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
A12 F204 I1 R1 117 93.2 4682243 93.4% 4373214 99.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,712,518 (C)6→5 intergenic (+360/‑251) nth → / → dtpA DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III)/dipeptide and tripeptide permease A

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,712,5130C.98.0% 452.3 / 1.6 100intergenic (+355/‑256)nth/dtpADNA glycosylase and apyrimidinic (AP) lyase (endonuclease III)/dipeptide and tripeptide permease A
Reads supporting (aligned to +/- strand):  ref base C (0/1);  major base . (55/42);  minor base T (0/2);  total (55/45)
Fisher's exact test for biased strand distribution p-value = 1.95e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 113 total aligned reads displayed.

ATTGACCTACAAAACATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCACCCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTGAATTCCCCGCCTC  >  NC_000913/1712415‑1712607
                                                                                                  |                                                                                              
atTGACCTACAAAACATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCAcc                                                                                               <  2:1464738/100‑1 (MQ=255)
 ttGACCTACAAAACATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCAccc                                                                                              >  1:902792/1‑100 (MQ=255)
 ttGACCTACAAAACATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCAccc                                                                                              <  2:2171358/100‑1 (MQ=255)
 tccgatctcAAAACATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCAccc                                                                                              <  1:1741873/92‑1 (MQ=255)
   gACCTACAAAACATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCAccccc                                                                                            >  1:2265742/1‑100 (MQ=255)
   gACCTACAAAACATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCAccccc                                                                                            >  2:1811313/1‑100 (MQ=255)
   gACCTACAAAACATTACACTGGCTATTTTTCAGAAACTGGACTATCACACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCAccccc                                                                                            >  2:1301237/1‑100 (MQ=255)
     ccTACAAAACATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCAccccctc                                                                                          >  1:219189/1‑98 (MQ=255)
     ccTACAAAACATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCAccccctc                                                                                          >  2:2171406/1‑98 (MQ=255)
       tACAAAACATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCAccccctctc                                                                                        <  1:445480/100‑5 (MQ=255)
       tACAAAACATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCAccccctctc                                                                                        >  1:379432/1‑96 (MQ=255)
         cAAAACATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCAcccagatcgga                                                                                      >  2:1741868/1‑92 (MQ=255)
           aaaCATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCACCCCCCTCTcagt                                                                                    <  1:185889/100‑1 (MQ=255)
           aaaCATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTcagtg                                                                                   <  1:144167/100‑1 (MQ=255)
           aaaCATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTcagtg                                                                                   >  2:380128/1‑100 (MQ=255)
           aaaCATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTcagtg                                                                                   >  2:431617/1‑100 (MQ=255)
            aaCATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTcagtgc                                                                                  <  1:1745854/100‑1 (MQ=255)
            aaCATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTcagtgc                                                                                  <  2:1679653/100‑1 (MQ=255)
             aCATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTACGCCATCA‑CCCCCTCTcagtgca                                                                                 <  2:1634618/100‑1 (MQ=255)
              cATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTcagtgcag                                                                                >  2:1075327/1‑100 (MQ=255)
              cATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTcagtgcag                                                                                <  2:615445/100‑1 (MQ=255)
               aTTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTcagtgcagt                                                                               <  1:2318743/100‑1 (MQ=255)
                 tACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGa                                                                             <  1:414597/100‑1 (MQ=255)
                 tACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGa                                                                             <  2:1261323/100‑1 (MQ=255)
                 tACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGa                                                                             <  2:1261307/100‑1 (MQ=255)
                   cacTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGaaa                                                                           <  1:2139670/100‑1 (MQ=255)
                   cacTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGaaa                                                                           >  2:1604717/1‑100 (MQ=255)
                       ggCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAAt                                                                       >  1:1248448/1‑100 (MQ=255)
                       ggCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGAAGAAACTATCGCAGTTAAGAAATCA‑CCCCCTCTCAGTGAAGTGAAAAAAt                                                                       >  1:1364673/1‑100 (MQ=255)
                        gCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATc                                                                      <  2:271048/100‑1 (MQ=255)
                        gCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATc                                                                      >  1:356402/1‑100 (MQ=255)
                         cTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGCTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCt                                                                     <  2:1248113/100‑1 (MQ=255)
                          tATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTg                                                                    <  2:185505/100‑1 (MQ=255)
                           aTTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTga                                                                   >  2:324966/1‑99 (MQ=255)
                           aTTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGc                                                                   >  2:446689/1‑100 (MQ=255)
                             ttttCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCg                                                                 <  2:771428/100‑1 (MQ=255)
                             ttttCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCg                                                                 >  2:1778012/1‑100 (MQ=255)
                              tttCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGt                                                                <  1:1301240/100‑1 (MQ=255)
                              tttCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGt                                                                <  1:1529072/100‑1 (MQ=255)
                               ttCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGtt                                                               <  1:2171413/100‑1 (MQ=255)
                                 cAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTAc                                                             >  1:142978/1‑100 (MQ=255)
                                    aaaCTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGtt                                                          >  1:1496727/1‑100 (MQ=255)
                                     aaCTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGttt                                                         >  1:991743/1‑100 (MQ=255)
                                         ggACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTg                                                     <  2:356400/100‑1 (MQ=255)
                                         ggACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTg                                                     <  2:720376/100‑1 (MQ=255)
                                         ggACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTg                                                     >  1:720377/1‑100 (MQ=255)
                                         ggACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTg                                                     >  1:1984254/1‑100 (MQ=255)
                                         ggACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTg                                                     >  1:944829/1‑100 (MQ=255)
