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
A18 F53 I0 R2 221 66.0 2680176 94.9% 2543487 126.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP006881 3,723,666 G→A 100% G160G (GGG→GGA)  U712_19195 → putative transporter ywcJ

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068813,723,6660GA100.0% 191.5 / NA 56G160G (GGG→GGA) U712_19195putative transporter ywcJ
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (29/27);  total (29/27)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TTTGATCGGCGCCATTCTATTTGCCATTCTGATCAGCGCGACAGGGCTTTTTGAGGAGGCTTCTGTTCATTCCTTTTTGATTCATCTGGCAGAGCACAAAATGGAGCCGCCCGCTTCCGAACTGTTTTTCAGAGGGATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTTAAAGGGGAAGGGGCAAAGCTCTTTACCATGATGCTTTTCGTTTTCTGCTTCTTCATTTCCGGCTTCGAACACAGCATTGCC  >  CP006881/3723531‑3723798
                                                                                                                                       |                                                                                                                                    
tttAATCGGCGCCATGCTGTTTGCAATCCTTATCTGCGCGACGGGACTTTTTGAGGAGCCTTATGTTCATTCCTTTTTGATTCATTTGGCAGAGCCCAAAATGTAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATg                                                                                                                                   <  4:235008/139‑1 (MQ=255)
    aTCGGCGCCATTCTGTTTGCAATCCTGATCAGCGCGAGGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGTCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCtg                                                                                                                                <  7:137308/138‑1 (MQ=255)
                   tttGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTtgtgt                                                                                                                >  5:298519/1‑139 (MQ=255)
                   tttGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTtgtgt                                                                                                                >  3:99512/1‑139 (MQ=255)
                   tatGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCACAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTtgt                                                                                                                  <  5:236491/135‑1 (MQ=255)
                      gCCATCCTTAGCAGCTCGACGGGACTTTTGGAGGAGCCTTCTGTTCATTACTTTTTGATTCATTTGGCAGAGAACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGcc                                                                                                             <  8:121373/139‑1 (MQ=255)
                       ccATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGcc                                                                                                             <  4:137446/138‑1 (MQ=255)
                           ccTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCCGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGcc                                                                                                        >  2:57384/2‑139 (MQ=255)
                             tGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTAATTCCTTTTTGATTCATTTGGCAGATCACAAAATGGATCCGCCGGCTTACGAATTGTTTTTCAGAGGAATGCTGTTCAATTGGCTTGTGTGCGTCGCCtg                                                                                                      >  2:228652/1‑138 (MQ=255)
                                    cgcgACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCAtt                                                                                               >  7:33291/1‑139 (MQ=255)
                                    cgcgACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAAATGTTTTTCCGAGGAATGCAGTTCAAATTGCTTGCTTGCCACGCCTTTTTCAtt                                                                                               >  6:18422/1‑139 (MQ=255)
                                         cgggacTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCATAGGAATGCTGTGCAATTGGCTTGTGTGACTCGCCTTTTTAATTCCAAt                                                                                          >  8:60320/6‑139 (MQ=255)
                                         cgggacTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCACAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAAt                                                                                          <  8:117398/134‑1 (MQ=255)
                                         cgggacTTTTTGAGGAGCCTTCTGTTCATTCCTGTTTGATTCATTTGGCAGAGCCCAAAATGGAGCCGCCGGCTTCCGACTTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTGCCTTCCAAt                                                                                          >  8:2790/6‑139 (MQ=255)
                                          gggacTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGTAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATg                                                                                         <  7:243055/135‑1 (MQ=255)
                                             acTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGtct                                                                                      <  1:277978/138‑1 (MQ=255)
                                              cTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGtct                                                                                      <  1:127951/138‑1 (MQ=255)
                                                  ttGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTctctca                                                                                  <  4:54549/138‑3 (MQ=255)
                                                      ggagcCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAaaggg                                                                             >  2:214815/1‑139 (MQ=255)
                                                        agccTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAaagggga                                                                           <  3:283975/136‑1 (MQ=255)
                                                        agccTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAaagggga                                                                           <  4:128188/136‑1 (MQ=255)
                                                         gccTTCTGTTCATTCCTTTTTGATTAATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGATGTGCAATTGGATTGGGTTCCTAGCCTGTTTAATTCCAATGTATGTAAaagtggaa                                                                          >  7:123395/3‑139 (MQ=255)
                                                                gTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCa                                                                    <  7:60320/138‑1 (MQ=255)
                                                                 ttCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCa                                                                    <  3:176918/137‑1 (MQ=255)
                                                                    aTTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGGTTCCGAATTGTTTTTCAGAGGAAAGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATCTCTCTCAAAGGGGAAGGAGCAAAGct                                                               >  3:104514/1‑139 (MQ=255)
                                                                    aTTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTAAGAGGAAAGCGGTGCAATTGGCGTGGGTGCCTCCCCTTTTTCATTCCCATGTCTCACAAAGTGGAAGGAGCaaacca                                                               >  4:191210/1‑136 (MQ=255)
