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 F1 I2 R1 780 68.3 3343050 93.5% 3125751 102.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,876,944 G→A A122T (GCC→ACC)  iap → aminopeptidase in alkaline phosphatase isozyme conversion

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,876,9440GA100.0% 225.0 / NA 69A122T (GCC→ACC) iapaminopeptidase in alkaline phosphatase isozyme conversion
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (33/36);  total (33/36)

GTCGGTATATTTATACCGCCCGCGATAATCGTAAGAGCTGGCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTACCGAGTA  >  NC_000913/2876816‑2877074
                                                                                                                                |                                                                                                                                  
gTCGGTATATTTATACCGCCCGCGATAATCGTAAGAGCTGGCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAg                                                                                                                          <  2:827838/139‑1 (MQ=255)
            ataCCGCCCGCGATAATCGTAAGAGCTGGCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGc                                                                                                              <  2:1560702/139‑1 (MQ=255)
               ccgcccgcGATAATCGTAAGAGCTGGCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGa                                                                                                           >  2:594378/1‑139 (MQ=255)
                  cccgcGATAATCGTAAGAGCTGGCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGc                                                                                                        >  1:173504/1‑139 (MQ=255)
                  cccgcGATAATCGTAAGAGCTGGCAT‑ACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGcc                                                                                                       >  2:1226205/1‑139 (MQ=255)
                    cgcgATAATCGTAAGAGCTGGCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTg                                                                                                                  >  2:811160/1‑127 (MQ=255)
                    cgcgATAATCGTAAGAGCTGGCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTg                                                                                                                  <  1:811160/127‑1 (MQ=255)
                           aTCGTAAGAGCTGGCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTcgg                                                                                               <  1:594378/139‑1 (MQ=255)
                                aaGAGCTGGCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGc                                                                                          <  2:234458/139‑1 (MQ=255)
                                  gagCTGGCATAACGTGACGGGAGGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTg                                                                                        <  1:100036/139‑1 (MQ=255)
                                  gagCTGGCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTg                                                                                        <  1:561592/139‑1 (MQ=255)
                                       ggCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATg                                                                                                         >  1:1307531/1‑117 (MQ=255)
                                       ggCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATg                                                                                                         <  2:1307531/117‑1 (MQ=255)
                                       ggCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGtt                                                                                   >  2:1411551/1‑139 (MQ=255)
                                        gCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATg                                                                                                         <  2:15042/116‑1 (MQ=255)
                                        gCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATg                                                                                                         >  1:15042/1‑116 (MQ=255)
                                          cataCGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACa                                                                                <  1:1226205/136‑1 (MQ=255)
                                            aaCGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAg                                                                              <  2:203264/139‑1 (MQ=255)
                                             aCGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGcc                                                                                                             <  2:572359/107‑1 (MQ=255)
                                             aCGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGcc                                                                                                             >  1:572359/1‑107 (MQ=255)
                                              cGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGa                                                                            <  1:1411551/139‑1 (MQ=255)
                                                  aCGGGAAGTACGGTGATTGCCGCTCATGACGGCAAAGCGCCGCAGAAGATCACCATTATGGCGCATCTGGATACTTACAcc                                                                                                                                  >  1:965459/1‑81 (MQ=255)
                                                  aCGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACAcc                                                                                                                                  <  2:965459/81‑1 (MQ=255)
                                                       aaGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCg                                                                                                                        >  2:1453437/1‑86 (MQ=255)
                                                       aaGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCg                                                                                                                        <  1:1453437/86‑1 (MQ=255)
                                                               tGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAAcgcc                                                             <  1:1402611/137‑1 (MQ=255)
                                                               tGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAAcgcc                                                             >  2:1402611/1‑137 (MQ=255)
                                                                 aTTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTg                                                                                        <  2:625386/108‑1 (MQ=255)
                                                                 aTTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTg                                                                                        >  1:625386/1‑108 (MQ=255)
                                                                 aTTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGaa                                                                           >  1:43140/1‑121 (MQ=255)
                                                                 aTTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGaa                                                                           <  2:43140/121‑1 (MQ=255)
                                                                   tGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACg                                                                                     >  2:752815/1‑109 (MQ=255)
                                                                   tGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACg                                                                                     <  1:752815/109‑1 (MQ=255)
                                                                    gCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTa                                                                                  >  2:420225/1‑111 (MQ=255)
