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 1,419,456 T→C M1M (ATG→GTG) † ydaG ← Rac prophage; uncharacterized protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,419,4560TC100.0% 165.8 / NA 44M1M (ATG→GTG) †ydaGRac prophage; uncharacterized protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (21/23);  total (21/23)

ATTTTGCGAATCTCACATCTTGTTGCTACGTATAGCGACTTCTGCCTGCCAGAGATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCATCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCGGGCTGGCTACTTAACCCCTTACCACTGCCTGGTAACTCGAAGTATTGCCCGGCGTTCTG  >  NC_000913/1419310‑1419599
                                                                                                                                                  |                                                                                                                                               
aTTTTGCGAATCTCACATCTTGTTGCTACGTATAGCGACTTCTGCCTGCCAGAGATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTa                                                                                                                                             <  1:291770/151‑1 (MQ=255)
    tGCGAATCTCACATCTTGTTGCTACGTATAGCGACTTCTGCCTGCCAGAGATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTAtctc                                                                                                                                         >  2:204259/1‑151 (MQ=255)
     gCGAATCTCACATCTTGTTGCTACGTATAGCGACTTCTGCCTGCCAGAGATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTAtctct                                                                                                                                        >  2:296982/1‑151 (MQ=255)
        aaTCTCACATCTTGTTGCTACGTATAGCGACTTCTGCCTGCCAGAGATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTccc                                                                                                                                     >  2:410711/1‑151 (MQ=255)
              acaTCTTGTTGCTACGTATAGCGACTTCTGCCTGCCAGAGATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAAc                                                                                                                               <  2:472211/151‑1 (MQ=255)
               caTCTTGTTGCTACGTATAGCGACTTCTGCCTGCCAGAGATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACg                                                                                                                              <  1:210291/151‑1 (MQ=255)
                      ttgCTACGTATAGCGACTTCTGCCTGCCAGAGATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACg                                                                                                                              >  2:532934/1‑144 (MQ=255)
                      ttgCTACGTATAGCGACTTCTGCCTGCCAGAGATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACg                                                                                                                              <  1:532931/144‑1 (MQ=255)
                            cGTATAGCGACTTCTGCCTGCCAGAGATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGa                                                                                                                  >  2:333836/1‑150 (MQ=255)
                               ataGCGACTTCTGCCTGCCAGAGATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGaact                                                                                                               <  1:130852/150‑1 (MQ=255)
                               ataGCGACTTCTGCCTGCCAGAGATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGaact                                                                                                               <  2:225301/150‑1 (MQ=255)
                               ataGCGACTTCTGCCTGCCAGAGATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGaact                                                                                                               >  1:456701/1‑150 (MQ=255)
                               ataGCGACTTCTGCCTGCCAGAGATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGaact                                                                                                               <  1:410706/150‑1 (MQ=255)
                                         ctgcctgcCAGAGATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGctgcac                                                                                                    >  1:354508/1‑151 (MQ=255)
                                           gcctgccAGAGATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGctgcactg                                                                                                  >  2:457819/1‑151 (MQ=255)
                                           gcctgccAGAGATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGctgca                                                                                                     <  2:600018/148‑1 (MQ=255)
                                            cctgccAGAGATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGctgcactgc                                                                                                 >  1:109066/1‑151 (MQ=255)
                                                  agagATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAAtt                                                                                           >  2:278556/1‑151 (MQ=255)
                                                     gaTCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGa                                                                                        <  2:40846/151‑1 (MQ=255)
                                                      aTCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGaa                                                                                       <  1:445293/151‑1 (MQ=255)
                                                                ttGCTGCGAAAAGCCTGCACAGCCGGGTTGTAAGTGATCCCCAAAAAACCCATAAAATACTGAACTACTTCAAAATGCACCACCTTATCTCTCCCCTTACCGCCGGTTGGCGAAACTACCTGCTGCACTGCAAAATTTGATTCCCGCCGt                                                                              <  1:333833/150‑1 (MQ=255)
                                                                 tgctgcGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTc                                                                             >  2:177260/1‑150 (MQ=255)