                                                                      tCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGcc                                                                                                             <  3:302290/91‑1 (MQ=255)
                                                                      tCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGcc                                                                                                             >  4:302290/1‑91 (MQ=255)
                                                                      tCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGcttt                                                             >  6:55035/1‑137 (MQ=255)
                                                                           tttGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCtttt                                                                                                    >  7:85639/1‑95 (MQ=255)
                                                                           tttGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCtttt                                                                                                    <  8:85639/95‑1 (MQ=255)
                                                                                            agCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGttt                                        >  2:52603/1‑138 (MQ=255)
                                                                                            agCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTACAATGTCTCTAAAAGGGGAAGGAGCAAAGCTTTTTACCATTATGCTTTTAGtttt                                       >  8:130228/1‑139 (MQ=255)
                                                                                              cacaAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCGCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCt                                     >  1:219533/1‑139 (MQ=255)
                                                                                              cacaAAATGGAGCCGCCGGCTTCCCAATAGTTTTTAAGAGGAATTCTGTTCAATTGGGATGTGTGCCTCGCCGTTTTAATTCCAATGTCTCTGAAAGGGGAATGAGCAAATCTTTTTACCAAGATTCTTTTGGttttga                                     >  8:118570/1‑137 (MQ=255)
                                                                                                      ggAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGcttcttt                             >  5:159343/1‑138 (MQ=255)
                                                                                                        aGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATTCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTGATTCCAATGTCTCTCAAAGGTGAAGGAGCAAAGCTTTTTAACATGATGCTGTTGGTTGTATTCTTCTTTAt                           >  1:301317/1‑139 (MQ=255)
                                                                                                        aGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTAt                           >  5:162071/1‑139 (MQ=255)
                                                                                                        aGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTAt                           >  7:312572/1‑139 (MQ=255)
                                                                                                        aGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTATACCATCATGCTTTTCGTATTCTGCTTCTTTAt                           >  6:84964/1‑139 (MQ=255)
                                                                                                             ccggcTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGc                                   <  8:303065/123‑1 (MQ=255)
                                                                                                             ccggcTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGc                                   >  7:303065/4‑126 (MQ=255)
                                                                                                             ccggcTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCg                      >  5:238081/4‑139 (MQ=255)
                                                                                                             ccggcTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCg                      <  7:118570/136‑1 (MQ=255)
                                                                                                                gcTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCt                   <  1:214815/139‑1 (MQ=255)
                                                                                                                     cGAATTGTGTTTCAGAGGAATGCTGTGCAATTGGCGTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGaa              <  5:18422/139‑1 (MQ=255)
                                                                                                                      gAATTGGTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAac             <  5:331511/139‑1 (MQ=255)
                                                                                                                       aattGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAaca            <  3:49811/136‑1 (MQ=255)
                                                                                                                            tttttCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCa       >  2:238723/1‑139 (MQ=255)
                                                                                                                            tttttCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCa       <  1:57384/139‑1 (MQ=255)
                                                                                                                            tttttCAGAGGAATGCTGTGCAATTGGCTAGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTTCCATGATGATTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCa       <  2:301317/139‑1 (MQ=255)
                                                                                                                              tttCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCAtt     >  8:78599/1‑139 (MQ=255)
                                                                                                                               ttCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTg    >  8:283138/1‑139 (MQ=255)
                                                                                                                                  agagGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTGTTTCCGGCTTTGAACACAGCATTGcc  <  5:55035/138‑1 (MQ=255)
                                                                                                                                  agagGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGcc  <  7:283138/138‑1 (MQ=255)
                                                                                                                                  agagGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTATTTCATTCCAATGTCTCTCAAAGGGGAAGGAGCAAAGCTTTTTACCATGATGCTTTTCGTTTTCTGCTTCTTTATTTCCGGCTTTGAACACAGCATTGcc  <  1:228652/138‑1 (MQ=255)
                                                                                                                                       |                                                                                                                                    
TTTGATCGGCGCCATTCTATTTGCCATTCTGATCAGCGCGACAGGGCTTTTTGAGGAGGCTTCTGTTCATTCCTTTTTGATTCATCTGGCAGAGCACAAAATGGAGCCGCCCGCTTCCGAACTGTTTTTCAGAGGGATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTTAAAGGGGAAGGGGCAAAGCTCTTTACCATGATGCTTTTCGTTTTCTGCTTCTTCATTTCCGGCTTCGAACACAGCATTGCC  >  CP006881/3723531‑3723798

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