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
A1 F28 I1 R1 163 52.9 1786516 99.3% 1774010 139.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,302,756 T→C T86T (ACA→ACG)  napD ← NapA signal peptide‑binding chaperone NapD

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,302,7560TC95.7% 144.7 / ‑2.0 46T86T (ACA→ACG) napDNapA signal peptide‑binding chaperone NapD
Reads supporting (aligned to +/- strand):  ref base T (1/1);  new base C (21/23);  total (22/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01

GCTTTATCCCATTTGATGGCTTCCTGCTGACCAACAACGGCGCGGGCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGTGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCAATGGTTTGGATCAGCGTTTCGCTGTCTTCTGCTTCCACCACCA  >  NC_000913/2302623‑2302877
                                                                                                                                     |                                                                                                                         
gcTTTATCCCATTTGATGGCTTCCTGCTGACCAACAACGGCGCGGGCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTcc                                                                                                                     <  1:293732/140‑1 (MQ=255)
    tATCCCATTTGATGGCTTCCTGCTGACCAACAACGGCGCGGGCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCAc                                                                                                                 <  2:7249/140‑1 (MQ=255)
    tATCCCATTTGATGGCTTCCTGCTGACCAACAACGGCGCGGGCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCAc                                                                                                                 >  2:309912/1‑140 (MQ=255)
    tATCCCATTTGATGGCTTCCTGCTGACCAACAACGGCGCGGGCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCAc                                                                                                                 <  2:115550/140‑1 (MQ=255)
    tATCCCATTTGATGGCTTCCTGCTGACCAACAACGGCGCGGGCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCAc                                                                                                                 >  1:670568/1‑140 (MQ=255)
        ccATTTGATGGCTTCCTGCTGACCAACAACGGCGCGGGCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTg                                                                                                             <  2:466191/140‑1 (MQ=255)
          aTTTGATGGCTTCCTGCTGACCAACAACGGCGCGGGCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGct                                                                                                           <  1:141231/140‑1 (MQ=255)
           tttGATGGCTTCCTGCTGACCAACAACGGCGCGGGCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGctc                                                                                                          >  1:85721/1‑140 (MQ=255)
            ttGATGGCTTCCTGCTGACCAACAACGGCGCGGGCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGctct                                                                                                         >  1:574022/1‑140 (MQ=255)
                  gCTTCCTGCTGACCAACAACGGCGCGGGCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCctgc                                                                                                   <  2:85721/140‑1 (MQ=255)
                   cTTCCTGCTGACCAACAACGGCGCGGGCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCctgct                                                                                                  <  2:209218/140‑1 (MQ=255)
                    ttCCTGCTGACCAACAACGGCGCGGGCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCctgct                                                                                                  >  1:505041/1‑139 (MQ=255)
                    ttCCTGCTGACCAACAACGGCGCGGGCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCctgct                                                                                                  <  2:505041/139‑1 (MQ=255)
                         gctgACCAACAACGGCGCGGGCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGAt                                                                                            <  1:590666/140‑1 (MQ=255)
                             aCCAACAACGGCGCGGGCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAAc                                                                                        >  1:692724/1‑140 (MQ=255)
                                   accggcggGGGCACCGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGa                                                                                  <  2:670568/138‑1 (MQ=255)
                                    acGGCGCGGCCAACGCCCGGCGCGCTGAGACGGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCGCCTTGCTCTTCCTGCTGGTGATAACCCAGCGac                                                                                 <  2:174029/140‑1 (MQ=255)
                                       gcgcGGGCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACAcc                                                                              >  2:286630/1‑140 (MQ=255)
                                            ggCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAg                                                                         >  2:568991/1‑140 (MQ=255)
                                            ggCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACAACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAg                                                                         >  2:481151/1‑140 (MQ=255)
                                              cAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCa                                                                       <  2:697101/140‑1 (MQ=255)
                                              cAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCa                                                                       <  2:678176/140‑1 (MQ=255)
