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 F1 I2 R1 760 67.6 3323148 92.7% 3080558 109.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,238,562 (T)7→6 intergenic (+265/‑18) ygjR → / → alx putative NAD(P)‑dependent dehydrogenase/putative membrane‑bound redox modulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,238,5560T.100.0% 147.2 / NA 37intergenic (+259/‑24)ygjR/alxputative NAD(P)‑dependent dehydrogenase/putative membrane‑bound redox modulator
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (14/23);  total (14/23)

TGTGAAAAAACACATCCGGTCACCGGGCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCGTTTTTTTATGTGTAAGGAACTTCTATGAATACTGTCGGCACGCCGTTGCTATGGGGCGGATTCGCTGTTGTTGTCGCCATTATGCTGGCTATCGACCTGTTGTTGCAGGGGCGTCGTGGGGCACATGCCATGA  >  NC_000913/3238418‑3238688
                                                                                                                                          |                                                                                                                                    
tgtgAAGAAACAAATCCGGGCACCGGGCAACCCGAACGGAGTACGCAGACGTATGCCTATTTTGCTGTAACTGAGACCTTGGCGGAAGGCCGCGTGTACGCGTGAAAAGGAGCGGCGGACGGCTGTCGAGGTGGGCCGt                                                                                                                                      >  2:492809/1‑139 (MQ=255)
tgtgAAAAAACACATCCGGTCACCGGGCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCGt                                                                                                                                      >  1:1399817/1‑139 (MQ=255)
tgtgAAAAAACACATCCGGTCACCGGGCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCGt                                                                                                                                      >  1:1289808/1‑139 (MQ=255)
tgtgAAAAAACACATCCGGTCACCGGGCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGATGGCCGt                                                                                                                                      >  1:165498/1‑139 (MQ=255)
  tgAAAAAACACATCCGGTCACCGGGCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCGttt                                                                                                                                    >  1:1486984/1‑139 (MQ=255)
        aaCACATCCGGTCACCGGGCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCGttttttatg                                                                                                                              <  2:1486984/139‑4 (MQ=255)
          cacaTCCGGTCACCGGGCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCGttttttat                                                                                                                               <  2:670452/136‑3 (MQ=255)
          cacaTCCGGTCACCGGGCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCGttttttat                                                                                                                               >  1:670452/1‑134 (MQ=255)
            caTCCGGTCACCGGGCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCGtttttt                                                                                                                                 <  2:1566171/132‑1 (MQ=255)
            caTCCGGTCACCGGGCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCGtttttt                                                                                                                                 >  1:1566171/1‑132 (MQ=255)
              tCCGGTCACCGGGCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAg                                                                                                                       <  1:707543/139‑1 (MQ=255)
                 ggTCACCGGGCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGaa                                                                                                                    <  2:575755/139‑1 (MQ=255)
                   tCACCGGGCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGAACt                                                                                                                  <  2:516048/139‑1 (MQ=255)
                   tCACCGGGCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGAACt                                                                                                                  <  2:1399817/139‑1 (MQ=255)
                   tCACCGGGCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGAACt                                                                                                                  <  1:365824/139‑1 (MQ=255)
                   tCACCGGGCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGAACt                                                                                                                  <  1:58264/139‑1 (MQ=255)
                         ggCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGaa                                                                                                                    >  1:1159079/1‑131 (MQ=255)
                         ggCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGaa                                                                                                                    <  2:1159079/131‑1 (MQ=255)
                          gCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGAACTTCTATGa                                                                                                           <  2:258678/139‑1 (MQ=255)
                              cccGAAAGGAATACGCAGACGTATTCCTTTTTTGTAGTAAGTGAGACCTTGCCGGAAGGCGAGATCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGAACTTCTATGAATAc                                                                                                       <  1:998596/139‑1 (MQ=255)
                                      gAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGAACTTCTATGAATACTGTCGGCa                                                                                               <  1:981672/139‑1 (MQ=255)
                                                 cGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCGtttt                                                                                                                                   >  2:1042711/1‑93 (MQ=255)
                                                 cGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCGtttt                                                                                                                                   <  1:1042711/93‑1 (MQ=255)
                                                                    aaGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGAACTTCTATGAATACTGTCGGCACGCCGTTGCTATGGGGCGGATTCGCtgttg                                                                 <  2:165498/139‑1 (MQ=255)
                                                                          gaCCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGTCGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGAACTTCTATGAATACTGTCGGCACGCCGTTGCTATGGGGCGGAtt                                                                         >  2:1172577/1‑125 (MQ=255)
                                                                          gaCCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAgg                                                                                                                      <  2:1453314/80‑1 (MQ=255)
                                                                          gaCCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAgg                                                                                                                      >  1:1453314/1‑80 (MQ=255)
                                                                          gaCCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGAACTTCTATGAATACTGTCGGCACGCCGTTGCTATGGGGCGGAtt                                                                         <  1:1172577/125‑1 (MQ=255)
