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 F50 I2 R1 193 39.9 1341687 91.8% 1231668 149.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,764,190 A→G F322L (TTC→CTC)  yfjL ← CP4‑57 putative defective prophage, DUF4297/DUF1837 polymorphic toxin family protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,764,1900AG100.0% 93.0 / NA 25F322L (TTC→CTC) yfjLCP4‑57 putative defective prophage, DUF4297/DUF1837 polymorphic toxin family protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (12/13);  total (12/13)

CTTTTTCCACGTATAGCATGCAAGGAATAGGCTGGCTTTCGTGGTGCTGCCGGATCGTTGCGTGCAACAGCACTCGACCCAAAAATTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAATGTCAGTTTATGAATATCAGACATTTCTTTTGGTCGGAGAAAAACCTCATCCAACCATTGACAGACGTTATCCGCGATGTGCTTGTAGCGGTATTTCTTAAGTGAGTACTGCTGATGTAGAACCTGGCCTTTACGCTTAGCGC  >  NC_000913/2764043‑2764333
                                                                                                                                                   |                                                                                                                                               
cTTTTTCCACGTATAGCATGCAAGGAATAGGCTGGCTTTCGTGGTGCTGCCGGATCGTTGCGTGCAACAGCACTCGACCCAAAAATTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAgtgt                                                                                                                                              >  1:223842/1‑151 (MQ=255)
 tttttCCACGTATAGCATGCAAGGAATAGGCTGGCTTTCGTGGTGCTGCCGGATCGTTGCGTGCAACAGCACTCGACCCAAAAATTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAGTGTc                                                                                                                                             >  2:632644/1‑151 (MQ=255)
      ccACGTATAGCATGCAAGGAATAGGCTGGCTTTCGTGGTGCTGCCGGATCGTTGCGTGCAACAGCACTCGACCCAAAAATTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAGTGTCAGttt                                                                                                                                        <  1:128068/151‑1 (MQ=255)
      ccACGTATAGCATGCAAGGAATAGGCTGGCTTTCGTGGTGCTGCCGGATCGTTGCGTGCAACAGCACTCGACCCAAAAATTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAGTGTCAGttt                                                                                                                                        <  2:400393/151‑1 (MQ=255)
      ccACGTATAGCATGCAAGGAATAGGCTGGCTTTCGTGGTGCTGCCGGATCGTTGCGTGCAACAGCACTCGACCCAAAAATTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAGTGTCAGttt                                                                                                                                        <  1:343947/151‑1 (MQ=255)
        aCGTATAGCATGCAAGGAATAGGCTGGCTTTCGTGGTGCTGCCGGATCGTTGCGTGCAACAGCACTCGACCCAAAAATTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAGTGTCAGTTTAt                                                                                                                                      <  2:76933/151‑1 (MQ=255)
          gTATAGCATGCAAGGAATAGGCTGGCTTTCGTGGTGCTGCCGGATCGTTGCGTGCAACAGCACTCGACCCAAAAATTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAGTGTCAGTTTATGa                                                                                                                                    <  1:235691/151‑1 (MQ=255)
                   gCAAGGAATAGGCTGGCTTTCGTGGTGCTGCCGGATCGTTGCGTGCAACAGCACTCGACCCAAAAATTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAGTGTCAGTTTATGAATATCAGa                                                                                                                            <  1:667514/150‑1 (MQ=255)
                                 ggctTTCGTGGTGCTGCCGGATCGTTGCGTGCAACAGCACTCGACCCAAAAATTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAGTGTCAGTTTATGAATATCAGACATTTCTTTTGGTCg                                                                                                             >  1:8478/1‑151 (MQ=255)
                                    tttCGTGGTGCTGCCGGATCGTTGCGTGCAACAGCACTCGACCCAAAAATTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAGTGTCAGTTTATGAATATCAGACATTTCTTTTGGTCgg                                                                                                            >  2:201073/1‑149 (MQ=255)
                                     ttCGTGGTGCTGCCGGATCGTTGCGTGCAACAGCACTCGACCCAAAAATTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTTTTTAGTCGTTCTCGCTTTTCAATGAGTGTCAGTTTATGAATATCAGACATTTCTTTTGGTCgta                                                                                                           <  1:235367/149‑3 (MQ=255)
                                     ttCGTGGTGCTGCCGGATCGTTGCGTGCAACAGCACTCGACCCAAAAATTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAGTGTCAGTTTATGAATATCAGACATTTCTTTTGGTCGgag                                                                                                          <  1:225263/150‑1 (MQ=255)
                                         tggtgCTGCCGGATCGTTGCGTGCAACAGCACTCGACCCAAAAATTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAGTGTCAGTTTATGAATATCAGACATTTCTTTTGGTCGGAGaaaa                                                                                                      >  2:193944/1‑150 (MQ=255)
