGAc                         >  1:4957382/1‑93 (MQ=38)
                                                                aaTGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGAc                         <  2:7341617/93‑1 (MQ=255)
                                                                aaTGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGAc                         >  2:5373286/1‑93 (MQ=255)
                                                                 atgatgatgAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACg                        >  1:2692482/1‑93 (MQ=255)
                                                                  tgatgatgaATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGc                       <  1:1011032/93‑1 (MQ=38)
                                                                     tgatgaATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGt                    >  1:1709067/1‑93 (MQ=38)
                                                                     tgatgaATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGt                    >  2:387907/1‑93 (MQ=255)
                                                                     tgatgaATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGt                    >  2:2519623/1‑93 (MQ=255)
                                                                      gatgaATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGtt                   >  2:1287023/1‑93 (MQ=255)
                                                                      gatgaATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGtt                   >  1:5992886/1‑93 (MQ=255)
                                                                      gatgaATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGtt                   >  2:611377/1‑93 (MQ=255)
                                                                      gatgaATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGtt                   >  2:5638392/1‑93 (MQ=255)
                                                                      gatgaATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGtt                   <  1:212995/93‑1 (MQ=255)
                                                                       atgaATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTa                  >  2:7179585/1‑93 (MQ=255)
                                                                        tgaATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAg                 <  2:1215038/93‑1 (MQ=255)
                                                                          aaTTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGAt               <  1:436828/93‑1 (MQ=38)
                                                                          aaTTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGAt               >  2:6188923/1‑93 (MQ=38)
                                                                          aaTTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGAt               >  1:4191637/1‑93 (MQ=255)
                                                                           attattTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGAtt              <  2:4309826/93‑1 (MQ=38)
                                                                           attattTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGAtt              <  1:6149047/93‑1 (MQ=37)
                                                                              attTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGc           >  2:6716131/1‑93 (MQ=255)
                                                                               tttCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCa          >  2:6609502/1‑93 (MQ=38)
                                                                               tttCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCa          >  2:1700347/1‑93 (MQ=255)
                                                                               tttCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCa          >  2:1480126/1‑93 (MQ=255)
                                                                                 tCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAAt        <  2:4165071/93‑1 (MQ=255)
                                                                                   gCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATTg      >  2:315039/1‑93 (MQ=255)
                                                                                    cTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATTGa     >  1:200065/1‑93 (MQ=255)
                                                                                      tACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATTGAAt   >  1:6944642/1‑93 (MQ=255)
                                                                                         |                                                                                          
AAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATTGAATT  >  NC_000913/3621523‑3621702

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
TGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATTGAATTCTG  >  NC_000913/3621519‑3621705
                                                                                             |                                                                                             
TGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACC                                                                                               >  SRR4302542.6032574/1‑94 (MQ=10)
   CAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGA                                                                                            >  SRR4302542.2904014/1‑94 (MQ=10)
    AAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGAT                                                                                           <  SRR4302542.4590240/94‑1 (MQ=10)
    AAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGAT                                                                                           <  SRR4302542.1902417/94‑1 (MQ=10)
    AAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGAT                                                                                           >  SRR4302542.4033341/1‑94 (MQ=10)
    AAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGAT                                                                                           >  SRR4302542.5635043/1‑94 (MQ=10)
     AATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATG                                                                                          >  SRR4302542.4320573/1‑94 (MQ=10)
        ACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATC                                                                                       >  SRR4302542.5927947/1‑94 (MQ=10)
         CATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCG                                                                                      >  SRR4302542.7158243/1‑94 (MQ=12)
             CCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAAT                                                                                  >  SRR4302542.1860405/1‑94 (MQ=25)
             CCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAAT                                                                                  >  SRR4302542.5209174/1‑94 (MQ=25)
             CCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAAT                                                                                  >  SRR4302542.5209173/1‑94 (MQ=25)
              CAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATT                                                                                 <  SRR4302542.2967160/94‑1 (MQ=25)
              CAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATT                                                                                 >  SRR4302542.1367555/1‑94 (MQ=25)
               AGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTC                                                                                >  SRR4302542.7083406/1‑94 (MQ=25)
                GAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCC                                                                               <  SRR4302542.1334880/94‑1 (MQ=26)
                GAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCC                                                                               >  SRR4302542.4175211/1‑94 (MQ=26)
                GAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCC                                                                               >  SRR4302542.2482892/1‑94 (MQ=25)
                 AAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCT                                                                              >  SRR4302542.5834078/1‑94 (MQ=25)
                  AAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTT                                                                             >  SRR4302542.7320525/1‑94 (MQ=25)
                  AAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTT                                                                             >  SRR4302542.6873379/1‑94 (MQ=25)
                  AAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTT                                                                             >  SRR4302542.1879029/1‑94 (MQ=25)
                   AAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTG                                                                            >  SRR4302542.7508909/1‑94 (MQ=26)
                   AAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTG                                                                            <  SRR4302542.1462941/94‑1 (MQ=25)
                   AAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTG                                                                            <  SRR4302542.4006128/94‑1 (MQ=25)
                   AAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTG                                                                            <  SRR4302542.62315/94‑1 (MQ=25)
                    AGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGA                                                                           >  SRR4302542.2216912/1‑94 (MQ=26)
                    AGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGA                                                                           <  SRR4302542.5665101/94‑1 (MQ=25)
                    AGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGA                                                                           >  SRR4302542.6964843/1‑94 (MQ=25)
                      AAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAA                                                                         >  SRR4302542.4206312/1‑94 (MQ=26)
                        AGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAG                                                                       <  SRR4302542.6168105/94‑1 (MQ=25)
                         GGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGG                                                                      <  SRR4302542.3709477/94‑1 (MQ=25)
                           TAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGAT                                                                    >  SRR4302542.4879057/1‑94 (MQ=26)
                           CAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGAT                                                                    <  SRR4302542.5444148/94‑1 (MQ=25)
                           CAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGAT                                                                    <  SRR4302542.836370/94‑1 (MQ=25)
                             AGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTT                                                                  <  SRR4302542.2993786/94‑1 (MQ=25)
                             AGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTT                                                                  <  SRR4302542.2058220/94‑1 (MQ=25)
                              GTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTC                                                                 >  SRR4302542.4471570/1‑94 (MQ=25)
                                AAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCAT                                                               >  SRR4302542.2541165/1‑94 (MQ=25)
                                 AAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATC                                                              >  SRR4302542.654005/1‑94 (MQ=26)
                                 AAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATC                                                              >  SRR4302542.3829404/1‑94 (MQ=26)
                                 AAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATC                                                              >  SRR4302542.6242131/1‑94 (MQ=25)
                                  AGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCT                                                             <  SRR4302542.1178952/94‑1 (MQ=25)
                                  AGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCT                                                             <  SRR4302542.5735800/94‑1 (MQ=25)
                                  AGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCT                                                             >  SRR4302542.1857194/1‑94 (MQ=25)
                                   GAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTG                                                            >  SRR4302542.454834/1‑94 (MQ=26)
                                    AGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGC                                                           <  SRR4302542.6427475/94‑1 (MQ=25)
                                    AGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGC                                                           >  SRR4302542.3809124/1‑94 (MQ=25)
                                     GTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCC                                                          <  SRR4302542.6123221/94‑1 (MQ=25)
                                     GTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCC                                                          >  SRR4302542.5177015/1‑94 (MQ=25)
                                      TATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCA                                                         >  SRR4302542.7025162/1‑94 (MQ=25)
                                       ATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAG                                                        >  SRR4302542.2666172/1‑94 (MQ=26)
                                       ATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAG                                                        >  SRR4302542.868034/1‑94 (MQ=25)
                                       ATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAG                                                        >  SRR4302542.1272843/1‑94 (MQ=25)
                                       ATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAG                                                        >  SRR4302542.1282294/1‑94 (MQ=25)
                                        TGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGA                                                       >  SRR4302542.5544682/1‑94 (MQ=25)
                                         GGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAG                                                      <  SRR4302542.3897927/94‑1 (MQ=25)
                                         GGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAG                                                      >  SRR4302542.4693066/1‑94 (MQ=25)
                                          GTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGT                                                     <  SRR4302542.2851082/94‑1 (MQ=26)
                                           TTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTA                                                    >  SRR4302542.4260689/1‑94 (MQ=25)
                                            TTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTAT                                                   <  SRR4302542.3111720/94‑1 (MQ=25)
