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
A20 F53 I0 R4 206 63.7 2487030 95.4% 2372626 127.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP006881 3,723,783 C→T 100% F199F (TTC→TTT)  U712_19195 → putative transporter ywcJ

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068813,723,7830CT100.0% 220.0 / NA 63F199F (TTC→TTT) U712_19195putative transporter ywcJ
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (28/35);  total (28/35)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GAACTGTTTTTCAGAGGGATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTTAAAGGGGAAGGGGCAAAGCTCTTTACCATGATGCTTTTCGTTTTCTGCTTCTTCATTTCCGGCTTCGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCACTTTTGATCGAGCACCCTGATACAGTGACAGTAATGGGAGCAGTCAGAAACTTAATTCCCGTTACACTCGGCAACCTGACCGCGGGAATGGTC  >  CP006881/3723649‑3723915
                                                                                                                                      |                                                                                                                                    
gAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAac                                                                                                                                  <  8:190928/139‑1 (MQ=255)
     gTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAg                                                                                                                              >  2:225082/1‑138 (MQ=255)
      tttttCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGAGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCa                                                                                                                            <  4:171428/139‑1 (MQ=255)
            agagGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCGTTGAACACAGCATTGcc                                                                                                                       <  3:117379/138‑1 (MQ=255)
                        tgCAATTGGCTTGTGTGCGTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGcaca                                                                                                           <  6:138729/138‑1 (MQ=255)
                        tgCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCACATCGTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACAt                                                                                                          >  1:302209/1‑139 (MQ=255)
                        tgCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACAt                                                                                                          >  5:134896/1‑139 (MQ=255)
                        tgCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACAt                                                                                                          >  5:45140/1‑139 (MQ=255)
                          cAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTc                                                                                                        >  7:79128/1‑139 (MQ=255)
                          aaaTTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAATGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACAtt                                                                                                         <  8:79128/137‑1 (MQ=255)
                               ggCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCAt                                                                                                   >  2:248666/1‑139 (MQ=255)
                                gCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCAtc                                                                                                  <  2:155150/139‑1 (MQ=255)
                                  ttGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAac                                                                                                                                  <  4:304202/105‑1 (MQ=255)
                                  ttGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAac                                                                                                                                  >  3:304202/1‑105 (MQ=255)
                                  ttGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCAtctc                                                                                                >  7:289772/1‑139 (MQ=255)
                                  ttGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCAtctc                                                                                                >  8:103025/1‑139 (MQ=255)
                                  ttGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCAtctc                                                                                                >  8:98520/1‑139 (MQ=255)
                                    gtgtgCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCAtctcgc                                                                                              >  1:155273/1‑137 (MQ=255)
                                     tgtgCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCt                                                                                             <  8:289772/139‑1 (MQ=255)
                                         ccTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTg                                                                                         <  2:155273/139‑1 (MQ=255)
                                               cTTTTTCATTCCAATGTCTCTCAAAGTGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAg                                                                                   <  1:225082/139‑1 (MQ=255)
                                               cTTTTTCATTCCAATGTCTCTCAAAGTGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAg                                                                                   <  5:37810/139‑1 (MQ=255)
                                               cTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAATCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGATTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAg                                                                                   <  5:258087/139‑1 (MQ=255)
                                               cTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAg                                                                                   <  5:203818/139‑1 (MQ=255)
                                               cTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAg                                                                                   <  4:6397/139‑1 (MQ=255)
                                               cTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAg                                                                                   <  3:238976/139‑1 (MQ=255)
                                               cTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAg                                                                                   <  4:214496/139‑1 (MQ=255)
                                               cTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAg                                                                                   <  4:197089/139‑1 (MQ=255)
                                                cttttCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGc                                                                                  <  1:308161/138‑1 (MQ=255)
                                                  tttCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCa                                                                                 <  5:40570/138‑1 (MQ=255)
                                                        tCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGa                                                                           >  2:125899/1‑138 (MQ=255)
