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
A4 F1 I2 R1 780 68.3 3343050 93.5% 3125751 102.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,881,431 C→T P297P (CCG→CCA)  dnaN ← DNA polymerase III, beta subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,881,4310CT100.0% 181.5 / NA 57P297P (CCG→CCA) dnaNDNA polymerase III, beta subunit
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (29/28);  total (29/28)

CGGTCAGCATCATGCGGACGTTTTCGCATTTCAGCGCGTTCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCCGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCAAACGCCTGCTTGAGCAGATCGCAGCCAGCTTCC  >  NC_000913/3881298‑3881554
                                                                                                                                     |                                                                                                                           
cGGTCAGCATCATGCGGACGTTTTCGCATTTCAGCGCGTTCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGgtt                                                                                                                        >  1:291997/1‑139 (MQ=255)
        atcatGCGGACGTTTTCGCATTTCAGCGCGTTCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCgg                                                                                                                <  2:1652719/139‑1 (MQ=255)
                      ttCGCATTTCAGCGCGTTCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTgg                                                                                                  >  1:916600/1‑139 (MQ=255)
                      ttCGCATTTCAGCGCGTTCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTgg                                                                                                  >  1:1402805/1‑139 (MQ=255)
                               cAGCGCGTTCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGc                                                                                           <  2:1164634/137‑1 (MQ=255)
                               cAGCGCGTTCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGc                                                                                           >  1:1164634/1‑137 (MQ=255)
                                  cgcgTTCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACa                                                                                      <  2:655524/139‑1 (MQ=255)
                                  cgcgTTCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACa                                                                                      >  2:561563/1‑139 (MQ=255)
                                    cgTTCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATa                                                                                    <  2:1177858/139‑1 (MQ=255)
                                       tCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCgg                                                                                                                <  1:1548044/108‑1 (MQ=255)
                                       tCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCgg                                                                                                                >  2:1548044/1‑108 (MQ=255)
                                       tCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGc                                                                                           >  1:835766/1‑129 (MQ=255)
                                       tCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGc                                                                                           <  2:835766/129‑1 (MQ=255)
                                                ccAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCgg                                                                                                                <  2:488700/99‑1 (MQ=255)
                                                ccAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCgg                                                                                                                >  1:488700/1‑99 (MQ=255)
                                                ccAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTAcgcc                                                                        >  2:1570763/1‑139 (MQ=255)
                                                   gCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCcgcg                                                                     >  2:806998/1‑139 (MQ=255)
                                                        tAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAAtt                                                                <  2:916600/139‑1 (MQ=255)
                                                             gACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCg                                                           <  2:1402805/139‑1 (MQ=255)
                                                                gTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTGTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCt                                                                                          <  2:1062249/105‑1 (MQ=255)
                                                                gTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCt                                                                                          >  1:1062249/1‑105 (MQ=255)
                                                                gTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTa                                                        <  1:1570763/139‑1 (MQ=255)
                                                                 ttGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTa                                                                            >  1:1407793/1‑118 (MQ=255)
                                                                 ttGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTa                                                                            <  2:1407793/118‑1 (MQ=255)
                                                                 ttGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTAcg                                                                          <  1:1409585/120‑1 (MQ=255)
                                                                 ttGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTAcg                                                                          >  2:1409585/1‑120 (MQ=255)
                                                                  tGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTaga                                                      <  1:561563/139‑1 (MQ=255)
                                                                      gCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAgagaga                                                  >  2:64863/1‑139 (MQ=255)
                                                                                aTCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCcgcgc                                        <  2:205827/139‑1 (MQ=255)
                                                                                    ccGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCg                                                                                            <  2:1094084/83‑1 (MQ=255)
                                                                                    ccGCACCACTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGCTGATTTTCAGCTGGTTTTCg                                                                                            >  1:1094084/1‑83 (MQ=255)
                                                                                     cGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGc                                                                                           >  2:382371/1‑83 (MQ=255)
                                                                                     cGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGc                                                                                           <  1:382371/83‑1 (MQ=255)
                                                                                     cGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCa                                   <  1:64863/139‑1 (MQ=255)
                                                                                         ccGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCAAACg                               <  1:806998/139‑1 (MQ=255)
                                                                                         ccGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCAAACg                               <  2:291997/139‑1 (MQ=255)
                                                                                                  gTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCAAACGCCTGc                          >  2:1263912/1‑135 (MQ=255)
                                                                                                  gTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCAAACGCCTGc                          <  1:1263912/135‑1 (MQ=255)
                                                                                                      cGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCgg                                                                                                                >  1:185202/1‑45 (MQ=255)
                                                                                                      cGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCgg                                                                                                                <  2:185202/45‑1 (MQ=255)
                                                                                                      cGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCAAACGCCTGCTTGAGCAg                  >  2:840570/1‑139 (MQ=255)
                                                                                                      cGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCAAACGCCTGCTTGAGCAg                  >  1:749196/1‑139 (MQ=255)
                                                                                                       gTCGAGGATCTCTTCCGTTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCAAACGcc                             <  1:630628/127‑1 (MQ=255)
                                                                                                       gTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCAAACGcc                             >  2:630628/1‑127 (MQ=255)
                                                                                                       gTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCAAACGCCTGCTTGAGCAGa                 >  1:1336613/1‑139 (MQ=255)
                                                                                                         cGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCg                                                                                            >  2:206742/1‑62 (MQ=255)
                                                                                                         cGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCg                                                                                            <  1:206742/62‑1 (MQ=255)
                                                                                                           aGGATCTGTTCCGCTGCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCGGGTTTTCGCTGACATAAAGACGTAcgccgc                                                                      <  1:1248581/82‑1 (MQ=255)
                                                                                                           aGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTAcgccgc                                                                      >  2:1248581/1‑82 (MQ=255)
                                                                                                             gATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCAAACGCCTGCTTGAGCAGATCGcag           >  2:1037957/1‑139 (MQ=255)
                                                                                                                        cttcttCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCTTTAGAGAGAATCGCCGCGCGAGCAAACGCCTGCTTGAGCAGATCGCAGCCAGCTTcc  <  1:1238493/137‑1 (MQ=255)
                                                                                                                        cttcttCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCAAACGCCTGCTTGAGCAGATCGCAGCCAGCTTcc  >  2:1238493/1‑137 (MQ=255)
                                                                                                                           cttcCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGc                                                                                           >  1:972565/1‑45 (MQ=255)
                                                                                                                           cttcCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGc                                                                                           <  2:972565/45‑1 (MQ=255)
                                                                                                                             tcCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGc                                                                                           <  1:1617665/43‑1 (MQ=255)
                                                                                                                             tcCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGc                                                                                           >  2:1617665/1‑43 (MQ=255)
                                                                                                                                  ttCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCAAACg                               >  2:300893/1‑98 (MQ=255)
                                                                                                                                     |                                                                                                                           
CGGTCAGCATCATGCGGACGTTTTCGCATTTCAGCGCGTTCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCCGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCAAACGCCTGCTTGAGCAGATCGCAGCCAGCTTCC  >  NC_000913/3881298‑3881554

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A