                                            TTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTAT                                                   >  SRR4302542.1112288/1‑94 (MQ=25)
                                            TTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTAT                                                   <  SRR4302542.3740562/94‑1 (MQ=25)
                                             TATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATT                                                  <  SRR4302542.663398/94‑1 (MQ=26)
                                              ATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTA                                                 >  SRR4302542.6166564/1‑94 (MQ=26)
                                              ATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTA                                                 <  SRR4302542.4676874/94‑1 (MQ=25)
                                              ATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTA                                                 >  SRR4302542.5894877/1‑94 (MQ=25)
                                              ATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTA                                                 >  SRR4302542.1135302/1‑94 (MQ=25)
                                              ATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTA                                                 >  SRR4302542.826948/1‑94 (MQ=25)
                                               TATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTAC                                                >  SRR4302542.7087309/1‑94 (MQ=25)
                                                ATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACA                                               >  SRR4302542.1739205/1‑94 (MQ=26)
                                                ATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACA                                               >  SRR4302542.5291471/1‑94 (MQ=25)
                                                ATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACA                                               <  SRR4302542.954192/94‑1 (MQ=25)
                                                ATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACA                                               >  SRR4302542.6010489/1‑94 (MQ=25)
                                                ATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACA                                               <  SRR4302542.378534/94‑1 (MQ=25)
                                                 TAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAG                                              >  SRR4302542.2850672/1‑94 (MQ=25)
                                                  AATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGT                                             >  SRR4302542.7138104/1‑94 (MQ=24)
                                                  AATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGT                                             >  SRR4302542.7227569/1‑94 (MQ=23)
                                                  AATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGT                                             >  SRR4302542.4741887/1‑94 (MQ=23)
                                                   ATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTT                                            <  SRR4302542.4430306/94‑1 (MQ=20)
                                                   ATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTT                                            >  SRR4302542.5714145/1‑94 (MQ=20)
                                                    TAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTA                                           <  SRR4302542.674079/94‑1 (MQ=15)
                                                     AAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAA                                          >  SRR4302542.6410791/1‑94 (MQ=12)
                                                      AATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAG                                         <  SRR4302542.2643222/94‑1 (MQ=10)
                                                       ATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGA                                        >  SRR4302542.17773/1‑94 (MQ=10)
                                                       ATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGA                                        >  SRR4302542.3918093/1‑94 (MQ=10)
                                                        TGTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAG                                       <  SRR4302542.269727/94‑1 (MQ=10)
                                                         GTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGG                                      >  SRR4302542.5910215/1‑94 (MQ=10)
                                                         GTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGG                                      >  SRR4302542.5196476/1‑94 (MQ=10)
                                                         GTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGG                                      >  SRR4302542.6779077/1‑94 (MQ=10)
                                                         GTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGG                                      >  SRR4302542.1679533/1‑94 (MQ=10)
                                                         GTAAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGG                                      <  SRR4302542.4435693/94‑1 (MQ=10)
                                                           AAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGAATTCCCTGGAAAAGGATTTCATCTGCCGGAGAATTACAGTTAAGAGGGG                                    >  SRR4302542.2419495/1‑94 (MQ=11)
                                                           AAGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGG                                    <  SRR4302542.6840731/94‑1 (MQ=15)
                                                            AGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGG                                   >  SRR4302542.7442284/1‑94 (MQ=20)
                                                            AGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGG                                   >  SRR4302542.7543156/1‑94 (MQ=20)
                                                            AGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGG                                   >  SRR4302542.2569277/1‑94 (MQ=20)
                                                            AGAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGG                                   <  SRR4302542.6823032/94‑1 (MQ=20)
                                                             GAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGG                                  <  SRR4302542.5556317/94‑1 (MQ=23)
                                                             GAAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGG                                  <  SRR4302542.1181959/94‑1 (MQ=23)
                                                              AAACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGC                                 >  SRR4302542.5988867/1‑94 (MQ=25)
                                                               AACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCA                                <  SRR4302542.2901294/94‑1 (MQ=25)
                                                               AACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCA                                >  SRR4302542.7356678/1‑94 (MQ=25)
                                                               AACTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCA                                >  SRR4302542.7516667/1‑94 (MQ=25)
                                                                 CTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAG                              >  SRR4302542.1216147/1‑94 (MQ=25)
