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
A9 F1 I1 R1 759 71.0 3673240 91.5% 3361014 104.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,136,603 (G)6→7 coding (496/906 nt) yijE → EamA‑like transporter family protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,136,5971.G100.0% 177.1 / NA 51W164G (TGG→GGG) yijEEamA‑like transporter family protein
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base G (24/27);  total (24/27)

GGTGAACGCCTGCGACGTGGGCAATATTTCGCGATTCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTT‑GGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTATGCGGCGCTGGTGATGAGTGTGGTCGCTTTACTGGTGCCGCAAC  >  NC_000913/4136462‑4136729
                                                                                                                                        |                                                                                                                                    
ggTGAACGCCTGCGACGTGGGCAATATTTCGCGATTCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTT‑ggg                                                                                                                                   <  2:1399843/139‑1 (MQ=255)
                    gCAATATTTCGCGATTCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGc                                                                                                                <  2:1247355/139‑1 (MQ=255)
                    gCAATATTTCGCGATTCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGc                                                                                                                <  2:1030819/139‑1 (MQ=255)
                         atTTCGCGATTCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAAc                                                                                                           <  1:100148/139‑1 (MQ=255)
                             cgcgATTCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTaaa                                                                                                            >  2:974515/1‑134 (MQ=255)
                             cgcgATTCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTaaa                                                                                                            <  1:974515/134‑1 (MQ=255)
                             cgcgATTCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAAc                                                                                                           >  2:216856/1‑135 (MQ=255)
                             cgcgATTCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAAc                                                                                                           <  1:216856/135‑1 (MQ=255)
                             cgcgATTCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTT‑gggggg                                                                                                                                >  1:779447/1‑113 (MQ=255)
                             cgcgATTCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTT‑gggggg                                                                                                                                <  2:779447/113‑1 (MQ=255)
                              gcgATTCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAgcgc                                                                                                                         >  2:549073/1‑120 (MQ=255)
                              gcgATTCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAgcgc                                                                                                                         <  1:549073/120‑1 (MQ=255)
                                  ttCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATg                                                                                                  >  1:1209222/1‑139 (MQ=255)
                                    cTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGcc                                                                                                >  1:1424326/1‑139 (MQ=255)
                                           ccGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATc                                                                                         <  1:796852/139‑1 (MQ=255)
                                              cTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCcgc                                                                                      >  1:413730/1‑139 (MQ=255)
                                                 tcaacTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCcgcgcg                                                                                   <  2:180467/135‑1 (MQ=255)
                                                           tttGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAAc                                                                                                           <  2:597529/105‑1 (MQ=255)
                                                           tttGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAAc                                                                                                           >  1:597529/1‑105 (MQ=255)
                                                               gtgtTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATc                                                                                         >  1:1468800/1‑119 (MQ=255)
                                                               gtgtTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATc                                                                                         <  2:1468800/119‑1 (MQ=255)
                                                               gtgtTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCcgcg                                                                                     >  2:957765/1‑123 (MQ=255)
                                                               gtgtTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCcgcg                                                                                     <  1:957765/123‑1 (MQ=255)
                                                                 gtTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGtt                                                                   <  2:413730/139‑1 (MQ=255)
                                                                  ttGCAGCCGTGGCAACTCGATTTCTCTTCGATTAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATg                                                                                                  <  2:1225453/107‑1 (MQ=255)
                                                                  ttGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATGGTTGCTAAACGTCTGTATg                                                                                                  >  1:1225453/1‑107 (MQ=255)
                                                                   tGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTg                                                                                                      <  1:1336513/102‑1 (MQ=255)
                                                                   tGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTg                                                                                                      >  2:1336513/1‑102 (MQ=255)
                                                                   tGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATg                                                                                                  <  2:277515/106‑1 (MQ=255)
                                                                   tGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATg                                                                                                  >  1:277515/1‑106 (MQ=255)
                                                                   tGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTaa                                                                 >  2:260790/1‑139 (MQ=255)
                                                                   tGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTaa                                                                 <  1:260790/139‑1 (MQ=255)
                                                                    gCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAAc                                                                >  2:1403581/1‑139 (MQ=255)
                                                                            ggCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGc                                                        >  1:924953/1‑139 (MQ=255)
                                                                            ggCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGc                                                        <  1:973078/139‑1 (MQ=255)
                                                                                 cTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATc                                                             <  2:476290/129‑1 (MQ=255)
                                                                                 cTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATc                                                             >  1:476290/1‑129 (MQ=255)
                                                                                  tCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGc                                                  <  1:304314/139‑1 (MQ=255)
                                                                                            ttCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTaaa                                                                                                            >  2:51555/1‑71 (MQ=255)
                                                                                            ttCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTaaa                                                                                                            <  1:51555/71‑1 (MQ=255)
                                                                                             tCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTATgcggcg                                       <  2:22092/139‑1 (MQ=255)
                                                                                                             tGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAg                                                      >  1:292332/1‑108 (MQ=255)
                                                                                                             tGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAg                                                      <  2:292332/108‑1 (MQ=255)
                                                                                                             tGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTATGCGGCGCTGGTGATGAGTGTgg                       >  2:1256191/1‑139 (MQ=255)
                                                                                                             tGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTATGCGGCGCTGGTGATGAGTGTgg                       >  2:1060486/1‑139 (MQ=255)
                                                                                                             tGCTGGCAATCCTCTCCGGCATCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTa                                                                                                    >  1:1575082/1‑62 (MQ=255)
                                                                                                             tGCTGGCAATCCTCTCCGGCATCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTa                                                                                                    <  2:1575082/62‑1 (MQ=255)
                                                                                                                  gCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATg                                                   <  2:182586/106‑1 (MQ=255)
                                                                                                                  gCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATg                                                   >  1:182586/1‑106 (MQ=255)
                                                                                                                  gCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTATGCGGCGCTGGTGATGAGTGTGGTCGCt                  >  1:646067/1‑139 (MQ=255)
                                                                                                                              ggCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTATGCGGCGCTGGTGATGAGTGTGGTCGCTTTACTGGTGCCg      <  1:1256191/139‑1 (MQ=255)
                                                                                                                                cGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTATGCGGCGCTGGTGATGAGTGTGGTCGc                   <  2:656439/124‑1 (MQ=255)
                                                                                                                                cGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTATGCGGCGCTGGTGATGAGTGTGGTCGc                   >  1:656439/1‑124 (MQ=255)
                                                                                                                                  tCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTATGCGGCGCTGGTGATGAGTGTGGTCGCTTTACTGGTGCCGCAAc  <  2:646067/139‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                    
GGTGAACGCCTGCGACGTGGGCAATATTTCGCGATTCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTT‑GGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTATGCGGCGCTGGTGATGAGTGTGGTCGCTTTACTGGTGCCGCAAC  >  NC_000913/4136462‑4136729

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A