                                                                          gaCCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGAACTTCTATGAATACTGTCGGCACGCCGTTGCTATGGGGCGGATTCGCTGTTGTTGTCg                                                           <  1:421567/139‑1 (MQ=255)
                                                                             cTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCGtttttt                                                                                                                                 <  1:1121303/67‑1 (MQ=255)
                                                                             cTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCGtttttt                                                                                                                                 >  2:1121303/1‑67 (MQ=255)
                                                                             cTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGAACTTCTATGAATACTGTCGGCACGCCGTTGCTATGGGGCGGATTCGCTGTTGTTGTCGCCa                                                        >  2:562944/1‑139 (MQ=255)
                                                                               tGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGaa                                                                                                                    >  2:251187/1‑77 (MQ=255)
                                                                               tGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGaa                                                                                                                    <  1:251187/77‑1 (MQ=255)
                                                                               tGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGAACTTCTATGAATACTGTCGGCACGCCGTTGCTATGGGGCGGATTCGCTGTTGTTGTCGCCAtt                                                      >  2:533545/1‑139 (MQ=255)
                                                                                   ggAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGAACTTCTATGAATACTGTCGGCACGCCGTTGCTATGGGGCGGATTCGCTGTTGTTGTCGCCATTATGc                                                  <  2:1289808/139‑1 (MQ=255)
                                                                                     aaGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGAACt                                                                                                                  >  2:1394358/1‑73 (MQ=255)
                                                                                     aaGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGAACt                                                                                                                  <  1:1394358/73‑1 (MQ=255)
                                                                                                       aaaaaGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGaa                                                                                                                    <  2:1359730/53‑1 (MQ=255)
                                                                                                       aaaaaGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGaa                                                                                                                    >  1:1359730/1‑53 (MQ=255)
                                                                                                       aaaaaGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGAACTTCTATGAATACTGTCGGCACGCCGTTGCTATGGGGCGGATTCGCTGTTGTTGTCGCCATTATGCTGGCTATCGACCTGttgttg                              >  1:1546581/1‑139 (MQ=255)
                                                                                                        aaaaGCAGCGGCTGACGTCTTCCGACGTTGGCCGttttttat                                                                                                                               >  2:781814/1‑40 (MQ=255)
                                                                                                        aaaaGCAGCGGCTGACGTCTTCCGACGTTGGCCGttttttat                                                                                                                               <  1:781814/42‑3 (MQ=255)
                                                                                                        aaaaGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTAtgtg                                                                                                                           >  1:11794/1‑45 (MQ=38)
                                                                                                        aaaaGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTAtgtg                                                                                                                           <  2:11794/45‑1 (MQ=38)
                                                                                                          aaGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGaa                                                                                                                    >  1:1236898/1‑50 (MQ=39)
                                                                                                          aaGCAGCGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGaa                                                                                                                    <  2:1236898/50‑1 (MQ=39)
                                                                                                            gcagcGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGAACTTCTATGAATACTGTCGGCACGCCGTTGCTATGGGGCGGATTCGCTGTTGTTGTCGCCATTATGCTGGCTATCGACCTGTTGTTGCAggg                         >  1:1028164/1‑139 (MQ=255)
                                                                                                                cGGCTGACGTCTTCCGACGTTGGCCG‑TTTTTTATGTGTAAGGAACTTCTATGAATACTGTCGGCACGCCGTTGCTATGGGGCGGATTCGCTGTTGTTGTCGCCATTATGCTGGCTATCGACCTGTTGTTGCAGGGGcgt                     >  2:1251928/1‑139 (MQ=255)
                                                                                                                                aCGTTGGCCG‑TTTTTTATGTGTAAGGAACTTCTATGAATGCTGTCGGCACGCCGTTGCTATGGGGCGGATTCGCTGTTGTTGTCGCCATTATGCTGGCTATCGACCTGTTGTTGCAGGGGCGTCGTGGGGCACATGcca     >  2:622683/1‑139 (MQ=255)
                                                                                                                                 ggTTGGCCG‑TTTTTTATGTGTAAGGAACTTCTATGAATACTGTCGGCACGCCGTTGCTATGGGGCGGATTCGCTGTTGTTGTCGCCATTATGCTGGCTATCGACCTGTTGTTGCAGGGGCGTCGTGGGGCACATGccat    <  2:1343732/138‑1 (MQ=255)
                                                                                                                                 cGTTGGCCG‑TTTTTTATGTGTAAGGAACTTCTATGAATGCTGTCGGCACGCCGTTGCTATGGGGCGGATTCGCTGTTGTTGTCGCCATTATGCTGGCTATCGACCTGTTGTTGCAGGGGCGTCGTGGGGCACATGccat    <  1:622683/139‑1 (MQ=255)
                                                                                                                                   ttGGCCG‑TTTTTTATGTGTAAGGAACTTCTATGAATACTGTCGGCACGCCGTTGCTATGGGGCGGATTCGCTGTTGTTGTCGCCATTATGCTGGCTATCGACCTGTTGTTGCAGGGGCGTCGTGGGGCACATGccatga  <  1:521840/139‑1 (MQ=255)
                                                                                                                                          |                                                                                                                                    
TGTGAAAAAACACATCCGGTCACCGGGCAACCCGAAAGGAATACGCAGACGTATTCCTTTTTTGTTGTAAGTGAGACCTTGCCGGAAGGCGAGGTCTATGCATAAAAAGCAGCGGCTGACGTCTTCCGACGTTGGCCGTTTTTTTATGTGTAAGGAACTTCTATGAATACTGTCGGCACGCCGTTGCTATGGGGCGGATTCGCTGTTGTTGTCGCCATTATGCTGGCTATCGACCTGTTGTTGCAGGGGCGTCGTGGGGCACATGCCATGA  >  NC_000913/3238418‑3238688

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ 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