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
A41 F60 I1 R1 15 66.5 2265750 99.1% 2245358 137.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,535,435 A→T V145E (GTA→GAA)  envZ ← sensory histidine kinase EnvZ

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,535,4350AT100.0% 149.6 / NA 43V145E (GTA→GAA) envZsensory histidine kinase EnvZ
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (23/20);  total (23/20)

CGAGATCGACCAACGGTCGGTTCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCA  >  NC_000913/3535301‑3535568
                                                                                                                                      |                                                                                                                                     
cGAGATCGACCAACGGTCGGTTCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTccc                                                                                                                                    >  1:832704/1‑138 (MQ=255)
cGAGATCGACCAACGGTCGGTTCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTccc                                                                                                                                    <  2:273735/138‑1 (MQ=255)
cGAGATCGACCAACGGTCGGTTCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTccc                                                                                                                                    >  1:273735/1‑138 (MQ=255)
cGAGATCGACCAACGGTCGGTTCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTccc                                                                                                                                    <  2:832704/138‑1 (MQ=255)
        aCCAACGGTCGGTTCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTggg                                                                                                                          <  2:84402/140‑1 (MQ=255)
               gtcggtTCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGc                                                                                                                   >  2:594433/1‑140 (MQ=255)
                tcggtTCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGcc                                                                                                                  <  1:802141/140‑1 (MQ=255)
                       tGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGtttt                                                                                                           <  2:1026606/140‑1 (MQ=255)
                          aTACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAg                                                                                                        >  1:534838/1‑140 (MQ=255)
                              gAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCa                                                                                                                 >  1:257433/1‑127 (MQ=255)
                              gAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCa                                                                                                                 <  2:257433/127‑1 (MQ=255)
                              gAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTc                                                                                                          >  1:178271/1‑134 (MQ=255)
                              gAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTc                                                                                                          <  2:178271/134‑1 (MQ=255)
                              gAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAg                                                                                                    >  1:1047879/1‑140 (MQ=255)
                                        ccACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCg                                                                                          >  1:911682/1‑140 (MQ=255)
                                                cGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTttg                                                                                  >  1:1045860/1‑140 (MQ=255)
                                                 gCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTttgt                                                                                 <  1:1098795/140‑1 (MQ=255)
                                                  ccTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTttgtt                                                                                >  2:536192/1‑140 (MQ=255)
                                                      tCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGAcc                                                                            <  2:911682/140‑1 (MQ=255)
                                                             tAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAAcgc                                                                     >  2:354969/1‑140 (MQ=255)
                                                                cATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCa                                                                  >  2:13743/1‑140 (MQ=255)
                                                                               ataGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGgccgc                                                   >  1:600819/1‑140 (MQ=255)
                                                                                taGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGgccgcc                                                  <  1:787992/140‑1 (MQ=255)
                                                                                taGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGgccgcc                                                  >  2:787992/1‑140 (MQ=255)
                                                                                      aaCAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTtg                                            <  1:13743/140‑1 (MQ=255)
                                                                                        cAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTtgct                                          >  2:54513/1‑140 (MQ=255)
                                                                                        cAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTtg                                            >  2:135416/1‑138 (MQ=255)
                                                                                        cAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTtg                                            <  1:135416/138‑1 (MQ=255)
                                                                                         aGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTtgctg                                         <  1:59997/140‑1 (MQ=255)
                                                                                           cGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGccc                                                 <  2:626610/130‑1 (MQ=255)
                                                                                           cGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGccc                                                 >  1:626610/1‑130 (MQ=255)
                                                                                           cGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTgcg                                       <  1:594433/140‑1 (MQ=255)
                                                                                                     tCGCCCTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATg                             >  2:619952/1‑140 (MQ=255)
                                                                                                        cccTGATGAATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCt                          <  1:54513/140‑1 (MQ=255)
                                                                                                            gatgaATTTCGGTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAg                      <  2:605446/140‑1 (MQ=255)
                                                                                                                       gTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAg                      >  2:685610/1‑129 (MQ=255)
                                                                                                                       gTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAg                      <  1:685610/129‑1 (MQ=255)
                                                                                                                       gTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAgtg           >  1:1047416/1‑140 (MQ=255)
                                                                                                                       gTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAgtg           >  1:272829/1‑140 (MQ=255)
                                                                                                                       gTCAGCGGCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAgtg           >  2:591355/1‑140 (MQ=255)
                                                                                                                              gCACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGcc    <  2:1047416/140‑1 (MQ=255)
                                                                                                                               cACGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGccc   >  2:54027/1‑140 (MQ=255)
                                                                                                                                aCGCGTTCCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCa  <  1:54027/140‑1 (MQ=255)
                                                                                                                                      |                                                                                                                                     
CGAGATCGACCAACGGTCGGTTCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCA  >  NC_000913/3535301‑3535568

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A