Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A1 F1 I1 R1 773 79.9 4112934 92.2% 3792125 104.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,700,201 (T)5→6 coding (847/1593 nt) malX → maltose and glucose‑specific PTS enzyme IIB component and IIC component

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,700,1961.T100.0% 177.4 / NA 56G281V (GGT→GTT) malXmaltose and glucose‑specific PTS enzyme IIB component and IIC component
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base T (27/29);  total (27/29)

GCCGTTTGGTCTGCATCACATTCTGGTGGCATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGG‑TTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCATAAAATTAAAGGTCTGCTG  >  NC_000913/1700059‑1700329
                                                                                                                                          |                                                                                                                                     
gCCGTTTGGTCTGCATCACATTCTGGTGGCATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGG‑t                                                                                                                                      <  1:131107/139‑1 (MQ=255)
              aTCACATTCTGGTGGCATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAgcg                                                                                                                         <  2:1517526/139‑1 (MQ=255)
                         gtggCATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTc                                                                                                              >  1:1151222/1‑139 (MQ=255)
                              aTTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTc                                                                                                         >  2:1423476/1‑139 (MQ=255)
                               ttAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCg                                                                                                        <  1:1785529/139‑1 (MQ=255)
                                          tACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGaa                                                                                                                             >  2:985182/1‑107 (MQ=255)
                                          tACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGaa                                                                                                                             <  1:985182/107‑1 (MQ=255)
                                            ccGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAgcgc                                                                                                                        <  1:664922/110‑1 (MQ=255)
                                            ccGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAgcgc                                                                                                                        >  2:664922/1‑110 (MQ=255)
                                                cGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGc                                                                                       >  1:1583850/1‑139 (MQ=255)
                                                          aCGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTcggc                                                                             >  2:380676/1‑139 (MQ=255)
                                                           cGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTcggcg                                                                            >  2:572574/1‑139 (MQ=255)
                                                             cAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGt                                                                          >  1:661581/1‑139 (MQ=255)
                                                                 aaGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGc                                                                      <  1:1423476/139‑1 (MQ=255)
                                                                      tGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGaa                                                                                                                             <  2:1156755/79‑1 (MQ=255)
                                                                      tGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGaa                                                                                                                             >  1:1156755/1‑79 (MQ=255)
                                                                      tGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGt                                                                 >  1:807674/1‑139 (MQ=255)
                                                                       gCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTg                                                                <  1:1733950/139‑1 (MQ=255)
                                                                       gCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTg                                                                <  2:661581/139‑1 (MQ=255)
                                                                         ggTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCa                                                              <  1:380676/139‑1 (MQ=255)
                                                                          gTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGt                                                                 >  2:960668/1‑135 (MQ=255)
                                                                          gTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGt                                                                 <  1:960668/135‑1 (MQ=255)
                                                                          gTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAg                                                             >  2:662286/1‑139 (MQ=255)
                                                                          gTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCATTTCCTTTCg                                                                                                        <  2:747980/96‑1 (MQ=255)
                                                                          gTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCATTTCCTTTCg                                                                                                        >  1:747980/1‑96 (MQ=255)
                                                                              aaCCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGtt                                                         <  2:807674/139‑1 (MQ=255)
                                                                               aCCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTa                                                        >  2:64811/1‑139 (MQ=255)
                                                                                ccGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGTGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAATATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAg                                                       <  1:662286/139‑1 (MQ=255)
                                                                                ccGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAg                                                       <  1:1422215/139‑1 (MQ=255)
                                                                                ccGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAg                                                       <  1:64811/139‑1 (MQ=255)
                                                                                     aGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGTCAGGTg                                                                <  2:39861/125‑1 (MQ=255)
                                                                                     aGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGTCAGGTg                                                                >  1:39861/1‑125 (MQ=255)
                                                                                         gcgcACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATc                                              >  1:1110100/1‑139 (MQ=255)
                                                                                          cgcACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGt                                                                 <  1:1457757/119‑1 (MQ=255)
                                                                                          cgcACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGt                                                                 >  2:1457757/1‑119 (MQ=255)
                                                                                           gcACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGcc                                                                                                                       <  1:533232/64‑1 (MQ=255)
                                                                                           gcACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGcc                                                                                                                       >  2:533232/1‑64 (MQ=255)
                                                                                            cACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTcg                                                                               <  1:459820/103‑1 (MQ=255)
                                                                                            cACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTcg                                                                               >  2:459820/1‑103 (MQ=255)
                                                                                                 aCCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCt                                                                        >  2:1588755/1‑105 (MQ=255)
                                                                                                 aCCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCt                                                                        <  1:1588755/105‑1 (MQ=255)
                                                                                                      cTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTcggcg                                                                            <  1:811539/96‑1 (MQ=255)
                                                                                                      cTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTcggcg                                                                            >  2:811539/1‑96 (MQ=255)
                                                                                                         ccAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGtt                                                         >  2:1906435/1‑112 (MQ=255)
                                                                                                         ccAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGtt                                                         <  1:1906435/112‑1 (MQ=255)
                                                                                                           aGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGaaa                            >  2:1571633/1‑139 (MQ=255)
                                                                                                            ggCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGt                                                                          <  2:398430/92‑1 (MQ=255)
                                                                                                            ggCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGt                                                                          >  1:398430/1‑92 (MQ=255)
                                                                                                            ggCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGt                                                          >  1:1405709/1‑108 (MQ=255)
                                                                                                            ggCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGt                                                          <  2:1405709/108‑1 (MQ=255)
                                                                                                             gcgcAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAAt                          <  2:1583850/139‑1 (MQ=255)
                                                                                                                cAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTAt                                               <  1:296821/115‑1 (MQ=255)
                                                                                                                cAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTAt                                               >  2:296821/1‑115 (MQ=255)
                                                                                                                               aCCACTCACGGTTTTTTCTGAAAGAGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCATAAAATTAAAGGt        <  2:1151222/139‑1 (MQ=255)
                                                                                                                                    tCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCATAAAATTAAAGGTctgct   <  1:1571633/139‑1 (MQ=255)
                                                                                                                                    tCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCATAAAATTAAAGGTctgct   <  1:406314/139‑1 (MQ=255)
                                                                                                                                     cACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCATAAAATTAAAGGTctgctg  >  1:1087155/1‑139 (MQ=255)
                                                                                                                                          |                                                                                                                                     
GCCGTTTGGTCTGCATCACATTCTGGTGGCATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGG‑TTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCATAAAATTAAAGGTCTGCTG  >  NC_000913/1700059‑1700329

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A