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
A35 F30 I1 R1 29 21.9 747794 99.4% 743307 139.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,294,130 G→T L259M (CTG→ATG)  ccmF ← holocytochrome c synthetase membrane subunit CcmF

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,294,1300GT100.0% 60.9 / NA 19L259M (CTG→ATG) ccmFholocytochrome c synthetase membrane subunit CcmF
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (8/11);  total (8/11)

TGTACCGATACCAGCACGCCGGAACGCACGAGGAAAGTCCCCAACAGACACAACGAGAAGGCACTGATTGCCAGCAGTAATGTCCACGCTTTGAAGCTGGCGCGTTGTTCAGTGACCGCCAGTGAGTGCATCAGCGCAGTCCCCACCAGCCACGGCATAAACGAGGCGTTTTCTACCGGATCCCAGAACCACCAGCCACCCCAGCCGAGTTCGTAATAGGCCCATGCGGAACCGAGCACGATGCCG  >  NC_000913/2293997‑2294242
                                                                                                                                     |                                                                                                                
tgtACCGATACCAGCACGCCGGAACGCACGAGGAAAGTCCCCAACAGACACAACGAGAAGGCACTGATTGCCAGCAGTAATGTCCACGCTTTGAAGCTGGCGCGTTGTTCAGTGACCGCCAGTGAGTGCATCATCGCAGt                                                                                                            <  2:20770/140‑1 (MQ=255)
                 gCCGGAACGCACGAGGAAAGTCCCCAACAGACACAACGAGAAGGCACTGATTGCCAGCAGTAATGTCCACGCTTTGAAGCTGGCGCGTTGTTCAGTGACCGCCAGTGAGTGCATCATCGCAGTCCCCACCAGCCACGGCa                                                                                           >  1:283696/1‑140 (MQ=255)
                  ccGGAACGCACGAGGAAAGTCCCCAACAGACACAACGAGAAGGCACTGATTGCCAGCAGTAATGTCCACGCTTTGAAGCTGGCGCGTTGTTCAGTGACCGCCAGTGAGTGCATCATCGCAGTCCCCACCAGCCACGGCAt                                                                                          >  1:310717/1‑140 (MQ=255)
                         gCACGAGGAAGGTCCCCAACAGACAAAAGGAGAAGGCACTGATTGCCAGCAGTAATGTCCACGCTTTGAAGCTGGCCCGTTGCTCATTGACCGCCAGTGAGTGCATCATCGCAGTCCCCACCAGCCACGGCATAAACGAg                                                                                   <  2:351095/140‑1 (MQ=255)
                         gCACGAGGAAAGTCCCCAACAGACACAACGAGAAGGCACTGATTGCCAGCAGTAATGTCCACGCTTTGAAGCTGGCGCGTTGTTCAGTGACCGCCAGTGAGTGCATCATCGCAGTCCCCACCAGCCACGGCATAAACGAg                                                                                   <  2:129699/140‑1 (MQ=255)
                                gAAAGTCCCCAACAGACACAACGAGAAGGCACTGATTGCCAGCAGTAATGTCCACGCTTTGAAGCTGGCGCGTTGTTCAGTGACCGCCAGTGAGTGCATCATCGCAGTCCCCACCAGCCACGGCATAAACGAGGCGtt                                                                              <  1:158980/138‑1 (MQ=255)
                                gAAAGTCCCCAACAGACACAACGAGAAGGCACTGATTGCCAGCAGTAATGTCCACGCTTTGAAGCTGGCGCGTTGTTCAGTGACCGCCAGTGAGTGCATCATCGCAGTCCCCACCAGCCACGGCATAAACGAGGCGtt                                                                              >  2:158980/1‑138 (MQ=255)
                                      ccccACCAGACACAACGAGAAGGCACTGATTGCCAGCAGTAATGTCCACGCTTGGAAGCTGGCGCGTTGTTCAGTGACCGCCAGTGAGTGCATCATCGCAGTCCCCACCAGCCACGGCATAAACGAGGCGTTTTCTACCg                                                                      <  2:34019/140‑1 (MQ=255)
                                                        gaAGGCACTGATTGCCAGCAGTAATGTCCACGCTTTGAAGCTGGCGCGTTGTTCAGTGACCGCCAGTGAGTGCATCATCGCAGTCCCCACCAGCCACGGCATAAACGAGGCGTTTTCTACCGGATCCCAGAACCACCAGc                                                    <  2:346769/140‑1 (MQ=255)