                                                                     gcGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATg                                                                          <  2:150917/149‑1 (MQ=255)
                                                                     gcGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGtt                                                                        <  2:650461/151‑1 (MQ=255)
                                                                      cGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTc                                                                       >  2:63746/1‑151 (MQ=255)
                                                                                 cacaGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCgg                                                            <  2:422855/151‑1 (MQ=255)
                                                                                      ccTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCGggctgg                                                       >  2:182550/1‑151 (MQ=255)
                                                                                         ggTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCGGGCTGGCTa                                                    <  1:296980/151‑1 (MQ=255)
                                                                                            tGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCGGGCTGGCTACtt                                                 >  1:604237/1‑151 (MQ=255)
                                                                                              tAAGTGATACCGCAACAATCCATAAAATACTGATCTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCGGGCTGGCTACtt                                                 <  1:286208/149‑1 (MQ=255)
                                                                                                    aTACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCGGGCTGGCTACTTAACCCCtt                                         >  1:70880/1‑151 (MQ=255)
                                                                                                          caacaaTCCATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCGGGCTGGCTACTTAACCCCTTACCACt                                   <  2:211379/151‑1 (MQ=255)
                                                                                                                 ccATCAAATACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCGGGCTGGCTACTTAACCCCTTACCACTGCCTGGt                            <  2:226822/151‑1 (MQ=255)
                                                                                                                      aaaTACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCGGGCTGGCTACTTAACCCCTTACCACTGCCTGGTAACTc                       >  1:109194/1‑151 (MQ=255)
                                                                                                                        aTACTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCGGGCTGGCTACTTAACCCCTTACCACTGCCTGGTAACTCGa                     <  1:28509/151‑1 (MQ=255)
                                                                                                                          aCTGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCGGGCTGGCTACTTAACCCCTTACCACTGCCTGGTAACTCGaa                    <  1:457815/150‑1 (MQ=255)
                                                                                                                            tGAACTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCGGGCTGGCTACTTAACCCCTTACCACTGCCTGGTAACTCGAAGt                  >  2:318943/1‑150 (MQ=255)
                                                                                                                              aaCTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCGGGCTGGCTACTTAACCCCTTACCACTGCCTGGTAACTCGAAGTAtt               >  1:513962/1‑151 (MQ=255)
                                                                                                                              aaCTACTTCGTAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCGGGCTGGCTACTTAACCCCTTACCACTGCCTGGTAACTCGAAGTAtt               <  1:17122/151‑1 (MQ=255)
                                                                                                                                       gTAATGCACCACCTTATCTCTCCCCTCAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAATATTTGCATCCCGCCGTCATGTTCATACGCCTCGGGCTGGCTACTTAACCCCTTACCACTGCCTGGTAACTCGAAGAATTGCCCGGCGt      >  1:174361/1‑151 (MQ=255)
                                                                                                                                        tAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCGGGCTGGCTACTTAACCCCTTACCACTGCCTGGTAACTCGAAGTATTGCCCGGCGtt     >  2:588612/1‑151 (MQ=255)
                                                                                                                                        tAATGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCGGGCTGGCTACTTAACCCCTTACCACTGCCTGGTAACTCGAAGTATTGCCCGGCGtt     >  1:142156/1‑151 (MQ=255)
                                                                                                                                          aTGCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCGGGCTGGCTACTTAACCCCTTACCACTGCCTGGTAACTCGAAGTATTGCCCGGCGTTCt   <  2:132781/151‑1 (MQ=255)
                                                                                                                                            gCACCACCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCGGGCTGGCTACTTAACCCCTTACCACTGCCTGGTAACTCGAAGTATTGCCCGGCGTTCtg  <  1:312273/150‑1 (MQ=255)
                                                                                                                                                  |                                                                                                                                               
ATTTTGCGAATCTCACATCTTGTTGCTACGTATAGCGACTTCTGCCTGCCAGAGATCCCAGTCGTTGCTGCGTAAAGCCTGCACAGCCTGGTTGTAAGTGATACCGCAACAATCCATCAAATACTGAACTACTTCGTAATGCACCATCTTATCTCTCCCCTTAACGCCGGGTGGCGGAACTAACTGCTGCACTGCAAAATTTGAATCCCGCCGTCATGTTCATACGCCTCGGGCTGGCTACTTAACCCCTTACCACTGCCTGGTAACTCGAAGTATTGCCCGGCGTTCTG  >  NC_000913/1419310‑1419599

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A