                                           aCTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGaa                                                   <  1:2235231/100‑1 (MQ=255)
                                              aTCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGaaaaa                                                >  2:929265/1‑100 (MQ=255)
                                              aTCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGaaaaa                                                >  1:171179/1‑100 (MQ=255)
                                                ctcACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAAtt                                              >  2:1037308/1‑100 (MQ=255)
                                                 tcACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAAttt                                             >  1:1227726/1‑100 (MQ=255)
                                                 tcACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAAtt                                              >  2:1141706/1‑99 (MQ=255)
                                                    cTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAAc                                          <  1:116737/100‑1 (MQ=255)
                                                      aGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGc                                        >  2:1995489/1‑100 (MQ=255)
                                                      aGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGc                                        >  1:879009/1‑100 (MQ=255)
                                                      aGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGc                                        >  2:1107821/1‑100 (MQ=255)
                                                       gTAAAAACGCTAAATAGCAGAACCTATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTCTTTGAAAAATTTAACGc                                        >  2:2256484/1‑99 (MQ=255)
                                                       gTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCt                                       >  2:2168146/1‑100 (MQ=255)
                                                        tAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCTATCA‑CACCCTCTGAGTGCAGTGAAAAAATCTGCCGCTCCATTTTTTGAAAAATTTAACGCTg                                      >  2:712513/1‑100 (MQ=255)
                                                         aaaaaCGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCt                                       >  2:412022/1‑98 (MQ=255)
                                                         aaaaaCGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTgg                                     >  1:1738622/1‑100 (MQ=255)
                                                          aaaaCGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGa                                    >  2:1632183/1‑100 (MQ=255)
                                                          aaaaCGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGa                                    <  2:142976/100‑1 (MQ=255)
                                                            aaCGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATa                                  <  1:380130/100‑1 (MQ=255)
                                                              cGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAAc                                >  1:1055803/1‑100 (MQ=255)
                                                              cGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAAc                                <  1:1470501/100‑1 (MQ=255)
                                                               gCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACa                               <  1:1075329/100‑1 (MQ=255)
                                                                cTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACAt                              <  1:2168153/100‑1 (MQ=255)
                                                                  aaaTAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACAttt                            >  1:1844142/1‑100 (MQ=255)
                                                                  aaaTAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACAttt                            >  2:179887/1‑100 (MQ=255)
                                                                  aaaTAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACAttt                            >  2:1138745/1‑100 (MQ=255)
                                                                     tAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCATTGAAAAAATCTTCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTccc                         >  2:1952595/1‑100 (MQ=255)
                                                                     tAGCAAAACATATCTCCGGTAAGCCATCA‑CCCCCTCTCATTGCATTTAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTccc                         >  2:1952691/1‑100 (MQ=255)
                                                                       gCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCgg                       >  2:539465/1‑100 (MQ=255)
                                                                         aGAACATATCGCCGTTAAGCCATAA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGaa                     >  1:805379/1‑100 (MQ=255)
                                                                            aCATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATgg                  >  1:1043533/1‑100 (MQ=255)
                                                                             cATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGt                 <  2:1738617/100‑1 (MQ=255)
                                                                             cATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGt                 >  1:1614005/1‑100 (MQ=255)
                                                                              atatCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGtt                <  2:935902/100‑1 (MQ=255)
                                                                               tatCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTg               <  1:1098743/100‑1 (MQ=255)
                                                                               tatCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTg               <  1:70017/100‑1 (MQ=255)
                                                                               tatCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTg               <  2:2333738/100‑1 (MQ=255)
                                                                               tatCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTAAGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTg               <  2:1364670/100‑1 (MQ=255)
                                                                                atCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTGa              >  1:1917134/1‑100 (MQ=255)
                                                                                 tCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTGaa             <  1:67819/100‑1 (MQ=255)
                                                                                 tCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTGaa             >  1:42838/1‑100 (MQ=255)
                                                                                 tCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTATTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTGaa             <  2:847969/100‑1 (MQ=255)
                                                                                  cGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTGAAt            >  1:623237/1‑100 (MQ=255)
                                                                                  cGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTGAAt            <  2:2157395/100‑1 (MQ=255)
                                                                                    ccGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTGAATTc          >  2:1173003/1‑100 (MQ=255)
                                                                                     cGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTGAATTcc         >  1:406781/1‑100 (MQ=255)
                                                                                      gTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTGAATTccc        >  2:429901/1‑100 (MQ=255)
                                                                                      gTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTGAATTccc        <  1:63023/100‑1 (MQ=255)
                                                                                       gatctccATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTGAATTcccc       <  1:1443070/95‑1 (MQ=255)
                                                                                          aGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTGAATTCCCCGcc    >  2:1671373/1‑100 (MQ=255)
                                                                                            ccATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTGAATTCCCCGCCTc  <  2:1844137/100‑1 (MQ=255)
                                                                                            ccATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTGAATTCCCCGCCTc  <  2:902790/100‑1 (MQ=255)
                                                                                            ccATCA‑CCCCCTCGCAGTGCAGTGAAAAAATCTGCCGTGACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTGAATTccccagatc  >  2:1443066/1‑95 (MQ=255)
                                                                                                  |                                                                                              
ATTGACCTACAAAACATTACACTGGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCACCCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCCGGAATGGTTGAATTCCCCGCCTC  >  NC_000913/1712415‑1712607

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A