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
A11 F28 I1 R1 134 60.5 2175152 94.0% 2044642 138.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,492,018 T→C N94D (AAC→GAC)  ppiA ← peptidyl‑prolyl cis‑trans isomerase A

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,492,0180TC100.0% 101.3 / NA 32N94D (AAC→GAC) ppiApeptidyl‑prolyl cis‑trans isomerase A
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (5/27);  total (5/27)

GGTCAAGGAAGGCGTTATCGGCAACGTTGATAAAGAACTGGCTGGTGGCGCTGTCTTTGTCAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTTTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGACGCGGTGAAAGGTAGTGTTGTTATAAAAACCGCTGTTCACATAATCGACAAAGTTTTGCACAGACACTGGCGCT  >  NC_000913/3491883‑3492154
                                                                                                                                       |                                                                                                                                         
ggTCAAGGAAGGCGTTATCGGCAACGTTGATAAAGAACTGGCTGGTGGCGCTGTCTTTGTCAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGggtctggt                                                                                                                                       <  2:17564/140‑1 (MQ=255)
     aggaaggCGTTATCGGCAACGTTGATAAAGAACTGGCTGGTGGCGCTGTCTTTGTCAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGtttttt                                                                                                                                  >  1:139580/1‑140 (MQ=255)
        aaggCGTTATCGGCAACGTTGATAAAGAACTGGCTGGTGGCGCTGTCTTTGTCAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTctg                                                                                                                               <  1:539894/140‑1 (MQ=255)
          ggCGTTATCGGCAACGTTGATAAAGAACTGGCTGGTGGCGCTGTCTTTGTCAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGGCTGGgttttttttct                                                                                                                             >  2:1027139/1‑135 (MQ=255)
            cGTTATCGGCAACGTTGATAAAGAACTGGCTGGTGGCGCTGTCTTTGTCAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGGCTGGgtttttttttttt                                                                                                                           >  2:1081338/1‑133 (MQ=255)
               tATCGGCAACGTTGATAAAGAACTGGCTGGTGGCGCTGTCTTTGTCAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATc                                                                                                                        <  1:1027139/140‑1 (MQ=255)
                 tCGGCAACGTTGATAAAGAACTGGCTGGTGGCGCTGTCTTTGTCAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTg                                                                                                                      <  2:646879/140‑1 (MQ=255)
                  cGGCAACGTTGATAAAGAACTGGCTGGTGGCGCTGTCTTTGTCAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGc                                                                                                                     <  1:128841/140‑1 (MQ=255)
                              tAAAGAACTGGCTGGTGGCGCTGTCTTTGTCAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAAccg                                                                                                        <  2:789707/140‑1 (MQ=255)
                              tAAAGAACTGGCTGGTGGCGCTGTCTTTGTCAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAAccg                                                                                                        <  1:392724/140‑1 (MQ=255)
                                   aaCTGGCTGGTGGCGCTGTCTTTGTCAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTGTGGGTTTTTTTTCTGCCTCTTCT‑CCGTGGAAACgccccc                                                                                                   >  2:546973/1‑140 (MQ=255)
                                   aaCTGGCTGGTGGCGCTGTCTTTGTCAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCgccgcc                                                                                                   <  1:164481/140‑1 (MQ=255)
                                    aCTGGCTGGTGGCGCTGTCTTTGTCAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGGCTGGGTTTTTTTTCTTCATCTTCT‑CGGTGGAAAcccccccc                                                                                                  >  1:1066990/1‑140 (MQ=255)
                                        gctggTGGCGCTGTCTTTGTCAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGGCTGGGTTTTTTTTCTGCATCTTCTCCGGGGAAACCCCCCCCCGGa                                                                                               >  2:890930/1‑140 (MQ=255)
                                             tggCGCTGTCTTTGTCAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCTGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATa                                                                                         >  1:861604/1‑140 (MQ=255)
                                               gcgcTGTCTTTGTCAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATaaa                                                                                       <  1:1081338/140‑1 (MQ=255)
                                                            cAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGAcg                                                                          <  2:139580/140‑1 (MQ=255)
                                                            cAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGAcg                                                                          <  1:385400/140‑1 (MQ=255)
                                                            cAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGAcg                                                                          <  2:897640/140‑1 (MQ=255)
