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
A6 F28 I1 R1 116 49.4 1663006 99.2% 1649701 139.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,155,039 T→C A60A (GCA→GCG)  yqhC ← DNA‑binding transcriptional activator YqhC

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,155,0390TC100.0% 191.4 / NA 53A60A (GCA→GCG) yqhCDNA‑binding transcriptional activator YqhC
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (26/27);  total (26/27)

TCGCACTCAAACGGCAACGGCACCGTCAGCAGCAGGTATTCATTGGCATCATAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGTGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCAAATCTCTTCACGTTTCATATCGCGTAATTTC  >  NC_000913/3154902‑3155174
                                                                                                                                         |                                                                                                                                       
tCGCACTCAAACGGCAACGGCACCGTCAGCAGCAGGTATTCATTGGCATCATAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACgcgc                                                                                                                                       >  1:537684/1‑140 (MQ=255)
 cGCACTCAAACGGCAACGGCACCGTCAGCAGCAGGTATTCATTGGCATCATAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTAcgcgcg                                                                                                                                      <  1:559940/140‑1 (MQ=255)
 cGCACTCAAACGGCAACGGCACCGTCAGCAGCAGGTATTCATTGGCATCATAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTAcgcgcg                                                                                                                                      <  1:559900/140‑1 (MQ=255)
 cGCACTCAAACGGCAACGGCACCGTCAGCAGCAGGTATTCATTGGCATCATAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTAcgcgcg                                                                                                                                      >  1:550289/1‑140 (MQ=255)
        aaaCGGCAACGGCACCGTCAGCAGCAGGTATTCATTGGCATCATAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCg                                                                                                                               >  1:338352/1‑140 (MQ=255)
             gcaacggcaCCGTCAGCAGCAGGTATTCATTGGCATCATAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCg                                                                                                                          <  2:295123/140‑1 (MQ=255)
             gcaacggcaCCGTCAGCAGCAGGTATTCATTGGCATCATAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCg                                                                                                                          <  2:338352/140‑1 (MQ=255)
                    caCCGTCAGCAGCAGGTATTCATTGGCATCATAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATaca                                                                                                                   >  1:716421/1‑140 (MQ=255)
                      ccGTCAGCAGCAGGTATTCATTGGCATCATAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATacaac                                                                                                                 <  2:172650/140‑1 (MQ=255)
                                  ggTATTCATTGGCATCATAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCg                                                                                                     <  2:155596/140‑1 (MQ=255)
                                   gTATTCATTGGCATCATAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATac                                                                                                                    >  1:190920/1‑124 (MQ=255)
                                   gTATTCATTGGCATCATAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATac                                                                                                                    <  2:190920/124‑1 (MQ=255)
                                       tCATTGGCATCATAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCaa                                                                                                <  1:820587/140‑1 (MQ=255)
                                       tCATTGGCATCATAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCaa                                                                                                <  2:550289/140‑1 (MQ=255)
                                          ttGGCATCATAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAg                                                                                             >  1:791995/1‑140 (MQ=255)
                                           tGGCATCATAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGt                                                                                            >  2:458289/1‑140 (MQ=255)
                                             gCATCATAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTcc                                                                                          >  1:703304/1‑140 (MQ=255)
                                              catcatAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCt                                                                                         >  2:767849/1‑140 (MQ=255)
                                              catcatAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCt                                                                                         >  2:457757/1‑140 (MQ=255)
                                                tcatAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCaa                                                                                                <  2:56448/131‑1 (MQ=255)
                                                tcatAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCaa                                                                                                >  1:56448/1‑131 (MQ=255)
                                                tcatAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCaa                                                                                                <  2:743318/131‑1 (MQ=255)
                                                tcatAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCaa                                                                                                >  1:743318/1‑131 (MQ=255)
                                                 catAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGAc                                                                                      <  1:369964/140‑1 (MQ=255)
                                                      cGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACt                                                                                 <  2:537684/140‑1 (MQ=255)
                                                         aaCACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTAtt                                                                              <  1:767849/140‑1 (MQ=255)
                                                              gcgTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCtt                                                                         >  2:637246/1‑140 (MQ=255)
                                                              gcgTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCtt                                                                         <  1:227578/140‑1 (MQ=255)
