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 F244 I0 R1 270 114.4 5840133 93.3% 5448844 99.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 107,553 (T)9→8 100% 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.90.7% 356.1 / 28.6 96intergenic (+71/‑160)lpxC/secMUDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation
Reads supporting (aligned to +/- strand):  ref base T (7/1);  new base . (41/46);  total (48/48)
Fisher's exact test for biased strand distribution p-value = 5.90e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.83e-01

Only 100 of 106 total aligned reads displayed.

AAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGTTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTGGAC  >  NC_000913/107448‑107640
                                                                                                 |                                                                                               
aaaGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGttt                                                                                               >  2:1290756/1‑100 (MQ=255)
  aGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGttttt                                                                                             <  1:1232349/100‑1 (MQ=255)
   gcgcCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACAAGTCGtttttt                                                                                            <  2:752052/100‑1 (MQ=255)
    cgcCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGttttttt                                                                                           <  2:1149441/100‑1 (MQ=255)
     gcCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGtttttttt                                                                                          <  1:699527/100‑1 (MQ=255)
     gcCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGtttttttt                                                                                          <  1:700707/100‑1 (MQ=255)
      ccTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGttttttttg                                                                                         <  2:573728/100‑2 (MQ=255)
         tCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGttttttttgaa                                                                                       <  1:2777385/99‑4 (MQ=255)
          cAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAAtt                                                                                    >  2:220553/1‑100 (MQ=255)
          cAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAAtt                                                                                    >  1:180359/1‑100 (MQ=255)
                tACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGTATTTTATaa                                                                              >  1:2752900/1‑100 (MQ=255)
                 aCTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAag                                                                             <  2:2265604/100‑1 (MQ=255)
                  cTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAag                                                                             >  1:602845/1‑99 (MQ=255)
                    ggCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAagagn                                                                          <  1:1805364/100‑2 (MQ=255)
                    ggCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAaga                                                                            >  1:389407/1‑98 (MQ=255)
                     gCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGCATTTTATACGAGCt                                                                         >  1:1812775/1‑100 (MQ=255)
                      cATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCta                                                                        >  1:2405319/1‑100 (MQ=255)
                       aTAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCtat                                                                       >  2:1591451/1‑100 (MQ=255)
                        tAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCtata                                                                      >  2:2657441/1‑100 (MQ=255)
                        tAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCtata                                                                      >  1:1386873/1‑100 (MQ=255)
                           cGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATaaaa                                                                   >  1:1978293/1‑100 (MQ=255)
                            gACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATaaaaa                                                                  <  2:1723118/100‑1 (MQ=255)
                            gACATTTATACTGTCGTATAAAATTCGACTGGCAAACCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATaaaaa                                                                  <  2:2776423/100‑1 (MQ=255)
                               aTTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGTTTTTTTTT‑TTTTTTTTAAGAGCTATAAAacac                                                                >  1:2807696/1‑99 (MQ=255)
                                tttATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACgg                                                              <  2:1058537/100‑1 (MQ=255)
                                 ttATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGt                                                             >  2:2837505/1‑100 (MQ=255)
                                  tataCTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTg                                                            <  1:1121429/100‑1 (MQ=255)
                                   aaaatatCGAATAAAATTCGAATGGAAAAACTGGCAAACTCTCCGAACAGGAAAAACAGTCGTTTTTTTTT‑AATTTTAAAAAAAAAAAAAAAAACgg                                                              <  1:1273141/91‑1 (MQ=255)
                                      cTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGGATTTTATAAGAGCTATAAAAAACGGTGCGa                                                         >  1:961719/1‑99 (MQ=255)
                                        gTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACg                                                      >  1:1365895/1‑100 (MQ=255)
                                        gTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACg                                                      >  2:208140/1‑100 (MQ=255)
                                         cgatctaAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGc                                                     <  1:1121286/95‑1 (MQ=255)
                                          cGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCt                                                    >  2:1418130/1‑100 (MQ=255)
                                           gTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGCACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATCACAAACGGTTCGAACGCTg                                                   >  1:1142957/1‑100 (MQ=255)
                                           gTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTg                                                   <  2:920104/100‑1 (MQ=255)
                                           gTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTg                                                   <  2:97218/100‑1 (MQ=255)
                                            tataAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGt                                                  >  1:2150503/1‑100 (MQ=255)
                                             ataAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGTTTTTTTTT‑ATTTTTATTAGAGCTATAAAAAACGGTGCGAACGCTGtt                                                 >  1:37830/1‑100 (MQ=255)
                                              taAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGTTTTTTTTT‑TATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGtt                                                 >  1:1205411/1‑99 (MQ=255)
                                              taAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGttt                                                <  2:962734/100‑1 (MQ=255)
                                               aaaaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGcagatcg                                               >  2:1121291/1‑94 (MQ=255)
                                                aaaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTc                                              >  2:1955866/1‑100 (MQ=255)
                                                 aaTTTGACTATCAAATCTGGCACTCTCTCCGAACAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCt                                             <  1:2424013/100‑1 (MQ=255)
                                                  aTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGATTTTTATAAGATATATAAAAAACGGTGCGAACTCTGTTTTCtt                                            >  1:1302587/1‑100 (MQ=255)
                                                     cGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGTATTTTATAAGAGCTATAAAGAACGGTGCGAATGCTGTTTTCTTAAg                                         >  1:2088053/1‑100 (MQ=255)
                                                     cGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGCATTTTATCAGAGCTATAAAGAACGGTGCGTACTCTGTTTTCTTacg                                         >  1:787907/1‑98 (MQ=255)
                                                     cGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAg                                         <  2:92721/100‑1 (MQ=255)
                                                     cGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAg                                         <  2:2163233/100‑1 (MQ=255)
                                                     cGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAg                                         <  1:2380318/100‑1 (MQ=255)
