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 I2 R1 765 46.1 2269152 93.8% 2128464 105.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 649,372 A→G F67S (TTC→TCC)  citF ← citrate lyase, citrate‑ACP transferase (alpha) subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913649,3720AG100.0% 203.4 / NA 56F67S (TTC→TCC) citFcitrate lyase, citrate‑ACP transferase (alpha) subunit
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (24/32);  total (24/32)

TGTTCTACCAGCGGCGCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGAAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGTTTGCTTTGGCGAGTTCTGGAAAGCGGCA  >  NC_000913/649243‑649497
                                                                                                                                 |                                                                                                                             
tgtTCTACCAGCGGCGCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCg                                                                                                                      <  1:237111/139‑1 (MQ=255)
  ttCTACCAGCGGCGCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTc                                                                                                                    >  1:220558/1‑139 (MQ=255)
     tACCAGCGGCGCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATg                                                                                                                 <  2:119368/139‑1 (MQ=255)
     tACCAGCGGCGCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATg                                                                                                                 <  2:432884/139‑1 (MQ=255)
        cAGCGGCGCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCg                                                                                                              <  1:747440/139‑1 (MQ=255)
        cAGCGGCGCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCg                                                                                                              <  1:552340/139‑1 (MQ=255)
        cAGCGGCGCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCg                                                                                                              <  2:220558/139‑1 (MQ=255)
        cAGCGGCGCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCg                                                                                                              <  2:653537/139‑1 (MQ=255)
          gcggcgCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATg                                                                                                                 >  1:1027010/1‑134 (MQ=255)
          gcggcgCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATg                                                                                                                 <  2:1027010/134‑1 (MQ=255)
          gcggcgCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTc                                                                                                            <  1:723469/139‑1 (MQ=255)
            ggcgCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCg                                                                                                              >  1:179513/1‑135 (MQ=255)
            ggcgCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCg                                                                                                              <  2:179513/135‑1 (MQ=255)
                 aTGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATg                                                                                                                 >  2:525600/1‑127 (MQ=255)
                 aTGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATg                                                                                                                 <  1:525600/127‑1 (MQ=255)
                  tGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAAc                                                                                                    <  1:110988/139‑1 (MQ=255)
                        tCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATg                                                                                                                 >  2:1026682/1‑120 (MQ=255)
                        tCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATg                                                                                                                 <  1:1026682/120‑1 (MQ=255)
                           cTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGcgac                                                                                           >  2:842606/1‑139 (MQ=255)
                             cAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATg                                                                                                                 >  1:511096/1‑115 (MQ=255)
                             cAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATg                                                                                                                 <  2:511096/115‑1 (MQ=255)
                              aGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGaa                                                                                        >  1:56741/1‑139 (MQ=255)
                              aGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGaa                                                                                        >  1:33779/1‑139 (MQ=255)
                                   gCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGct                                                                                   <  2:322971/139‑1 (MQ=255)
                                   gCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGct                                                                                   <  2:660273/139‑1 (MQ=255)
                                              gggTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACGATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTACACCAGAGCGAGGAATCGCTTCTTCCAGGtt                                                                        >  2:789578/1‑139 (MQ=255)
                                              gggTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGtt                                                                        >  1:992671/1‑139 (MQ=255)
                                                    ggTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGca                                                                  <  1:842606/139‑1 (MQ=255)
                                                    ggTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGca                                                                  <  2:992671/139‑1 (MQ=255)
                                                    ggTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGca                                                                  <  1:535588/139‑1 (MQ=255)
                                                         ttAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATgggagga                                                                                                                           <  1:557733/77‑1 (MQ=255)
                                                         ttAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATgggagga                                                                                                                           >  2:557733/1‑77 (MQ=255)
                                                                   tCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATc                                                                                      <  1:249321/104‑1 (MQ=255)
                                                                   tCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATc                                                                                      >  2:249321/1‑104 (MQ=255)
                                                                              aCGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAg                                        <  2:33779/139‑1 (MQ=255)
                                                                                 tCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCACACAGTTTGCGATCGCGCGCTTTTTCAGCCt                                     <  1:44633/139‑1 (MQ=255)
                                                                                 tCCATCACCATATAGACGGTCAGGTCACCGCCACGGAAAGCGAGATGGGAGGCAACCGTCATGCCTTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCt                                     >  2:1071102/1‑139 (MQ=255)
                                                                                            atTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGca                                                                  >  1:860663/1‑99 (MQ=255)
                                                                                            atTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGca                                                                  <  2:860663/99‑1 (MQ=255)
                                                                                            atTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGTATGc                          >  1:513498/1‑139 (MQ=255)
                                                                                                aCGGTCAGGTCACCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGTTTGCTTTg                      >  2:691399/1‑139 (MQ=255)
                                                                                                   gtcaggtcaCCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATg                                                                                                                 >  2:38975/1‑45 (MQ=255)
                                                                                                   gtcaggtcaCCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATg                                                                                                                 <  1:38975/45‑1 (MQ=255)
                                                                                                   gtcaggtcaCCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCa                                                                                                  >  2:299459/1‑60 (MQ=255)
                                                                                                   gtcaggtcaCCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCa                                                                                                  <  1:299459/60‑1 (MQ=255)
                                                                                                   gtcaggtcaCCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGca                                                                  >  1:542833/1‑92 (MQ=255)
                                                                                                   gtcaggtcaCCGCCACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGca                                                                  <  2:542833/92‑1 (MQ=255)
                                                                                                                cACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATcgcgcg                                                 <  1:462049/96‑1 (MQ=255)
                                                                                                                cACGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATcgcgcg                                                 >  2:462049/1‑96 (MQ=255)
                                                                                                                  cGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGc                                                                                    >  2:832241/1‑59 (MQ=255)
                                                                                                                  cGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGc                                                                                    <  1:832241/59‑1 (MQ=255)
                                                                                                                  cGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTgg                                   >  2:284606/1‑108 (MQ=255)
                                                                                                                  cGGAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTgg                                   <  1:284606/108‑1 (MQ=255)
                                                                                                                    gAAAGCGTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGTTTGCTTTGGCGAGTTCTGGAAAGCGGCa  <  1:691399/139‑1 (MQ=255)
                                                                                                                          gTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGTTTGCTTTGGc                    >  1:443536/1‑115 (MQ=255)
                                                                                                                          gTGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGTTTGCTTTGGc                    <  2:443536/115‑1 (MQ=255)
                                                                                                                           tGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGt                              <  1:302451/104‑1 (MQ=255)
                                                                                                                           tGATGGGAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGt                              >  2:302451/1‑104 (MQ=255)
                                                                                                                                 |                                                                                                                             
TGTTCTACCAGCGGCGCATGGCAATCACTCAGGGAGCTGGACGCCAGGGTCAGGTTTTTAAAGCCCATCTTCGCGATGACGTCCATCACCATATTGACGGTCAGGTCACCGCCACGGAAAGCGTGATGGAAGGAAACCGTCATGCCGTCCTGTAAACCAGAGCGACGAATCGCTTCTTCCAGGTTGGCGCACAGTTTGCGATCGCGCGCTTTTTCAGCCTGGTAGGTTTGCTTTGGCGAGTTCTGGAAAGCGGCA  >  NC_000913/649243‑649497

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