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
A5 F1 I2 R1 772 77.0 3769570 91.6% 3452926 105.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,462,889 (C)9→8 intergenic (+243/‑123) fadL → / → yfdF long‑chain fatty acid outer membrane transporter/uncharacterized protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,462,8810C.100.0% 241.3 / NA 60intergenic (+235/‑131)fadL/yfdFlong‑chain fatty acid outer membrane transporter/uncharacterized protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (29/31);  total (29/31)

TGCAAACAGCCTGTTGGCAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACTCCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAGGTAATATATATTTGTA  >  NC_000913/2462744‑2462984
                                                                                                                                         |                                                                                                       
tGCAAACAGCCTGTTGGCAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACTcc                                                                                                        <  1:183897/139‑1 (MQ=255)
         ccTGTTGGCAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACTcccccccctgg                                                                                               >  2:929141/1‑136 (MQ=255)
           tGTTGGCAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGAC‑AACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACTcc                                                                                                        >  2:1401707/1‑127 (MQ=255)
           tGTTGGCAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGAC‑AACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACTcc                                                                                                        <  1:1401707/127‑1 (MQ=255)
            gTTGGCAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACTcccccccct                                                                                                 <  2:1400869/134‑2 (MQ=255)
            gTTGGCAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACTcccccccct                                                                                                 >  1:1400869/1‑133 (MQ=255)
                 cAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATtgtg                                                                                      <  1:1120990/139‑1 (MQ=255)
                       gCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAATGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTAtt                                                                                         >  2:1228067/1‑130 (MQ=255)
                       gCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCCGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTAtt                                                                                         <  1:1228067/130‑1 (MQ=255)
                                 aTCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCaaa                                                                      >  2:1401147/1‑139 (MQ=255)
                                  tCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATtg                                                                                        <  2:1880625/120‑1 (MQ=255)
                                  tCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATtg                                                                                        >  1:1880625/1‑120 (MQ=255)
                                     aTAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACTcccccccc                                                                                                  <  2:1688787/108‑1 (MQ=255)
                                     aTAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACTcccccccc                                                                                                  >  1:1688787/1‑108 (MQ=255)
                                         gCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGAt                                                              <  1:1401147/139‑1 (MQ=255)
                                             tATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAGAGATAGGt                                                          >  1:1142353/1‑139 (MQ=255)
                                              aTCCACAGACAGACTCGAACGGAAAGGCATATTTTCAGGCGTTCTGCTCTCACCTCCCAAACACTTTACTTCGCTACATTTCCAGGATCCT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGtt                                                         <  1:231072/139‑1 (MQ=255)
                                               tCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTgcg                                                                                    <  1:1139701/111‑1 (MQ=255)
                                               tCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTgcg                                                                                    >  2:1139701/1‑111 (MQ=255)
                                                    aGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCtaaat                                                   >  1:266941/1‑139 (MQ=255)
                                                         aaCCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATg                                              >  2:1581888/1‑139 (MQ=255)
                                                          aCCTGAAGGGTAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATtgtg                                                                                      <  1:1256079/98‑1 (MQ=255)
                                                          aCCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATtgtg                                                                                      >  2:1256079/1‑98 (MQ=255)
                                                          aCCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACt                                                                          >  1:222810/1‑110 (MQ=255)
                                                          aCCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACt                                                                          <  2:222810/110‑1 (MQ=255)
                                                           ccagAAGGTAAACGCATATTTTCAGGCGTTCTCCTCGTCCTTCTCAAAGAGTCTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCCATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAg                                            <  1:1169260/136‑1 (MQ=255)
                                                                    aaaGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑‑CCCCCCCTGGCTATTGTGCGCTCATACACTCaaa                                                                      <  1:1637098/103‑1 (MQ=255)
                                                                    aaaGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑‑CCCCCCCTGGCTATTGTGCGCTCATACACTCaaa                                                                      >  2:1637098/1‑103 (MQ=255)
                                                                      aGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACTcccccc                                                                                                    <  1:494818/73‑1 (MQ=255)
                                                                      aGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACTcccccc                                                                                                    >  2:494818/1‑73 (MQ=255)
                                                                      aGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATtgtg                                                                                      <  1:1127428/86‑1 (MQ=255)
                                                                      aGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATtgtg                                                                                      <  1:894481/86‑1 (MQ=255)
                                                                      aGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATtgtg                                                                                      >  2:894481/1‑86 (MQ=255)
                                                                      aGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATtgtg                                                                                      >  2:1127428/1‑86 (MQ=255)
                                                                      aGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATtg                                                                                        >  2:339102/1‑84 (MQ=255)
                                                                      aGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATtg                                                                                        <  1:339102/84‑1 (MQ=255)
