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 F28 I1 R1 164 66.7 2276140 99.1% 2255654 138.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,755,515 G→A intergenic (‑374/‑183) fumD ← / → pykF fumarase D/pyruvate kinase I

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,755,5150GA100.0% 183.7 / NA 52intergenic (‑374/‑183)fumD/pykFfumarase D/pyruvate kinase I
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (23/29);  total (23/29)

TGTCTAACAAGTTGTATATTTTTTGAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACGACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCTATCCTTAGAGCGAGGCACCACCACTTTCGTAATACCGGATTCGCTTTCCGGCA  >  NC_000913/1755392‑1755641
                                                                                                                           |                                                                                                                              
tGTCTAACAAGTTGTATATTTTTTGAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCAc                                                                                                                <  1:213846/140‑1 (MQ=255)
   cTAACAAGTTGTATATTTTTTGAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCTATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCa                                                                                                             >  2:404292/1‑140 (MQ=255)
     aaCAAGTTGTATATTTTTTGAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCCCTCACg                                                                                                           <  2:173295/140‑1 (MQ=255)
      aCAAGTTGTATATTTTTTGAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGt                                                                                                          >  2:754269/1‑140 (MQ=255)
           ttGTATATTTTTTGAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGc                                                                                                     <  1:654955/140‑1 (MQ=255)
           ttGTATATTTTTTGAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGc                                                                                                     <  2:1130189/140‑1 (MQ=255)
            tGTATATTTTTTGAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACt                                                                                                               >  1:19898/1‑129 (MQ=255)
            tGTATATTTTTTGAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACt                                                                                                               <  2:19898/129‑1 (MQ=255)
            tGTATATTTTTTGAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCt                                                                                                    >  1:123183/1‑140 (MQ=255)
            tGTATATTTTTTGAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCt                                                                                                    >  1:366679/1‑140 (MQ=255)
              tataTTTTTTGAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAgg                                                                                                                   >  2:474249/1‑123 (MQ=255)
              tataTTTTTTGAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAgg                                                                                                                   <  1:474249/123‑1 (MQ=255)
                tatTTTTTGAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTgaga                                                                                                <  2:377308/140‑1 (MQ=255)
                tatTTTTTGAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTgaga                                                                                                >  1:542674/1‑140 (MQ=255)
                  ttttttGAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCTATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGaca                                                                                              <  1:404292/140‑1 (MQ=255)
                     tttGAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACaa                                                                                           <  1:623637/140‑1 (MQ=255)
                        gAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGtt                                                                                                         >  1:1131457/1‑123 (MQ=255)
                        gAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGtt                                                                                                         <  2:1131457/123‑1 (MQ=255)
                                    ttgttttCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTg                                                                            <  2:1078764/140‑1 (MQ=255)
                                      gttttCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCa                                                                          >  2:1000429/1‑140 (MQ=255)
                                       ttttCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACaa                                                                                           >  2:199362/1‑122 (MQ=255)
                                       ttttCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACaa                                                                                           <  1:199362/122‑1 (MQ=255)
                                       ttttCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCAc                                                                         <  2:123183/140‑1 (MQ=255)
                                        tttCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACg                                                                        <  2:123287/140‑1 (MQ=255)
                                           ccTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCtt                                                                     >  1:954323/1‑140 (MQ=255)
                                                 ggATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGa                                                               >  2:822254/1‑140 (MQ=255)
                                                    ttAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGt                                                            <  2:205888/140‑1 (MQ=255)
                                                    ttAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGt                                                            <  1:754269/140‑1 (MQ=255)
                                                      aaTTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCa                                                          <  1:896373/140‑1 (MQ=255)
                                                         ttCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCt                                                       <  1:822254/140‑1 (MQ=255)
                                                             gCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCTATcc                                                   >  1:1136157/1‑140 (MQ=255)
                                                                 ataATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCAcc                                                        >  2:983951/1‑131 (MQ=255)
                                                                 ataATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCAcc                                                        <  1:983951/131‑1 (MQ=255)
                                                                   aaTGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCTATCCTTagag                                             >  1:341826/1‑140 (MQ=255)
                                                                        gcgcCAATTGACTCTTTAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCTATCCTTAGAGCGAgg                                        >  1:116703/1‑140 (MQ=255)
                                                                        gcgcCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCTATCCTTagag                                             >  1:690357/1‑135 (MQ=255)
                                                                        gcgcCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCTATCCTTagag                                             <  2:690357/135‑1 (MQ=255)
                                                                        gcgcCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCTATCCTTAGAGCGAgg                                        >  1:29087/1‑140 (MQ=255)
                                                                        gcgcCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCTATCCTTAGAGCGAgg                                        <  2:575453/140‑1 (MQ=255)
                                                                          gcCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCt                                                       <  1:484887/123‑1 (MQ=255)
                                                                          gcCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCt                                                       >  2:484887/1‑123 (MQ=255)
                                                                          gcCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCTATCCTTa                                                >  1:260791/1‑130 (MQ=255)
                                                                          gcCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCTATCCTTa                                                <  2:260791/130‑1 (MQ=255)
                                                                           ccAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCTATCCTTAGAGCGAGGcac                                     >  1:694829/1‑140 (MQ=255)
                                                                            cAATTGACTCTTTAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCTATCCTTAGAGCGAGGcacc                                    <  2:116703/140‑1 (MQ=255)
                                                                             aaTTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCTATCCTTAGAGCGAGGcacca                                   <  1:1000429/140‑1 (MQ=255)
                                                                              aTTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCTATCCTTAGAGCGAGGcaccac                                  <  2:1136157/140‑1 (MQ=255)
                                                                                   ctctTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGCGACACAAGCACACATGCCTCTGCACGCTTTTTCGATGTCACCTATCCTTAGAGCGAGGCACCACCACtt                             >  2:982485/1‑140 (MQ=255)
                                                                                      ttGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCTATCCTTAGAGCGAGGCACCACCACTTTCg                          >  1:753193/1‑140 (MQ=255)
                                                                                       tGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCTATCCTTAGAGCGAGGCACCACCACTTTCGt                         <  1:988517/140‑1 (MQ=255)
                                                                                                    cACTTTGGACTGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCTATCCTTAGAGCGAGGCACCACCACTTTCGTAATACCGGATTCg            <  2:341826/140‑1 (MQ=255)
                                                                                                              tGTAGAACTCAACAACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCTATCCTTAGAGCGAGGCACCACCACTTTCGTAATACCGGATTCGCTTTCCGGCa  <  2:954323/140‑1 (MQ=255)
                                                                                                                           |                                                                                                                              
TGTCTAACAAGTTGTATATTTTTTGAAACGCTGTTTTTGTTTTCCTTTTGGATTAATTTCAGCGTATAATGCGCGCCAATTGACTCTTGAATGGTTTCAGCACTTTGGACTGTAGAACTCAACGACTCAAAAACAGGCACTCACGTTGGGCTGAGACACAAGCACACATTCCTCTGCACGCTTTTTCGATGTCACCTATCCTTAGAGCGAGGCACCACCACTTTCGTAATACCGGATTCGCTTTCCGGCA  >  NC_000913/1755392‑1755641

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