                                                                  ctcaaaGGGGAAGGACCAAAGCTTTTTACCATGATGCTATTCTTTTTCTGCTTCTTTATTTCCGGCTTTCAACACAGCATTGCCAATATGTGCACATTCGACATCTCGCTTTAGATCGAGCACCCTGATACAGTGACac                                                                >  1:168058/4‑138 (MQ=255)
                                                                   tcaaaGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACa                                                                 <  1:52067/135‑1 (MQ=255)
                                                                   tcaaaGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACa                                                                 <  5:240135/135‑1 (MQ=255)
                                                                         gggaaggagCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACa                                                                 >  1:295821/1‑131 (MQ=255)
                                                                         gggaaggagCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACa                                                                 <  2:295821/131‑1 (MQ=255)
                                                                           gaaggagCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAg                                                       >  8:198832/1‑139 (MQ=255)
                                                                           gaaggagCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAg                                                       <  2:168058/139‑1 (MQ=255)
                                                                            aaggagCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAg                                                       >  3:248819/1‑138 (MQ=255)
                                                                                          tttACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCttt                                                                                           >  6:100220/1‑88 (MQ=255)
                                                                                          tttACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCttt                                                                                           <  5:100220/88‑1 (MQ=255)
                                                                                          tttACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGa                                               >  5:39399/1‑132 (MQ=255)
                                                                                          tttACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGa                                               <  6:39399/132‑1 (MQ=255)
                                                                                                atgatgCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCg                                  <  3:198099/139‑1 (MQ=255)
                                                                                                 tgttgCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAg                                                                                   <  2:27908/86‑1 (MQ=255)
                                                                                                 tgatgCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAg                                                                                   >  8:213051/1‑89 (MQ=255)
                                                                                                 tgatgCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAg                                                                                   >  1:27908/1‑89 (MQ=255)
                                                                                                 tgatgCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAg                                                                                   <  7:213051/89‑1 (MQ=255)
                                                                                                 tgatgCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAg                                                                                   >  1:223593/1‑89 (MQ=255)
                                                                                                 tgatgCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAg                                                                                   <  2:223593/89‑1 (MQ=255)
                                                                                                 tgatgCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAg                                                                      >  1:258053/1‑102 (MQ=255)
                                                                                                 tgatgCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAg                                                                      <  2:258053/102‑1 (MQ=255)
                                                                                                 tgatgCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAAt                                       <  2:234836/133‑1 (MQ=255)
                                                                                                 tgatgCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAAt                                       >  1:234836/1‑133 (MQ=255)
                                                                                                 tgatgCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGt                                 >  8:148140/1‑139 (MQ=255)
                                                                                                 tgatgCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGt                                 >  1:175130/1‑139 (MQ=255)
                                                                                                 tgatgCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGt                                 >  5:280897/1‑139 (MQ=255)
                                                                                                         ttCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCg                         >  5:106125/1‑139 (MQ=255)
                                                                                                                    cttcttTATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGAc               <  1:125899/138‑1 (MQ=255)
                                                                                                                            tttCCGGCGTTGCACAAAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGCTACAGTGACACTGATGGGAGCAGGCAGAAACTTAATCCCCGTTACGCGCGGCAATCTGACCGCGGGaa       <  2:302209/138‑1 (MQ=255)
                                                                                                                              tCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAAt                                       <  7:48789/104‑1 (MQ=255)
                                                                                                                              tCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAAt                                       >  8:48789/1‑104 (MQ=255)
                                                                                                                                cGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGtt  <  6:45140/139‑2 (MQ=255)
                                                                                                                                      |                                                                                                                                    
GAACTGTTTTTCAGAGGGATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTTAAAGGGGAAGGGGCAAAGCTCTTTACCATGATGCTTTTCGTTTTCTGCTTCTTCATTTCCGGCTTCGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCACTTTTGATCGAGCACCCTGATACAGTGACAGTAATGGGAGCAGTCAGAAACTTAATTCCCGTTACACTCGGCAACCTGACCGCGGGAATGGTC  >  CP006881/3723649‑3723915

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A