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
A4 F53 I1 R1 64 112.2 5657101 94.0% 5317674 99.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 107,553 (T)9→8 intergenic (+79/‑152) lpxC → / → secM UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913107,5450T.97.9% 428.8 / 2.1 96intergenic (+71/‑160)lpxC/secMUDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation
Reads supporting (aligned to +/- strand):  ref base T (1/1);  new base . (45/49);  total (46/50)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.52e-01

Only 100 of 104 total aligned reads displayed.

CAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGTTTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTGGAC  >  NC_000913/107447‑107640
                                                                                                  |                                                                                                
cAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGtt                                                                                                 >  1:5974/1‑100 (MQ=255)
 aaaGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGACCAGGTGAACCAGTCGttt                                                                                                >  1:237200/1‑100 (MQ=255)
  aaGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGtttt                                                                                               >  1:2317475/1‑100 (MQ=255)
   aGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGttttt                                                                                              >  2:396923/1‑100 (MQ=255)
      gcCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGtttttttt                                                                                           <  2:2665117/100‑1 (MQ=255)
       ccTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGtttttttt                                                                                           <  1:190884/99‑1 (MQ=255)
         ttCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGttttttttga                                                                                         >  2:742659/1‑97 (MQ=255)
          tCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGttttttttgaat                                                                                       >  2:2589126/1‑96 (MQ=255)
            aGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAAttt                                                                                    <  1:433145/100‑1 (MQ=255)
              cTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTta                                                                                  <  1:1669954/100‑1 (MQ=255)
               tGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTtat                                                                                 <  1:301281/100‑1 (MQ=255)
               tGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTtat                                                                                 <  1:2584492/100‑1 (MQ=255)
               tGTACTGCCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTta                                                                                  <  1:1599185/99‑1 (MQ=255)
                gTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTtata                                                                                <  1:2720632/100‑1 (MQ=255)
                 tACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTCTGAATTTTATaa                                                                               <  2:1852123/100‑1 (MQ=255)
                  aCTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAag                                                                              <  2:2020461/100‑1 (MQ=255)
                   cTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAaga                                                                             <  2:2760597/100‑1 (MQ=255)
                    tGGCATAACGACATTTATACTCTCGTAGAAAAGTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAagag                                                                            <  1:2731033/100‑1 (MQ=255)
                     ggCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGc                                                                           >  1:2541418/1‑100 (MQ=255)
                     ggCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGc                                                                           >  2:716728/1‑100 (MQ=255)
                     ggCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGc                                                                           >  2:469502/1‑100 (MQ=255)
                     ggCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGc                                                                           >  2:1742106/1‑100 (MQ=255)
                       cATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCta                                                                         >  2:2172049/1‑100 (MQ=255)
                       cATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCta                                                                         <  2:2427028/100‑1 (MQ=255)
                         tAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCtata                                                                       <  1:1571575/100‑1 (MQ=255)
                            cGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATaaaa                                                                    <  2:2202922/100‑1 (MQ=255)
                             gACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATaaaaa                                                                   <  1:2743906/100‑1 (MQ=255)
                               cATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑c                                                                <  1:2603719/100‑1 (MQ=255)
                               cATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑c                                                                <  2:2614509/100‑1 (MQ=255)
                                 tttATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑Cgg                                                              >  2:633798/1‑100 (MQ=255)
                                  ttATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGt                                                             >  2:2143301/1‑100 (MQ=255)
                                  ttATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGt                                                             <  1:1308621/100‑1 (MQ=255)
                                    ataCTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTg                                                            >  2:592599/1‑99 (MQ=255)
                                       cTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGaa                                                        >  2:887977/1‑100 (MQ=255)
                                         gTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACg                                                      >  1:1814171/1‑100 (MQ=255)
                                            gTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTg                                                   >  2:1155683/1‑100 (MQ=255)
                                             tataAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGt                                                  >  2:1624903/1‑100 (MQ=255)
                                              ntaAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGtt                                                 >  1:2307277/2‑100 (MQ=255)
                                               taAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGttt                                                <  1:633792/100‑1 (MQ=255)
                                               taAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CAGTGCGAACGCTGttt                                                >  2:2777547/1‑100 (MQ=255)
                                               taAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑CTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGttt                                                >  2:1411839/1‑100 (MQ=255)
                                                aaaaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGTTTTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGtttt                                               >  1:2223497/1‑100 (MQ=255)
                                                 aaaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTc                                              >  1:667641/1‑100 (MQ=255)
                                                 aaaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTc                                              <  2:2307296/100‑1 (MQ=255)
                                                 aaaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTc                                              >  2:1579043/1‑100 (MQ=255)
                                                 aaaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTc                                              <  1:153638/100‑1 (MQ=255)
                                                  aaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑‑TTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTc                                              >  1:927433/1‑98 (MQ=255)
                                                   aTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCtt                                            >  1:812890/1‑100 (MQ=255)