                                                              gCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCTGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGAcgcg                                                                        <  2:861604/140‑1 (MQ=255)
                                                                 gTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGACGCGGTg                                                                     <  1:546973/140‑1 (MQ=255)
                                                                 gTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGACGCGGTg                                                                     <  2:584276/140‑1 (MQ=255)
                                                                   aCGTGCCATCGCGATGGTGCCACGGGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGACGCGGTGaa                                                                   <  1:668768/140‑1 (MQ=255)
                                                                   aCGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGACGCGGTGaa                                                                   <  2:712124/140‑1 (MQ=255)
                                                                     gTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGACGCGGTGAAAg                                                                 <  1:959430/140‑1 (MQ=255)
                                                                           tCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGACGCGGTGAAAGGTAgtg                                                           <  1:890930/140‑1 (MQ=255)
                                                                           tCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGACGCGGTGAAAGGTAgtg                                                           <  2:888/140‑1 (MQ=255)
                                                                           gacagATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGACGCGGTGAAAGGTAgtg                                                           <  1:1057019/136‑1 (MQ=255)
                                                                             gcgATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGACGCGGTGAAAGGTAGtgtt                                                         <  2:1030528/140‑1 (MQ=255)
                                                                                      ccACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTGTGGGTTTTTTTTCTGCATCTGCT‑CGGTGGAAACCCCGCCCCGAATCATAAAACCAGGAAAGACGCGGGGAAAAGGAGGGTTGTTTTaaaa                                                >  2:151150/1‑140 (MQ=255)
                                                                                         cgcgTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGACGCGGTGAAAGGTAGTGTTGTTATAAAAAcc                                             <  1:48737/140‑1 (MQ=255)
                                                                                          gcgTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGACGCGGTGAAAGGTAGTGTTGTTATAAAAACCg                                            <  2:693154/140‑1 (MQ=255)
                                                                                          gcgTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGACGCGGTGAAAGGTAGTGTTGTTATAAAAACCg                                            <  2:758127/140‑1 (MQ=255)
                                                                                           cgTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGGCTGGGTTTTTTTTCTTCCTCTGCT‑CGGGGGAAACGCCCCCCCGAATCATAAAACCAGGGAAGAAGCGGGGGAAAGGAGGGTTGTTTTaaaaatatt                                           >  2:1057019/1‑136 (MQ=255)
                                                                                                            tATCGGCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGACGCGGTGAAAGGTAGTGTTGTTATAAAAACCGCTGTTCACATAATCGACa                          <  1:218204/140‑1 (MQ=255)
                                                                                                                 gCTTCATTTTTGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGACGCGGTGAAAGGTAGTGTTGTTATAAAAACCGCTGTTCACATAATCGACAAAGtt                     <  1:666905/140‑1 (MQ=255)
                                                                                                                   ttCATTTTTGATTGGCGGGTCTGGGTTTTTTTTCTGCCTCTTCT‑CCGTGAAAACCCCCCCCCCCATCATAAAAACAAGGAAGACGCGGGGGAAGGGAGGGGTGTTATAAAAAACCCCGGTTACATAAACGACaaaaattt                   >  2:218204/1‑135 (MQ=255)
                                                                                                                     cATTTTTGATTGGCGGGTCTGGGTTTTTTTTCTGCATCTGCT‑CCGTGGAAACGCCGCCCCGGATCATAAAACCAGGGATGACGCGGGGGAAGGGAGTGGTGTTTTTAAAAACCCTGTTTACATAATCGACaaaaattttt                 >  2:666905/1‑133 (MQ=255)
                                                                                                                        ttttGATTGGCGGGTCTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGACGCGGTGAAAGGTAGTGTTGTTATAAAAACCGCTGTTCACATAATCGACAAAGTTTTGcaca              <  2:1066990/140‑1 (MQ=255)
                                                                                                                                    ggtctggtttTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGACGCGGTGAAAGGTAGTGTTGTTATAAAAACCGCTGTTCACATAATCGACAAAGTTTTGCACAGACACTGGCGCt  <  2:541175/140‑1 (MQ=255)
                                                                                                                                       |                                                                                                                                         
GGTCAAGGAAGGCGTTATCGGCAACGTTGATAAAGAACTGGCTGGTGGCGCTGTCTTTGTCAGCGGTACGTGCCATCGCGATGGTGCCACGCGTGTTGCGCAGGCCGTTATCGGCTTCATTTTTGATTGGCGGGTTTGGTTTTTTCTGCTGCATCTGCT‑CGGTGAAACCGCCGCCCTGAATCATAAAGCCAGGAATGACGCGGTGAAAGGTAGTGTTGTTATAAAAACCGCTGTTCACATAATCGACAAAGTTTTGCACAGACACTGGCGCT  >  NC_000913/3491883‑3492154

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ 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