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
A8 F28 I1 R1 138 62.6 2119710 99.4% 2106991 138.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,020,252 (A)8→7 intergenic (‑199/+158) ompA ← / ← sulA outer membrane porin A/cell division inhibitor SulA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,020,2450A.97.1% 141.7 / ‑1.9 35intergenic (‑192/+165)ompA/sulAouter membrane porin A/cell division inhibitor SulA
Reads supporting (aligned to +/- strand):  ref base A (1/0);  new base . (18/16);  total (19/16)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TAAATCCTTCACCGGGGGATCTGCTCAATATTAACTCTACCGATATCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATGAAAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGCTTCAGACAAGCCTCCGCAAGGAAAATTAGTCACGACTG  >  NC_000913/1020114‑1020358
                                                                                                                                   |                                                                                                                 
tAAATCCTTCACCGGGGGATCTGCTCAATATTAACTCTACCGATATCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATGaaaaaaagt                                                                                                           <  2:268819/140‑3 (MQ=255)
tAAATCCTTCACCGGGGGATCTGCTCAATATTAACTCTACCAATATCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATGaaaaaaagt                                                                                                           <  2:452320/140‑3 (MQ=255)
 aaaTCCTTCACCGGGGGATCTGCTCAATATTAACTCTACCGATATCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATGaaaaaaagtc                                                                                                          <  2:1051765/140‑4 (MQ=255)
 aaaTCCTTCACCGGGGGATCTGCTCAATATTAACTCTACCGATATCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATGaaaaaaagtc                                                                                                          <  1:333757/140‑4 (MQ=255)
 aaaTCCTTCACCGGGGGATCTGCTCAATATTAACTCTACCGATATCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATGaaaaaaagtc                                                                                                          <  2:511672/140‑4 (MQ=255)
 aaaTCCTTCACCGGGGGATCTGCTCAATATTAACTCTACCGATATCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATGaaaaaaagtc                                                                                                          <  2:68313/140‑4 (MQ=255)
         cACCGGGGGATCTGCTCAATATTAACTCTACCGATATCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATaa                                                                                                 >  1:254615/1‑140 (MQ=255)
         cACCGGGGGATCTGCTCAATATTAACTCTACCGATATCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATaa                                                                                                 >  2:308741/1‑140 (MQ=255)
           ccGGGGGATCTGCTCAATATTAACTCTACCGATATCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAgg                                                                                               <  1:307730/140‑1 (MQ=255)
                                 aCTCTACCGATATCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAg                                                                         >  1:756259/1‑140 (MQ=255)
                                    ctACCGATATCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGa                                                                      <  2:756259/140‑1 (MQ=255)
                                    ctACCGATATCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGa                                                                      <  2:254615/140‑1 (MQ=255)
                                      aCCGATATCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACa                                                                    >  2:477164/1‑140 (MQ=255)
                                      aCCGATATCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACa                                                                    >  1:360075/1‑140 (MQ=255)
                                      aCCGATATCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACa                                                                    >  1:470020/1‑140 (MQ=255)
                                      aCCGATATCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACa                                                                    >  1:382809/1‑140 (MQ=255)
                                      aCCGATATCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCGTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACa                                                                    >  1:647548/1‑140 (MQ=255)
                                           tatCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTa                                                               <  2:670846/140‑1 (MQ=255)
                                                            gAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGa                                              <  1:722091/140‑1 (MQ=255)
                                                              gCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGaaa                                            <  1:308741/140‑1 (MQ=255)
                                                              gCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGaaa                                            <  2:219553/140‑1 (MQ=255)
                                                               cACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAAc                                           <  2:360075/140‑1 (MQ=255)
                                                                  cccTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGc                                        >  1:452683/1‑140 (MQ=255)
                                                                  cccTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGc                                        >  2:552891/1‑140 (MQ=255)
                                                                   ccTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGCt                                       <  2:808399/140‑1 (MQ=255)
                                                                    cTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGCtt                                      >  1:769961/1‑140 (MQ=255)
                                                                     tGGCGATGTAAAGTCTACAGCGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGCTTc                                     <  1:956787/140‑1 (MQ=255)
                                                                          aTGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGCTTCAGACa                                <  2:382809/140‑1 (MQ=255)
                                                                            gTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGGTTAATCTTTGTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGCTTCAGACAAg                              >  2:948838/1‑140 (MQ=255)
                                                                                 gTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGCTTCAGACAAGCCTcc                         <  1:477164/140‑1 (MQ=255)
                                                                                     aCAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGCTTCAGa                                  <  2:4544/127‑1 (MQ=255)
                                                                                     aCAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGCTTCAGa                                  >  1:4544/1‑127 (MQ=255)
                                                                                     aCAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGCTTCAGACAAGCCTCCGCaa                     >  1:707931/1‑140 (MQ=255)
                                                                                     aCAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGCTTCAGACAAGCCTCCGCaa                     >  1:566648/1‑140 (MQ=255)
                                                                                     aCAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGCTTCAGACAAGCCTCCGCaa                     >  2:78516/1‑140 (MQ=255)
                                                                                           tAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGCTTCAGACAAGCCTCCGCAAGGa                  <  2:272193/137‑1 (MQ=255)
                                                                                           tAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGCTTCAGACAAGCCTCCGCAAGGa                  >  1:272193/1‑137 (MQ=255)
                                                                                            aGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATGAAAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGCTTCAGACAAGCCTCCGCAAGGaaaa               >  2:560777/1‑140 (MQ=255)
                                                                                            aGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGCTTCAGACAAGCCTCCGCAAGGAAAAt              >  1:262549/1‑140 (MQ=255)
                                                                                                        aCAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGCTTCAGACAAGCCTCCGCAAGGAAAATTAGTCACGACTg  <  2:452683/140‑1 (MQ=255)
                                                                                                        aCAAGTGTGAACTCCGTCAGGCATATG‑AAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGCTTCAGACAAGCCTCCGCAAGGAAAATTAGTCACGACTg  <  1:352864/140‑1 (MQ=255)
                                                                                                                                   |                                                                                                                 
TAAATCCTTCACCGGGGGATCTGCTCAATATTAACTCTACCGATATCTTCGGCTTATGCCGAGCACCCCTGGCGATGTAAAGTCTACAACGTAGTTGAAAACTTACAAGTGTGAACTCCGTCAGGCATATGAAAAAAAAGTCTTGTATAAGGTATGTTTAATCTTTTTTGTCAGCGACAATTTACAGAAGAGAATCGCGGAAACCGCTTCAGACAAGCCTCCGCAAGGAAAATTAGTCACGACTG  >  NC_000913/1020114‑1020358

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A