                                                    ttCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTa                                           <  1:716722/100‑1 (MQ=255)
                                                    ttCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTa                                           <  1:1523492/100‑1 (MQ=255)
                                                    ttCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTa                                           <  2:1855678/100‑1 (MQ=255)
                                                     tCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTaa                                          <  2:486027/100‑1 (MQ=255)
                                                      cGACTGGCCAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAg                                         <  2:918097/100‑1 (MQ=255)
                                                      cGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTc                                              <  1:944435/95‑1 (MQ=255)
                                                         cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCAc                                      >  2:194315/1‑100 (MQ=255)
                                                           ggCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACtt                                    >  2:1145428/1‑100 (MQ=255)
                                                           ggCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACtt                                    >  2:1425642/1‑100 (MQ=255)
                                                           ggCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACtt                                    >  2:303067/1‑100 (MQ=255)
                                                           ggCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACtt                                    >  1:147741/1‑100 (MQ=255)
                                                           ggCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACtt                                    >  2:884020/1‑100 (MQ=255)
                                                            gCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACttt                                   >  1:2605664/1‑100 (MQ=255)
                                                             cAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGTTTTTTTTT‑AATTTTTTTAAAGCTATAAAAAACCGTTCCGAAGCCTGTTTT‑TTAAACCCtttt                                  >  1:2496333/1‑100 (MQ=255)
                                                             cAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTCTTTTGAATTTTATAAGAGCTATAAAAAA‑AGGTGCGAACGCTGTTTTCTTAAGCACtttt                                  >  2:984563/1‑100 (MQ=255)
                                                              aaaTCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTc                                 >  2:1006954/1‑100 (MQ=255)
                                                               aaTCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTcc                                >  1:2183020/1‑100 (MQ=255)
                                                               aaTCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAACAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTcc                                >  1:1180665/1‑100 (MQ=255)
                                                                 tCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGc                              <  2:2317494/100‑1 (MQ=255)
                                                                 tCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGc                              <  1:508468/100‑1 (MQ=255)
                                                                  cTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGca                             <  1:1172787/100‑1 (MQ=255)
                                                                  cTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGca                             >  2:2436193/1‑100 (MQ=255)
                                                                  cTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGc                              >  1:1633415/1‑99 (MQ=255)
                                                                        ctctctCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGACTTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACtt                       >  2:1997398/1‑100 (MQ=255)
                                                                        ctctctCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACtt                       <  1:2143286/100‑1 (MQ=255)
                                                                        ctctctCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACtt                       >  2:2453592/1‑100 (MQ=255)
                                                                          ctctcCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTAt                     >  2:2756713/1‑100 (MQ=255)
                                                                           tctcCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATc                    <  1:2646043/100‑1 (MQ=255)
                                                                             tcCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCtt                  <  2:2545726/100‑1 (MQ=255)
                                                                             tcCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCt                   <  1:426138/99‑1 (MQ=255)
                                                                              ccGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCt                   <  2:1973811/98‑1 (MQ=255)
                                                                                ggCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCAt               >  2:2780719/1‑100 (MQ=255)
                                                                                 gCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCAtt              <  1:2512718/100‑1 (MQ=255)
                                                                                   cAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCg            >  2:297877/1‑100 (MQ=255)
                                                                                   cAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCg            >  2:1878223/1‑100 (MQ=255)
                                                                                   cAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCg            <  1:1350977/100‑1 (MQ=255)
                                                                                    aGGTGAACCAGTCGTTTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCg            <  1:368818/100‑1 (MQ=255)
                                                                                    aGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGt           <  1:1006947/100‑1 (MQ=255)
                                                                                    aGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGt           <  1:1007076/100‑1 (MQ=255)
                                                                                     ggTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTg          >  2:1284768/1‑100 (MQ=255)
                                                                                     ggTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTg          >  2:2746658/1‑100 (MQ=255)
                                                                                      gTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGc         <  1:1665610/100‑1 (MQ=255)
                                                                                      gTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGc         <  1:797225/100‑1 (MQ=255)
                                                                                       tGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGc         <  2:812896/99‑1 (MQ=255)
                                                                                       tGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCt        >  2:434574/1‑100 (MQ=255)
                                                                                         aaCCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCtgt      <  1:758810/100‑1 (MQ=255)
                                                                                          aCCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCtgtg     >  2:2726178/1‑100 (MQ=255)
                                                                                          aCCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCtgtg     <  2:1600294/100‑1 (MQ=255)
                                                                                           ccAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCtgtg     <  1:2247201/99‑1 (MQ=255)
                                                                                           ccAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTgg    <  1:1778693/100‑1 (MQ=255)
                                                                                             aGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTGGAc  <  2:1814184/100‑1 (MQ=255)
                                                                                             aGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTGGAc  <  1:1145420/100‑1 (MQ=255)
                                                                                                  |                                                                                                
CAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGTTTTTTTTTGAATTTTATAAGAGCTATAAAAAA‑CGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTGGAC  >  NC_000913/107447‑107640

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A