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 F73 I1 R1 30 41.4 1413620 99.2% 1402311 139.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,091,169 G→T L12L (CTG→CTT)  rsmE → 16S rRNA m(3)U1498 methyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,091,1690GT100.0% 119.0 / NA 36L12L (CTG→CTT) rsmE16S rRNA m(3)U1498 methyltransferase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (23/13);  total (23/13)

GCGGGATTCTTTTTGTTAACCCCTACCCCACGCGTACAACCGCGTGGGGAGACGACGCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTGACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGTTGCAATTGTTTGACGGTAGCAACCAGGTCTTTGACGCCGAAATTACCAGC  >  NC_000913/3091064‑3091301
                                                                                                         |                                                                                                                                    
gCGGGATTCTTTTTGTTAACCCCTACCCCACGCGTACAACCGCGTGGGGAGACGACGCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATg                                                                                                    >  2:652279/1‑140 (MQ=255)
  gggATTCTTTTTGTTAAGCCCTACCCCACGCGTACAACCGCGTGGGGAGACGACGCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATgcc                                                                                                  <  2:487229/140‑1 (MQ=255)
  gggATTCTTTTTGTTAACCCCTGCCCCACGCGTACAACCGCGTGGGGAGACGACGCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATgcc                                                                                                  <  1:422578/140‑1 (MQ=255)
      ttCTTTTTGTTAACCCCTACCCCACGCGTACAACCGCGTGGGGAGACGACGCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCa                                                                                              >  1:313371/1‑140 (MQ=255)
             tGTTAACCCCTACCCCACGCGTACAACCGCGTGGGGAGACGACGCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCatat                                                                                       <  1:168997/140‑1 (MQ=255)
             tGTTAACCCCTACCCCACGCGTACAACCGCGTGGGGAGACGACGCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCatat                                                                                       <  2:385387/140‑1 (MQ=255)
                   ccccTACCCCACGCGTACAACCGCGTGGGGAGACGACGCGGATTTTCAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGgcg                                                                                 >  2:638563/1‑140 (MQ=255)
                              cgcgTACAACCGCGTGGGGAGACGACGCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCa                                                                      >  2:550143/1‑140 (MQ=255)
                              cgcgTACAACCGCGTGGGGAGACGACGCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCa                                                                      >  2:545997/1‑140 (MQ=255)
                              cgcgTACAACCGCGTGGGGAGACGACGCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCa                                                                      >  2:323093/1‑140 (MQ=255)
                               gcgTACAACCGCGTGGGGAGACGACGCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCAt                                                                     <  2:617465/140‑1 (MQ=255)
                                         gcgTGGGGAGACGACGCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCgggg                                                           >  1:150041/1‑140 (MQ=255)
                                          cgTGGGGAGACGACGCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCa                                                                      <  1:504257/128‑1 (MQ=255)
                                          cgTGGGGAGACGACGCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCa                                                                      >  2:504257/1‑128 (MQ=255)
                                           gTGGGGAGACGACGCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCa                                                         >  1:703577/1‑140 (MQ=255)
                                              gggAGACGACGCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGc                                                      >  1:676025/1‑140 (MQ=255)
                                                 agaCGACGCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGtt                                                   >  1:699302/1‑140 (MQ=255)
                                                     gacgCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGTTGCaa                                               >  2:234315/1‑140 (MQ=255)
                                                      acgCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGTTGCAAt                                              <  2:406279/140‑1 (MQ=255)
                                                       cgcgGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGtt                                                   <  2:74610/134‑1 (MQ=255)
                                                       cgcgGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGtt                                                   >  1:74610/1‑134 (MQ=255)
                                                         cgGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGTTGCAATTGt                                           >  1:291234/1‑140 (MQ=255)
                                                             tttttAACTATGCGTATCCCCCGCATTTATCAGCCTGAACCACTTGCCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGTTGCAATTGTTTGa                                       <  2:649683/140‑1 (MQ=255)
                                                                  aaCTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGTTGCAATTGTTTGACGGTa                                  <  1:550143/140‑1 (MQ=255)
                                                                  aaCTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGTTGCAATTGTTTGACGGTa                                  <  1:233579/140‑1 (MQ=255)
                                                                   aCTATGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGTTGCAATTGTTTGACGGTAg                                 <  1:652279/140‑1 (MQ=255)
                                                                      aTGCGTATCCCCCGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGTTGCAATTGTTTGACGGTAGCaa                              >  2:298911/1‑140 (MQ=255)
                                                                               ccccGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGTTGCAATTGTTTGACGGTAGCAACCAGGTCtt                     >  1:360727/1‑140 (MQ=255)
                                                                                 ccGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGTTGCAATTGTTTGACGGTAGCAACCAGGTCTTTg                   >  2:387021/1‑140 (MQ=255)
                                                                                  cGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGTTGCAATTGTTTGACGGTAGCAACCAGGTCTTTGa                  >  1:572611/1‑140 (MQ=255)
                                                                                  cGCATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGAGCCGGGGCAGGCGTTGCAATTGTTTGACGGTAGCAACCAGGTCTTTgc                  >  1:375677/1‑139 (MQ=255)
                                                                                    cATTTATCATCCTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGTTGCAATTGTTTGACGGTAGCAACCAGGTCTTTGatg                <  2:699302/140‑3 (MQ=255)
                                                                                              ccTGAACCACATACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGTTGCAATTGTTTGACGGTAGCAACCAGGTCTTTGACGCCGAAATTAc      >  1:212617/1‑140 (MQ=255)
                                                                                               cTGAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGTTGCAATTGTTTGACGGTAGCAACCAGGTCTTTGACGCCGAAATTAcc     >  1:377065/1‑140 (MQ=255)
                                                                                                 gAACCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGTTGCAATTGTTTGACGGTAGCAACCAGGTCTTTGACGCCGAAATTACCAg   >  1:577775/1‑140 (MQ=255)
                                                                                                  aaCCACTTACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGTTGCAATTGTTTGACGGTAGCAACCAGGTCTTTGACGCCGAAATTACCAgc  >  2:540497/1‑140 (MQ=255)
                                                                                                         |                                                                                                                                    
GCGGGATTCTTTTTGTTAACCCCTACCCCACGCGTACAACCGCGTGGGGAGACGACGCGGATTTTTAACTATGCGTATCCCCCGCATTTATCATCCTGAACCACTGACCAGCCATTCTCACATCGCGCTTTGCGAAGATGCCGCCAACCATATCGGGCGCGTACTGCGCATGGGGCCGGGGCAGGCGTTGCAATTGTTTGACGGTAGCAACCAGGTCTTTGACGCCGAAATTACCAGC  >  NC_000913/3091064‑3091301

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A