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
A3 F14 I0 R1 206 76.7 3255580 98.8% 3216513 146.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947_CJ‑RC 4,741,396 C→G 100% intergenic (+526/+227) gltA → / ← yeiW citrate synthase/putative oxidoreductase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_002947_CJ‑RC4,741,3960CG100.0% 152.8 / NA 42intergenic (+526/+227)gltA/yeiWcitrate synthase/putative oxidoreductase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base G (22/20);  total (22/20)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TGCAGCACGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑AACCTCCGCCAACTGCAATTCGTGAACCAAGCAAAAGGCCCCGAAAAGGCCCTC‑C‑GCAGCCCCCCCAACCTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCCGTCCTCGTCCTTGGCCACTTGCCAGTT  >  NC_002947_CJ‑RC/4741253‑4741517
                                                                                                                                                  |                                                                                                                         
tgCAGCACGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGcgcct                                                                                                                        <  7:312190/148‑2 (MQ=255)
     caCGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGGATAGGGCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGcgcctcgacc                                                                                                                   <  6:350741/148‑7 (MQ=255)
             cACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAg                                                                                                           >  8:404663/1‑148 (MQ=255)
               cgcgGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAgcg                                                                                                         >  6:248075/1‑148 (MQ=255)
                 cggcgTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAgcggcg                                                                                                      <  1:247163/149‑1 (MQ=255)
                 cggcgTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAgcggc                                                                                                       >  6:229476/1‑148 (MQ=255)
                     gTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCtt                                                                                                  <  2:250564/149‑1 (MQ=255)
                     gTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCt                                                                                                   <  7:98518/148‑1 (MQ=255)
                      tCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCtt                                                                                                  >  2:22952/1‑148 (MQ=255)
                        aCCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTg                                                                                                 <  6:147834/147‑1 (MQ=255)
                        aCCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGa                                                                                                >  2:383541/1‑148 (MQ=255)
                        aCCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGa                                                                                                <  6:317862/148‑1 (MQ=255)
                        aCCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGGCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGAt                                                                                               <  2:331876/149‑1 (MQ=255)
                         ccGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGAt                                                                                               >  8:411904/1‑148 (MQ=255)
                               aTGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGt                                                                                         <  5:202351/148‑1 (MQ=255)
                                  gCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTcaca                                                                                     <  3:295603/149‑1 (MQ=255)
                                    gTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGCCACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCacac                                                                                    >  6:298629/1‑148 (MQ=255)
                                     tATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACcg                                                                                  >  3:123200/1‑149 (MQ=255)
                                      aTTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACcg                                                                                  >  7:76458/1‑148 (MQ=255)
                                          aaCTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGa                                                                               <  7:411904/147‑1 (MQ=255)
                                          aaCTGGGTATAGGTCCAGCACAGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACCTCCTC‑CTGCAGAGCCTCGACCATGGCCAGCTGCGCCATGATCACGGTCACACCGCGa                                                                               >  2:206113/1‑147 (MQ=255)
                                           aCTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGa                                                                               >  6:303160/1‑146 (MQ=255)
                                                gTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCtt                                                                       >  1:279944/1‑149 (MQ=255)
                                                gTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCt                                                                        >  5:289783/1‑148 (MQ=255)
                                                      gTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACtt                                                                 <  1:73865/149‑1 (MQ=255)
                                                      gTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACt                                                                  <  5:219699/148‑1 (MQ=255)
                                                         cAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTg                                                                <  5:117920/147‑1 (MQ=255)
                                                         cAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGa                                                              <  3:100279/149‑1 (MQ=255)
                                                               tGGTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGc                                                        >  2:386262/1‑149 (MQ=255)
                                                                ggTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGc                                                        >  7:38469/1‑148 (MQ=255)
                                                                 gTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGcc                                                       <  6:289783/148‑1 (MQ=255)
                                                                 gTCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGcc                                                       <  6:271155/148‑1 (MQ=255)
                                                                  tCACCTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCa                                                      >  7:313558/1‑148 (MQ=255)
                                                                      cTTCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCa                                                 <  2:86207/149‑1 (MQ=255)
                                                                       ttCGTGCTTGAGCAGCTTCAGCGACATGC‑ATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTAGGACCCGGCCACCTCa                                                 >  8:405879/1‑148 (MQ=255)
                                                                       ttCGTGCTTGAG‑CAGCTTCTGCGACTTGCATTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTCAT‑GCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGAGATAGGCCTTGTACTTGGACCCGGCCACCTCa                                                 >  8:411544/1‑148 (MQ=255)
                                                                                              gacttgcaTTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCcgt                           <  5:234170/141‑1 (MQ=255)
                                                                                                   gcaTTCGTGAATCCAGGCACAGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCcgtcctcgt                     >  1:18649/3‑149 (MQ=255)
                                                                                                                 aggcacaGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCcgtc                          >  4:167364/7‑130 (MQ=255)
                                                                                                                 aggcacaGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCcgtc                          <  3:167364/124‑1 (MQ=255)
                                                                                                                  ggcacaGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCCGTCCTCGTCCTTGGCCACTTGc       >  7:370574/6‑148 (MQ=255)
                                                                                                                   gcacaGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCCGTCCTCGTCCTTGGCCACTTGCCa     <  1:379945/145‑1 (MQ=255)
                                                                                                                      caGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCCGTCCTCGTCCTTGGCCACTTGCCAGtt  <  4:253787/148‑1 (MQ=255)
                                                                                                                      caGGCCCCGGACACGTCCTC‑CTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCCGTCCTCGTCCTTGGCCACTTGCCAGt   >  6:279976/2‑148 (MQ=255)
                                                                                                                                                  |                                                                                                                         
TGCAGCACGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑AACCTCCGCCAACTGCAATTCGTGAACCAAGCAAAAGGCCCCGAAAAGGCCCTC‑C‑GCAGCCCCCCCAACCTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTCACTGAGGGACACCTTGATCCCGTCCTCGTCCTTGGCCACTTGCCAGTT  >  NC_002947_CJ‑RC/4741253‑4741517

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A