                                                           ggCACTGATTGCCAGCAGTAATGTCCACGCTTTGAAGCTGGCGCGTTGTTCAGTGACCGCCAGTGAGTGCATCATCGCAGTCCCCACCAGCCACGGCATAAACGAGGCGTTTTCTACCGGATCCCAGAACCACCAGCCAc                                                 >  1:186116/1‑140 (MQ=255)
                                                                 gATTGCCGGCAGTAATGCCCCCCCTTTGAAGCTGCGGCGTTTTTCGGTGACCGCCAGTGAGTGCATCATCGCAGTCCCCACCAGCCACGGCATAACCGAGGCGTTTTCTACCGGATCCCAGAACCACCAGCCACCCCAGc                                           <  2:364959/140‑1 (MQ=37)
                                                                      ccAGCAGTAATGTCCACGCTTTGAAGCTGGCGCGTTGTTCAGTGACCGCCAGTGAGTGCATCATCGCAGTCCCCACCAGCCACGGCATAAACGAGGCGTTTTCTACCGGATCCCAGAACCACCAGCCACCCCAGCCGAGt                                      <  2:115691/140‑1 (MQ=255)
                                                                                 gTCCACGCTTTGAAGCTGGCGCGTTGTTCAGTGACCGCCAGTGAGTGCATCATCGCAGTCCCCACCAGCCACGGCATAAACGAGGCGTTTTCTACCGGATCCCAGAACCACCAGCCACCCCAGCCGAGTTCGTAATAGGc                           <  1:186045/140‑1 (MQ=255)
                                                                                       gCTTTGAAGCTGGCGCGTTGTTCAGTGACCGCCAGTGAGTGCATCATCGCAGTCCCCACCAGCCACGGCATAAACGAGGCGTTTTCTACCGGATCCCAGAACCACCAGCCGCCCCAGCCGAGTTCGTAATAGGCCCATGc                     >  2:34850/1‑140 (MQ=255)
                                                                                       gCTTTGAAGCTGGCGCGTTGTTCAGTGACCGCCAGTGAGTGCATCATCGCAGTCCCCACCAGCCACGGCATAAACGAGGCGTTTTCTACCGGATCCCAGAACCACCAGCCACCCCAGCCGAGTTCGTAATAGGCCCATGc                     >  1:82828/1‑140 (MQ=255)
                                                                                                   gcgcGTTGTTCAGTGACCGCCAGTGAGTGCATCATCGCAGTCCCCACCAGCCACGGCATAAACGAGGCGTTTTCTACCGGATCCCAGAACCACCAGCCACCCCAGCCGAGTTCGTAATAGGCCCATGCGGAACCGAGCAc         >  2:238350/1‑140 (MQ=255)
                                                                                                          gttCAGTGACCGCCAGTGAGTGCATCATCGCAGTCCCCACCAGCCACGGCATAAACGAGGCGTTTTCTACCGGATCCCAGAACCACCAGCCACCCCAGCCGAGTTCGTAATAGGCCCATGCGGAACCGAGCACGATGCCg  <  2:186116/140‑1 (MQ=255)
                                                                                                                  aCCGCCAGTGAGTGCATCATCGCAGTCCCCACCAGCCACGGCATAAACGAGGCGTTTTCTACCGGATCCCAGAACCACCAGCCACCCCAGCCGAGTTCGTAATAGGCCCATGCGGAACCGAGCACGATGcc   <  1:37992/131‑1 (MQ=255)
                                                                                                                  aCCGCCAGTGAGTGCATCATCGCAGTCCCCACCAGCCACGGCATAAACGAGGCGTTTTCTACCGGATCCCAGAACCACCAGCCACCCCAGCCGAGTTCGTAATAGGCCCATGCGGAACCGAGCACGATGcc   >  2:37992/1‑131 (MQ=255)
                                                                                                                                     |                                                                                                                
TGTACCGATACCAGCACGCCGGAACGCACGAGGAAAGTCCCCAACAGACACAACGAGAAGGCACTGATTGCCAGCAGTAATGTCCACGCTTTGAAGCTGGCGCGTTGTTCAGTGACCGCCAGTGAGTGCATCAGCGCAGTCCCCACCAGCCACGGCATAAACGAGGCGTTTTCTACCGGATCCCAGAACCACCAGCCACCCCAGCCGAGTTCGTAATAGGCCCATGCGGAACCGAGCACGATGCCG  >  NC_000913/2293997‑2294242

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A