                                                                            atTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCa                                                                                >  1:759488/1‑86 (MQ=255)
                                                                            atTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCa                                                                                <  2:759488/86‑1 (MQ=255)
                                                                              tttCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTAtt                         >  2:1275972/1‑139 (MQ=255)
                                                                                 cAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGCTAGTCTATTTCa                      <  1:929141/139‑1 (MQ=255)
                                                                                 cAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCa                      <  2:1474434/139‑1 (MQ=255)
                                                                                  aGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCAt                     >  2:1500858/1‑139 (MQ=255)
                                                                                   ggCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCAtt                    <  2:266941/139‑1 (MQ=255)
                                                                                    gCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTCTTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGAGAGTCTATTTCATTa                   <  2:1142353/139‑1 (MQ=255)
                                                                                      gTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAgg                 <  1:1275972/139‑1 (MQ=255)
                                                                                       ttCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATaacctc                                                                         >  1:1191852/1‑77 (MQ=255)
                                                                                       ttCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTc                                                                         <  2:1191852/82‑1 (MQ=255)
                                                                                       ttCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGtt                                                         <  1:23099/98‑1 (MQ=255)
                                                                                       ttCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGtt                                                         >  2:23099/1‑98 (MQ=255)
                                                                                        tCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACTcccccc                                                                                                    >  2:1066609/1‑55 (MQ=255)
                                                                                        tCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACTcccccc                                                                                                    <  1:1066609/55‑1 (MQ=255)
                                                                                        tCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTgcg                                                                                    <  2:1317364/70‑1 (MQ=255)
                                                                                        tCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTgcg                                                                                    >  1:1317364/1‑70 (MQ=255)
                                                                                         cTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACt                                                                          <  2:379591/79‑1 (MQ=255)
                                                                                         cTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACt                                                                          >  1:379591/1‑79 (MQ=255)
                                                                                         cTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCa                      >  1:1296996/1‑131 (MQ=255)
                                                                                         cTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCa                      <  2:1296996/131‑1 (MQ=255)
                                                                                                 ccTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAGGTAATATATAtt      >  2:215739/1‑139 (MQ=255)
                                                                                                    tctcAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTgcg                                                                                    >  1:897042/1‑58 (MQ=255)
                                                                                                    tctcAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTgcg                                                                                    <  2:897042/58‑1 (MQ=255)
                                                                                                    tctcAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTg                                   <  2:1281603/107‑1 (MQ=255)
                                                                                                    tctcAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTg                                   >  1:1281603/1‑107 (MQ=255)
                                                                                                     ctcAAAGAGTTTACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAGGTAATATATATTTGTa  <  1:215739/139‑1 (MQ=255)
                                                                                                              tttACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATtgtg                                                                                      >  2:350436/1‑46 (MQ=255)
                                                                                                              tttACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATtgtg                                                                                      <  1:350436/46‑1 (MQ=255)
                                                                                                              tttACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTa                           >  1:890788/1‑105 (MQ=255)
                                                                                                              tttACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTa                           <  2:890788/105‑1 (MQ=255)
                                                                                                               ttACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATtgtg                                                                                      <  2:1882733/45‑1 (MQ=255)
                                                                                                               ttACTTTTCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATtgtg                                                                                      >  1:1882733/1‑45 (MQ=255)
                                                                                                                      tCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATtgtg                                                                                      >  1:80691/1‑38 (MQ=255)
                                                                                                                      tCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATtgtg                                                                                      <  2:80691/38‑1 (MQ=255)
                                                                                                                      tCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGtt                                                         >  2:993921/1‑67 (MQ=255)
                                                                                                                      tCTGCATTTCCAGGATACT‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGtt                                                         <  1:993921/67‑1 (MQ=255)
                                                                                                                                         |                                                                                                       
TGCAAACAGCCTGTTGGCAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATACTCCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAGGTAATATATATTTGTA  >  NC_000913/2462744‑2462984

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A