                                                      gACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGc                                        <  1:2706429/100‑1 (MQ=255)
                                                      gACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGc                                        <  2:180360/100‑1 (MQ=255)
                                                      gACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGc                                        <  1:517018/100‑1 (MQ=255)
                                                        cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGTTTTTTTTT‑TTTTTTTTAAGAGCTATAAAAAAACGTGCGATTTCTGTTTTTTTGAGc                                        >  1:1384565/1‑98 (MQ=255)
                                                        cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCAc                                      <  2:1085617/100‑1 (MQ=255)
                                                          ggCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGTTTTTTTTT‑TTTTTTTTCAAAACTATAAAACACGGTGCGTATTTTGTTTTTTTAAGCACtt                                    >  1:2703024/1‑100 (MQ=255)
                                                          ggCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACtt                                    >  2:1383259/1‑100 (MQ=255)
                                                           gCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACttt                                   <  2:1285789/100‑1 (MQ=255)
                                                               aTCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCg                               >  2:1240082/1‑100 (MQ=255)
                                                               aTCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCg                               >  2:2862770/1‑100 (MQ=255)
                                                               aTCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCg                               <  2:1417685/100‑1 (MQ=255)
                                                                tCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCAAACGCTGTTTTCTTAAGCACTTTTCCGc                              <  1:914956/100‑1 (MQ=255)
                                                                  tGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAACAAACCGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGc                              >  1:758522/1‑98 (MQ=255)
                                                                  tGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcac                            <  2:1230481/100‑1 (MQ=255)
                                                                  tGGCACTCACTCCGGCCAGGTGAACCAGTCG‑GTGTTTTTGAATTTTATAAGAGCTATAAAAAGCGGTGCGAACGCTGTTTTCTTAATCACTTTTGCGcat                            <  1:2871095/100‑2 (MQ=255)
                                                                   ggCACTCTCTCCGTCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcaca                           <  1:460387/100‑1 (MQ=255)
                                                                   ggCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcaca                           <  2:327225/100‑1 (MQ=255)
                                                                   ggCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcaca                           <  2:2654517/100‑1 (MQ=255)
                                                                    gCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcac                            >  1:2499204/1‑98 (MQ=255)
                                                                     cACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc                         >  2:2437709/1‑100 (MQ=255)
                                                                      aCTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACt                        >  1:2520822/1‑100 (MQ=255)
                                                                      aCTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTAAAAAAAAAAAAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACt                        <  1:422334/100‑1 (MQ=255)
                                                                        tctctcCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAACTATAAAAAACAGTGAGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTa                      >  1:1567271/1‑100 (MQ=255)
                                                                         ctctcCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCTCACAACTTAt                     >  1:2779635/1‑100 (MQ=255)
                                                                          tctcCTGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTAGAAGAGCTATTAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATc                    <  1:2363823/100‑1 (MQ=255)
                                                                          tctcCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATc                    <  2:1078937/100‑1 (MQ=255)
                                                                          tctcCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATc                    >  2:1309913/1‑100 (MQ=255)
                                                                          tctcCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATc                    >  2:669590/1‑100 (MQ=255)
                                                                          tctcCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATc                    >  2:1309157/1‑100 (MQ=255)
                                                                          tctcCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATc                    >  2:2772871/1‑100 (MQ=255)
                                                                          tcaccGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAAAGAAAAAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTa                      <  1:1321996/95‑1 (MQ=255)
                                                                           ctcCGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCt                   <  1:2381929/100‑1 (MQ=255)
                                                                             ccGGCCAGGTGAACCAGTCGTTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCtt                  >  1:2356043/1‑100 (MQ=255)
                                                                             ccGGCCAGGTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTc                 >  2:1092367/1‑100 (MQ=255)
                                                                               gtccAGGTGAAACAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCAt               <  1:1770603/98‑1 (MQ=255)
                                                                               ggCCAGGTGAACCAGTCG‑TTTTTTTTGACTTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCAt               >  1:2350657/1‑100 (MQ=255)
                                                                                   aGGTGAACCAGTCGTTTTTTTTT‑AATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGt           >  1:392692/1‑100 (MQ=255)
                                                                                    ggTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTg          <  1:269730/100‑1 (MQ=255)
                                                                                    ggTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTg          >  2:1303603/1‑100 (MQ=255)
                                                                                     gTGAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGc         <  1:2443894/100‑1 (MQ=255)
                                                                                       gAACCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCtg       >  2:2843609/1‑100 (MQ=255)
                                                                                        aaCCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCtgt      <  2:1205416/100‑1 (MQ=255)
                                                                                        aaCCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCAC‑TTTCCGCACAACTTATCTTCATTCGTGCtgtg     <  2:1462046/100‑1 (MQ=255)
                                                                                         aCCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCtgtg     <  2:2510895/100‑1 (MQ=255)
                                                                                         aCCAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCtgtg     <  1:2500762/100‑1 (MQ=255)
                                                                                          taaGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAACAAACAGTGCGAACGCTGTTTTCTTAAGCACTGTTCCGCACATCTTATCTTCATTCGTGCtgtg     <  1:942922/97‑1 (MQ=255)
                                                                                          ccAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCtgt      <  2:578528/98‑1 (MQ=255)
                                                                                          ccAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTgg    <  2:286978/100‑1 (MQ=255)
                                                                                          ccAGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTgg    <  2:2491604/100‑1 (MQ=255)
                                                                                            aGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTGGAc  >  2:394035/1‑100 (MQ=255)
                                                                                            aGTCG‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTGGAc  <  1:1623263/100‑1 (MQ=255)
                                                                                                 |                                                                                               
AAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGTTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTGGAC  >  NC_000913/107448‑107640

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A