                                                                 CTAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAG                              >  SRR4302542.1216148/1‑94 (MQ=25)
                                                                  TAAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGA                             >  SRR4302542.3274637/1‑94 (MQ=25)
                                                                   ACATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGAC                            >  SRR4302542.4922686/1‑94 (MQ=25)
                                                                   AAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGAC                            >  SRR4302542.5005541/1‑94 (MQ=26)
                                                                   AAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGAC                            <  SRR4302542.1145213/94‑1 (MQ=25)
                                                                   AAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGAC                            >  SRR4302542.1061113/1‑94 (MQ=25)
                                                                   AAATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGAC                            <  SRR4302542.80913/94‑1 (MQ=25)
                                                                    AATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACG                           >  SRR4302542.1294578/1‑94 (MQ=25)
                                                                    AATGATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACG                           >  SRR4302542.2718448/1‑94 (MQ=25)
                                                                      TGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCT                         <  SRR4302542.1019740/94‑1 (MQ=26)
                                                                       GATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTG                        <  SRR4302542.6075620/94‑1 (MQ=25)
                                                                        ATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGT                       >  SRR4302542.1723918/1‑94 (MQ=26)
                                                                        ATGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGT                       >  SRR4302542.5445396/1‑94 (MQ=25)
                                                                         TGATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTT                      >  SRR4302542.6050932/1‑94 (MQ=25)
                                                                          GATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTA                     <  SRR4302542.214824/94‑1 (MQ=25)
                                                                          GATGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTA                     >  SRR4302542.1254783/1‑94 (MQ=25)
                                                                            TGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGA                   >  SRR4302542.4503405/1‑94 (MQ=25)
                                                                            TGAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGA                   >  SRR4302542.7577845/1‑94 (MQ=25)
                                                                             NNATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGAT                  <  SRR4302542.1997665/94‑1 (MQ=25)
                                                                             GAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGAT                  <  SRR4302542.6113442/94‑1 (MQ=26)
                                                                             GAATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGAT                  >  SRR4302542.4232967/1‑94 (MQ=25)
                                                                              AATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATT                 <  SRR4302542.440611/94‑1 (MQ=26)
                                                                              AATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATT                 <  SRR4302542.1243489/94‑1 (MQ=25)
                                                                               ATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTG                >  SRR4302542.6823734/1‑94 (MQ=26)
                                                                               ATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTacgtgga                >  SRR4302542.1285711/1‑87 (MQ=26)
                                                                               ATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTG                <  SRR4302542.6208543/94‑1 (MQ=25)
                                                                               ATTATTTCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTG                <  SRR4302542.682758/94‑1 (MQ=25)
                                                                                TTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGG               >  SRR4302542.2689780/1‑94 (MQ=26)
                                                                                  ATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCA             >  SRR4302542.3595909/1‑94 (MQ=26)
                                                                                     TCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATT          <  SRR4302542.1957543/94‑1 (MQ=26)
                                                                                     TCGCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATT          <  SRR4302542.1379664/94‑1 (MQ=25)
                                                                                       GCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATTGA        <  SRR4302542.209688/94‑1 (MQ=26)
                                                                                       GCTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATTGA        >  SRR4302542.201764/1‑94 (MQ=25)
                                                                                        CTTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATTGAA       >  SRR4302542.2162778/1‑94 (MQ=28)
                                                                                         TTACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATTGAAT      >  SRR4302542.7012878/1‑94 (MQ=30)
                                                                                          TACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATTGAATT     <  SRR4302542.3658978/94‑1 (MQ=33)
                                                                                           ACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATTGAATTC    <  SRR4302542.2155523/94‑1 (MQ=37)
                                                                                           ACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATTGAATTC    <  SRR4302542.1649172/94‑1 (MQ=37)
                                                                                           ACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATTGAATTC    <  SRR4302542.1550812/94‑1 (MQ=36)
                                                                                           ACCTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATTGAATTC    >  SRR4302542.376342/1‑94 (MQ=36)
                                                                                             CTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATTGAATTCTG  >  SRR4302542.2610264/1‑94 (MQ=39)
                                                                                             CTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATTGAATTCTG  >  SRR4302542.4195939/1‑94 (MQ=39)
                                                                                             |                                                                                             
TGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATAAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCGCAATTCCTTGAAAAGGATTTCATCTGCCAGAGTATTACAGTTAAGAGGGGGGCAAGACGCTGTTAGATTGGCAATTGAATTCTG  >  NC_000913/3621519‑3621705

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