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
A2 F50 I1 R1 170 39.5 1266514 99.2% 1256381 150.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,392,718 A→G Y243C (TAT→TGT)  pgrR → murein peptide degradation regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,392,7180AG97.4% 132.9 / ‑3.9 39Y243C (TAT→TGT) pgrRmurein peptide degradation regulator
Reads supporting (aligned to +/- strand):  ref base A (0/1);  new base G (17/21);  total (17/22)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.17e-01

ACATCGGGTACAGCAAATCGCTGGAGATTAATACGCGGTGGACGTGAAGTTCGTGTTCGCATGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTATCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTT  >  NC_000913/1392585‑1392857
                                                                                                                                     |                                                                                                                                           
acaTCGGGTACAGCAAATCGCTGGAGATTAATACGCGGTGGACGTGAAGTTCGTGTTCGCATGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAgg                                                                                                                            <  2:499303/151‑1 (MQ=255)
acaTCGGGTACAGCAAATCGCTGGAGATTAATACGCGGTGGACGTGAAGTTCGTGTTCGCATGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAgg                                                                                                                            >  2:111117/1‑151 (MQ=255)
    cGGGTACAGCAAATCGCTGGAGATTAATACGCGGTGGACGTGAAGTTCGTGTTCGCATGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTg                                                                                                                         >  2:178694/1‑150 (MQ=255)
        tACAGCAAATCGCTGGAGATTAATACGCGGTGGACGTGAAGTTCGTGTTCGCATGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCgg                                                                                                                    >  1:201820/1‑151 (MQ=255)
          cAGCAAATCGCTGGAGATTAATACGCGGTGGACGTGAAGTTCGTGTTCGCATGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGc                                                                                                                  >  1:181414/1‑151 (MQ=255)
            gCAAATCGCTGGAGATTAATACGCGGTGGACGTGAAGTTCGTGTTCGCATGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTa                                                                                                                <  1:84846/151‑1 (MQ=255)
             cAAATCGCTGGAGATTAATACGCGGTGGACGTGAAGTTCGTGTTCGCATGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGTATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGACTa                                                                                                                <  1:16474/150‑1 (MQ=255)
               aaTCGCTGGAGATTAATACGCGGTGGACGTGAAGTTCGTGTTCGCATGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTa                                                                                                             <  1:292993/151‑1 (MQ=255)
                  cGCTGGAGATTAATACGCGGTGGACGTGAAGTTCGTGTTCGCATGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTaaa                                                                                                           <  1:416817/150‑1 (MQ=255)
                  cGCTGGAGATTAATACGCGGTGGACGTGAAGTTCGTGTTCGCATGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAg                                                                                                          <  1:485895/151‑1 (MQ=255)
                   gCTGGAGATTAATACGCGGTGGACGTGAAGTTCGTGTTCGCATGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGa                                                                                                         <  1:413909/151‑1 (MQ=255)
                      ggAGATTAATACGCGGTGGACGTGAAGTTCGTGTTCGCATGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGaaa                                                                                                       <  1:130425/150‑1 (MQ=255)
                       gagaTTAATACGCGGTGGACGTGAAGTTCGTGTTCGCATGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGaaaaa                                                                                                     <  1:31416/151‑1 (MQ=255)
                                aCGCGGTGGACGTGAAGTTCGTGTTCGCATGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGAt                                                                                             >  1:211228/1‑150 (MQ=255)
                                   cgGTGGACGTGAAGTTCGTGTTCGCATGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACgt                                                                                         <  2:123111/151‑1 (MQ=255)
                                          cGTGAAGTTCGTGTTCGCATGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTATCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTgg                                                                                  <  2:497777/151‑1 (MQ=255)
                                                         cGCATGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCa                                                                    <  1:368371/150‑1 (MQ=255)
                                                            aTGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGAtt                                                                >  1:544854/1‑151 (MQ=255)
                                                             tGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGAttt                                                               >  1:3581/1‑151 (MQ=255)
                                                              ggAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTa                                                              <  2:540473/151‑1 (MQ=255)
                                                               gAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTAc                                                             >  2:536221/1‑151 (MQ=255)
                                                                aaGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTAcc                                                            >  2:104660/1‑151 (MQ=255)
                                                                   gTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTACCCgg                                                         <  2:361975/151‑1 (MQ=255)
                                                                              cTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTg                                               >  1:582114/1‑150 (MQ=255)
                                                                                gAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTa                                             <  1:563496/150‑1 (MQ=255)
                                                                                    aCGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTAt                                         <  2:272278/150‑1 (MQ=255)
                                                                                    aCGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTAt                                         <  1:121567/150‑1 (MQ=255)
                                                                                                aTCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGAc                            >  2:616606/1‑151 (MQ=255)
                                                                                                 tCATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGAc                            >  1:40010/1‑150 (MQ=255)
                                                                                                  cATTGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGACAt                          <  2:441834/151‑1 (MQ=255)
                                                                                                    ttGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATg                         >  2:531969/1‑150 (MQ=255)
                                                                                                     tGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCt                       >  2:64238/1‑151 (MQ=255)
                                                                                                     tGATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCt                       >  1:513989/1‑151 (MQ=255)
                                                                                                      gATGCTGCAATTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTg                      <  2:492345/151‑1 (MQ=255)
                                                                                                              aaTTGATGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCa              <  2:211223/151‑1 (MQ=255)
                                                                                                                   aTGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATtctc         >  2:613301/1‑151 (MQ=255)
                                                                                                                    tGGGCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATtctc         <  2:441026/150‑1 (MQ=255)
                                                                                                                      ggCATGGATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCatt      <  2:145129/151‑1 (MQ=255)
                                                                                                                           ggATTGGCGTGTCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCAttattt  >  1:587303/1‑150 (MQ=255)
                                                                                                                                     |                                                                                                                                           
ACATCGGGTACAGCAAATCGCTGGAGATTAATACGCGGTGGACGTGAAGTTCGTGTTCGCATGGAAGGTCAGCTTTTACTGAATACGATAGACCTGATCATTGATGCTGCAATTGATGGGCATGGATTGGCGTATCTACCTTATGATCAGGTTGAGCGGGCTATTAAAGAAAAAAAACTGATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTT  >  NC_000913/1392585‑1392857

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A