                                            tgctgcCGGATCGTTGCGTGCAACAGCACTCGACCCAAAAATTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTATCGCTTTTCAATGAGTGTCAGTTTATGAATATCAGACATTTCTTTTGGTCGGAGaaaa                                                                                                      >  1:516830/1‑147 (MQ=255)
                                                                cAACAGCACTCGACCCAAAAATTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAGTGTCAGTTTATGAATATCAGACATTTCTTTTGGTCGGAGAAAAACCTCATCCAACCATTGACAGACg                                                                              >  1:297690/1‑151 (MQ=255)
                                                                    aGCACTCGACCCAAAAATTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTCTTCAATGAGTGTCAGTTTATGAATATCAGACATTTCTTTTGGTCGGAGAAAAACCTCATCCAACCATTGACAGACGTTAt                                                                          <  2:394761/151‑1 (MQ=255)
                                                                      cACTCGACCCAAAAATTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAGTGTCAGTTTATGAATATCAGACATTTCTTTTGGTCGGAGAAAAACCTCATCCAACCATTGACAGACGTTATcc                                                                        <  2:239129/151‑1 (MQ=255)
                                                                                  aaaTTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAGTGTCAGTTTATGAATATCAGACATTTCTTTTGGTCGGAGAAAAACCTCATCCAACCATTGACAGACGTTATCCGCGATGTGCTTg                                                            >  1:593229/1‑151 (MQ=255)
                                                                                        gCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAGTGTCAGTTTATGAATATCAGACATTTCTTTTGGTCGGAGAAAAACCTCATCCAACCATTGACAGACGTTATCCGCGATGTGCTTGTAGCgg                                                      >  2:149093/1‑151 (MQ=255)
                                                                                                       cGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAGTGTCAGTTTATGAATATCAGACATTTCTTTTGGTCGGAGAAAAACCTCATCCAACCATTGACAGACGTTATCCGCGATGTGCTTGTAGCGGTATTTCTTAAGTGAg                                       <  2:73611/151‑1 (MQ=255)
                                                                                                              aaGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAGTGTCAGTTTATGAATATCAGACATTTCTTTTGGTCGGAGAAAAACCTCATCCAACCATTGACAGACGTTATCCGCGATGTGCTTGTAGCGGTATTTCTTAAGTGAGTActgct                                <  2:589677/151‑1 (MQ=255)
                                                                                                               aGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAGTGTCAGTTTATGAATATCAGACATTTCTTTTGGTCGGAGAAAAACCTCATCCAACCATTGACAGACGTTATCCGCGATGTGCTTGTAGCGGTATTTCTTAAGTGAGTActgctg                               >  2:311853/1‑151 (MQ=255)
                                                                                                                                cGTTCTCGCTTTTCAATGAGTGTCAGTTTATGAATATCAGACATTTCTTTTGGTCGGAGAAAAACCTCATCCAACCATTGACAGACGTTATCCGCGATGTGCTTGTAGCGGTATTTCTTAAGTGAGTACTGCTGATGTAGAACCTGGCCt               <  1:670716/150‑1 (MQ=255)
                                                                                                                                cGTTCTCGCTTTTCAATGAGTGTCAGTTTATGAATATCAGACATTTCTTTTGGTCGGAGAAAAACCTCATCCAACCATTGACAGACGTTATCCGCGATGTGCTTGTAGCGGTATTTCTTAAGTGAGTACTGCTGATGTAGAACCTGGCCt               >  2:670727/1‑150 (MQ=255)
                                                                                                                                   tctcGCTTTTCAATGAGTGTCAGTTTATGAATATCAGACATTTCTTTTGGTCGGAGAAAAACCTCATCCAACCATTGACAGACGTTATCCGCGATGTGCTTGTAGCGGTATTTCTTAAGTGAGTACTGCTGATGTAGAACCTGGCCTTTAc           >  1:285986/1‑151 (MQ=255)
                                                                                                                                            tCAATGAGTGTCAGTTTATGAATATCAGACATTTCTTTTGGTCGGAGAAAAACCTCATCCAACCATTGACAGACGTTATCCGCGATGTGCTTGTAGCGGTATTTCTTAAGTGAGTACTGCTGATGTAGAACCTGGCCTTTACGCTTAgcgc  >  2:636589/1‑151 (MQ=255)
                                                                                                                                              aatgagtgTCAGTTTATGAATATCAGACATTTCTTTTGGTCGGAGAAAAACCTCATCCAACCATTGACAGACGTTATCCGCGATGTGCTTGTAGCGGTATTTCTTAAGTGAGTACTGCTGATGTAGAACCTGGCCTTTACGCTTAgcgc  >  2:312440/1‑149 (MQ=255)
                                                                                                                                                   |                                                                                                                                               
CTTTTTCCACGTATAGCATGCAAGGAATAGGCTGGCTTTCGTGGTGCTGCCGGATCGTTGCGTGCAACAGCACTCGACCCAAAAATTCGCTGACGTCATGGAGCGATTTGAAGACGGAATTCTTTAGTCGTTCTCGCTTTTCAATGAATGTCAGTTTATGAATATCAGACATTTCTTTTGGTCGGAGAAAAACCTCATCCAACCATTGACAGACGTTATCCGCGATGTGCTTGTAGCGGTATTTCTTAAGTGAGTACTGCTGATGTAGAACCTGGCCTTTACGCTTAGCGC  >  NC_000913/2764043‑2764333

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A