                                                              gcgTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCtt                                                                         <  1:699974/140‑1 (MQ=255)
                                                                 ttCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTAt                                                                      >  2:487229/1‑140 (MQ=255)
                                                                      tGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTc                                                                 <  1:457757/140‑1 (MQ=255)
                                                                       gATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCa                                                                <  1:192923/140‑1 (MQ=255)
                                                                            aaCCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTtta                                                           >  1:828689/1‑140 (MQ=255)
                                                                            aaCCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTtta                                                           >  2:422217/1‑140 (MQ=255)
                                                                                  ttttATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACt                                                     >  2:302352/1‑140 (MQ=255)
                                                                                  ttttATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACt                                                     >  1:600494/1‑140 (MQ=255)
                                                                                   tttATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACtt                                                    >  1:758367/1‑140 (MQ=255)
                                                                                   tttATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACtt                                                    >  2:295437/1‑140 (MQ=255)
                                                                                                 agagAATTATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAg                                      <  2:745689/140‑1 (MQ=255)
                                                                                                       ttATGATGCCAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCaa                                >  2:186969/1‑140 (MQ=255)
                                                                                                               ccAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCAAATCTCTTc                        <  2:230424/140‑1 (MQ=255)
                                                                                                               ccAGGCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCAAATCTCTTc                        <  1:410935/140‑1 (MQ=255)
                                                                                                                  ggCTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCAAATCTCTTCACg                     >  1:207864/1‑140 (MQ=255)
                                                                                                                    cTCGTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCAAATCTCTTCACGtt                   <  1:422217/140‑1 (MQ=255)
                                                                                                                       gTACATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCAAATCTCTTCACGTTTCa                <  2:791995/140‑1 (MQ=255)
                                                                                                                          cATCACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCAAATCTCTTCACGTTTCatat             <  1:637246/140‑1 (MQ=255)
                                                                                                                             cACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCAAATCTCTTc                        >  1:91011/1‑126 (MQ=255)
                                                                                                                             cACCGGTGTACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCAAATCTCTTc                        <  2:91011/126‑1 (MQ=255)
                                                                                                                               ccGGTGCACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCAAATCTCTTCACGTTTCATATCGCGt        >  2:750558/1‑140 (MQ=255)
                                                                                                                                  gtgtACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCAAATCTCTTCACGTTTCATATCGCGTAAt     <  1:714228/140‑1 (MQ=255)
                                                                                                                                  gtgtACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCAAATCTCTTCACGTTTCATATCGCGTAAt     >  1:723264/1‑140 (MQ=255)
                                                                                                                                  gtgtACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCAAATCTCTTCACGTTTCATATCGCGTAAt     <  1:201643/140‑1 (MQ=255)
                                                                                                                                  gtgtACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCAAATCTCTTCACGTTTCATATCGCGTAAt     <  2:207864/140‑1 (MQ=255)
                                                                                                                                   tgtACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCAAATCTCTTCACGTTTCATATCGCGTAAtt    >  2:318922/1‑140 (MQ=255)
                                                                                                                                     tACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCAAATCTCTTCACGTTTCa                <  1:554579/126‑1 (MQ=255)
                                                                                                                                     tACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCAAATCTCTTCACGTTTCa                >  2:554579/1‑126 (MQ=255)
                                                                                                                                     tACGCGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCAAATCTCTTCACGTTTCATATCGCGTAATTTc  >  1:462237/1‑140 (MQ=255)
                                                                                                                                         |                                                                                                                                       
TCGCACTCAAACGGCAACGGCACCGTCAGCAGCAGGTATTCATTGGCATCATAACGAAACACGCGTTCATTGATATAACCGATTTTATGCCCGGAAAAGAGAATTATGATGCCAGGCTCGTACATCACCGGTGTACGTGCGAAAGGCGTCTCGCCATACAACAAACGCACATCGGGCAACAGTCCTGACAAACTATTTTCTTTATTTTTCAGTTTATTAACTTTATCCGCCAGCAAGCGGCAAATCTCTTCACGTTTCATATCGCGTAATTTC  >  NC_000913/3154902‑3155174

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ 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