                                                                    gCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTa                                                                                  <  1:420225/111‑1 (MQ=255)
                                                                      cGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTa                                                    >  1:1156166/1‑139 (MQ=255)
                                                                           aTGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGgtgt                                               >  1:1370547/1‑139 (MQ=255)
                                                                                          cgcAGCAGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGc                                >  2:650040/1‑139 (MQ=255)
                                                                                           gcagcaGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACaa                                                                               <  1:444335/91‑1 (MQ=255)
                                                                                           gcagcaGATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACaa                                                                               >  2:444335/1‑91 (MQ=255)
                                                                                              gcagATCATCATTATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGaa                            <  2:173504/139‑1 (MQ=255)
                                                                                                         ttATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTg                                                                                        <  2:1573046/68‑1 (MQ=255)
                                                                                                         ttATGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTg                                                                                        >  1:1573046/1‑68 (MQ=255)
                                                                                                          tATGGCACATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTg                                                                                        <  2:309097/67‑1 (MQ=255)
                                                                                                          tATGGCACATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTg                                                                                        >  1:309097/1‑67 (MQ=255)
                                                                                                            tGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATAc              >  2:942341/1‑139 (MQ=255)
                                                                                                            tGGCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATAc              >  1:1529483/1‑139 (MQ=255)
                                                                                                             ggCGCATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACg             <  2:1156166/139‑1 (MQ=255)
                                                                                                              gcgcATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGc            >  2:1506605/1‑139 (MQ=255)
                                                                                                              gcgcATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGc            <  1:650040/139‑1 (MQ=255)
                                                                                                              gcgcATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGc            >  1:1304299/1‑139 (MQ=255)
                                                                                                               cgcATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCggg                                                                                           >  1:1127670/1‑59 (MQ=255)
                                                                                                               cgcATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGcc           >  1:857374/1‑139 (MQ=255)
                                                                                                               cgcATCCGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCggg                                                                                           <  2:1127670/59‑1 (MQ=255)
                                                                                                                gcATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCt          <  1:942341/139‑1 (MQ=255)
                                                                                                                gcATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCt          <  2:871450/139‑1 (MQ=255)
                                                                                                                 cATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTg                                                                                        <  2:224149/60‑1 (MQ=255)
                                                                                                                 cATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTg                                                                                        >  1:224149/1‑60 (MQ=255)
                                                                                                                 cATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTa         >  2:1061759/1‑139 (MQ=255)
                                                                                                                 cATCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTa         <  1:1061759/139‑1 (MQ=255)
                                                                                                                  aTCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAAcgcc                                                             >  2:300103/1‑86 (MQ=255)
                                                                                                                  aTCTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAAcgcc                                                             <  1:300103/86‑1 (MQ=255)
                                                                                                                    cTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGaa                            <  2:1534513/117‑1 (MQ=255)
                                                                                                                    cTGGATACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGaa                            >  1:1534513/1‑117 (MQ=255)
                                                                                                                        aTACTTACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTACCGAGTa  <  2:1304299/139‑1 (MQ=255)
                                                                                                                            ttACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGgtg                                                >  2:1499056/1‑89 (MQ=255)
                                                                                                                            ttACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGgtg                                                <  1:834778/89‑1 (MQ=255)
                                                                                                                            ttACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGgtg                                                >  2:834778/1‑89 (MQ=255)
                                                                                                                            ttACACCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGgtg                                                <  1:1499056/89‑1 (MQ=255)
                                                                                                                                |                                                                                                                                  
GTCGGTATATTTATACCGCCCGCGATAATCGTAAGAGCTGGCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTACCGAGTA  >  NC_000913/2876816‑2877074

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A