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
A13 F1 I1 R1 778 68.7 3228504 93.4% 3015422 109.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,700,201 (T)5→6 coding (847/1593 nt) malX → maltose and glucose‑specific PTS enzyme IIB component and IIC component

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,700,1961.T100.0% 164.1 / NA 52G281V (GGT→GTT) malXmaltose and glucose‑specific PTS enzyme IIB component and IIC component
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base T (26/26);  total (26/26)

CACATTCTGGTGGCATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGG‑TTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCATAAAATTAAAGGTCTGCTG  >  NC_000913/1700075‑1700329
                                                                                                                          |                                                                                                                                     
cacaTTCTGGTGGCATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGcc                                                                                                                       <  2:165731/139‑1 (MQ=255)
       tggtggCATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGG‑ttttttct                                                                                                                               >  1:497676/1‑120 (MQ=255)
       tggtggCATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGG‑ttttttct                                                                                                                               <  2:497676/123‑4 (MQ=255)
         gtggCATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTc                                                                                                              >  2:1524899/1‑139 (MQ=255)
             cATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCttt                                                                                                          >  1:1183156/1‑139 (MQ=255)
             cATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCttt                                                                                                          >  2:1528159/1‑139 (MQ=255)
                  aTTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCaa                                                                                                     <  1:33898/139‑1 (MQ=255)
                   ttCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCa                                                                                                      <  2:383841/137‑1 (MQ=255)
                   ttCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCa                                                                                                      >  1:383841/1‑137 (MQ=255)
                       cTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCaa                                                                                                     <  2:520849/134‑1 (MQ=255)
                       cTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCaa                                                                                                     >  1:520849/1‑134 (MQ=255)
                           aCCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCAc                                                                                                                     >  1:701846/1‑114 (MQ=255)
                           aCCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCAc                                                                                                                     <  2:701846/114‑1 (MQ=255)
                             cGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGcc                                                                                          >  2:605979/1‑139 (MQ=255)
                                 gCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAgcg                                                                                                                         <  2:1065935/104‑1 (MQ=255)
                                 gCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAgcg                                                                                                                         >  1:1065935/1‑104 (MQ=255)
                                 gCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTa                                                                                                 >  2:254702/1‑128 (MQ=255)
                                 gCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTa                                                                                                 <  1:254702/128‑1 (MQ=255)
                                      cggcACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTtct                                                                                 <  1:1528159/139‑1 (MQ=255)
                                          aCGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTcggc                                                                             >  1:318722/1‑139 (MQ=255)
                                          aCGCAGGAAGT‑‑‑CGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGt                                                                          <  1:1179331/139‑1 (MQ=255)
                                                 aaGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGc                                                                      <  1:506859/139‑1 (MQ=255)
                                                      tGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGt                                                                 >  2:1086061/1‑139 (MQ=255)
                                                      tGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGt                                                                 <  1:1407270/139‑1 (MQ=255)
                                                       gCGGTCAGACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTg                                                                >  2:1463776/1‑139 (MQ=255)
                                                        cGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGc                                                               <  1:1293393/139‑1 (MQ=255)
                                                              aaCCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGtt                                                         <  2:672872/139‑1 (MQ=255)
                                                                ccGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAg                                                       <  1:147700/139‑1 (MQ=255)
                                                                  gTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCt                                                     <  2:1183156/139‑1 (MQ=255)
                                                                            cACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACt                                           >  1:205692/1‑139 (MQ=255)
                                                                                 aCCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTgcgcg                                      >  2:594614/1‑139 (MQ=255)
                                                                                 aCCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTgcgcg                                      >  1:422519/1‑139 (MQ=255)
                                                                                 aCCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTgcgcg                                      <  2:422519/139‑1 (MQ=255)
                                                                                           cggCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGaa                                                                                                                             >  1:1003824/2‑42 (MQ=255)
                                                                                           aGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGaa                                                                                                                             <  2:1003824/42‑1 (MQ=255)
                                                                                           aGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTcggcg                                                                            >  1:437399/1‑91 (MQ=255)
                                                                                           aGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTcggcg                                                                            <  2:437399/91‑1 (MQ=255)
                                                                                           aGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGaaa                            >  1:1594677/1‑139 (MQ=255)
                                                                                                cAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGATAGCGCCACGCGTTTCCTTTCGCAAGGGAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGt                                                                 >  2:1024096/1‑97 (MQ=255)
                                                                                                cAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGt                                                                 <  1:1024096/97‑1 (MQ=255)
                                                                                                 aaTTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGcc                      >  1:978477/1‑139 (MQ=255)
                                                                                                  aTTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTcggcg                                                                            >  2:17626/1‑84 (MQ=255)
                                                                                                  aTTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTcggcg                                                                            <  1:17626/84‑1 (MQ=255)
                                                                                                  aTTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCa                     >  2:193/1‑139 (MQ=255)
                                                                                                  aTTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCa                     <  1:1305735/139‑1 (MQ=255)
                                                                                                   ttGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCAt                    <  2:504250/139‑1 (MQ=255)
                                                                                                           cccGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTcggcg                                                                            <  2:1109568/75‑1 (MQ=255)
                                                                                                           cccGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTcggcg                                                                            <  1:86201/75‑1 (MQ=255)
                                                                                                           cccGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTcggcg                                                                            >  1:1109568/1‑75 (MQ=255)
                                                                                                           cccGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTcggcg                                                                            >  2:86201/1‑75 (MQ=255)
                                                                                                             cGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCATAAAATTAAAg          >  1:1187545/1‑139 (MQ=255)
                                                                                                               aCCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCATAAAATTAAAGGt        <  1:594614/139‑1 (MQ=255)
                                                                                                                    tCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCATAAAATTAAAGGTctgct   <  2:1594677/139‑1 (MQ=255)
                                                                                                                     cACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCATAAAATTAAAGGTctgctg  >  2:1522829/1‑139 (MQ=255)
                                                                                                                          |                                                                                                                                     
CACATTCTGGTGGCATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGG‑TTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCATAAAATTAAAGGTCTGCTG  >  NC_000913/1700075‑1700329

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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