                                              cAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCa                                                                       <  2:575869/140‑1 (MQ=255)
                                                  gCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGcc                                                                   <  1:568991/140‑1 (MQ=255)
                                                            cTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTg                                                         >  1:309677/1‑140 (MQ=255)
                                                                gaCCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTa                                                     >  1:459677/1‑140 (MQ=255)
                                                                       aGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTc                                              <  2:861814/140‑1 (MQ=255)
                                                                        gccgccGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCa                                             <  2:459677/140‑1 (MQ=255)
                                                                         ccgccgCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCaa                                            >  1:826195/1‑140 (MQ=255)
                                                                           gccgcAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCAATg                                          >  1:792422/1‑140 (MQ=255)
                                                                              gcAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCAATGGtt                                       <  1:328419/140‑1 (MQ=255)
                                                                                             gCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCAATGGTTTGGATCAGCGTTTCg                        <  2:309677/140‑1 (MQ=255)
                                                                                                 tAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGCGTTTCATCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCAATGGTTTGGATCAGCGTTTCGCTGt                    <  2:826195/140‑1 (MQ=255)
                                                                                                        cATAAAGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCAATGGTTTGGATCAGCGTTTCGCTGTCTTCTGc             >  1:662375/1‑140 (MQ=255)
                                                                                                           aaaGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCAATGGTTTGGATCAGCGTTTCGCTGTCTTCTGCTTc          <  1:309912/140‑1 (MQ=255)
                                                                                                           aaaGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCAATGGTTTGGATCAGCGTTTCGCTGTCTTCTGCTTc          <  2:574022/140‑1 (MQ=255)
                                                                                                             aGCTACGACGACTGAGTTTCATGGTGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCAATGGTTTGGATCAGCGTTTCGCTGTCTTCTGCTTcc         <  2:386207/139‑1 (MQ=255)
                                                                                                             aGCTACGACGACTGAGTTTCATGGTGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCAATGGTTTGGATCAGCGTTTCGCTGTCTTCTGCTTcc         >  1:386207/1‑139 (MQ=255)
                                                                                                             aGCTACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCAATGGTTTGGATCAGCGTTTCGCTGTCTTCTGCTTcca        >  2:726284/1‑140 (MQ=255)
                                                                                                                tACGACGACTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCAATGGTTTGGATCAGCGTTTCGCTGTCTTCTGCTTccacca     <  1:205806/140‑1 (MQ=255)
                                                                                                                  cgacgaCTGAGTTTCATGGCGTTTCCTCACCTTTCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCAATGGTTTGGATCAGCGTTTCGCTGTCTTCTGCTTccaccacc   >  2:887004/1‑140 (MQ=255)
                                                                                                                  cgacgaCTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCAATGGTTTGGATCAGCGTTTCGCTGTCTTCTGCTTccaccacc   >  2:660130/1‑140 (MQ=255)
                                                                                                                  cgacgaCTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCAATGGTTTGGATCAGCGTTTCGCTGTCTTCTGCTTccaccacc   >  1:695752/1‑140 (MQ=255)
                                                                                                                  cgacgaCTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCAATGGTTTGGATCAGCGTTTCGCTGTCTTCTGCTTccaccacc   >  1:568732/1‑140 (MQ=255)
                                                                                                                   gacgacTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACGCCGCCAGCACGCCCTCTACGTTGCGTACTGACTCAATGGTTTGGATCAGCGTTTCGCTGTCTTCTGCTTccaccacca  >  2:798364/1‑140 (MQ=255)
                                                                                                                   gacgacTGAGTTTCATGGCGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCAATGGTTTGGATCAGCGTTTCGCTGTCTTCTGCTTccaccacca  >  2:846384/1‑140 (MQ=255)
                                                                                                                                     |                                                                                                                         
GCTTTATCCCATTTGATGGCTTCCTGCTGACCAACAACGGCGCGGGCAACGCCCGGCACGCTGAGACCGGCAGCCGCCGCAGCGGCCGCAACGGCGTTAGCTTTCATAAAGCTACGACGACTGAGTTTCATGGTGTTTCCTCACCTTGCTCTTCCTGCTGGTGATAAACCAGCGACACCGCCAGCACGCCCTCTACGTTGCGTACTGACTCAATGGTTTGGATCAGCGTTTCGCTGTCTTCTGCTTCCACCACCA  >  NC_000913/2302623‑2302877

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A