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
A2 F28 I1 R1 129 74.0 2524844 99.2% 2504645 138.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,165,573 (C)6→7 intergenic (+52/‑95) yegP → / → yegQ DUF1508 domain‑containing protein YegP/putative peptidase YegQ

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,165,5671.C98.0% 167.4 / ‑3.3 50intergenic (+46/‑101)yegP/yegQDUF1508 domain‑containing protein YegP/putative peptidase YegQ
Reads supporting (aligned to +/- strand):  ref base . (1/0);  new base C (25/24);  total (26/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.71e-01

TGTACGCCACCGCGCAATCTCGTGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAG‑CCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGTTTAAACCGGAACTCCTT  >  NC_000913/2165436‑2165688
                                                                                                                                    |                                                                                                                          
tGTACGCCACCGCGCAATCTCGTGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAG‑ccccccca                                                                                                                    <  1:75353/140‑3 (MQ=255)
    cGCCACCGCGCAATCTCGTGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAgc                                                                                                                >  1:203694/1‑140 (MQ=255)
         ccGCGCAATCTCGTGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTAc                                                                                                           >  2:534/1‑140 (MQ=255)
          cgcgCAATCTCGTGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACa                                                                                                          >  2:65070/1‑140 (MQ=255)
            cgcAATCTCGTGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAAt                                                                                                        >  1:88709/1‑140 (MQ=255)
                   tcGTGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATgcccgcc                                                                                                 <  1:646058/140‑1 (MQ=255)
                      tGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAG‑CCCCCCTACAGCGCTACAATGCCCGCCCtt                                                                                              >  2:62349/1‑140 (MQ=255)
                                 ttGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGc                                                                                   <  2:203694/140‑1 (MQ=255)
                                  tGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCa                                                                                  <  1:1232392/140‑1 (MQ=255)
                                  tGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCa                                                                                  <  1:286969/140‑1 (MQ=255)
                                    ccTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACt                                                                                <  1:69840/140‑1 (MQ=255)
                                        cGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTcccc                                                                            >  1:855381/1‑140 (MQ=255)
                                              aGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCg                                                                      >  1:726145/1‑140 (MQ=255)
                                               gCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGc                                                                     >  1:959531/1‑140 (MQ=255)
                                               gCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGCCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGc                                                                     <  2:304726/140‑1 (MQ=255)
                                                ccAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCt                                                                    <  2:562926/140‑1 (MQ=255)
                                                ccAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCt                                                                    <  2:726145/140‑1 (MQ=255)
                                                  aaTGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCa                                                                                  <  2:924450/124‑1 (MQ=255)
                                                  aaTGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCa                                                                                  >  1:924450/1‑124 (MQ=255)
                                                   aTGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTtca                                                                 >  1:571336/1‑140 (MQ=255)
                                                    tGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTtcat                                                                >  1:626993/1‑140 (MQ=255)
                                                           aGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGa                                                         >  1:553185/1‑140 (MQ=255)
                                                             ccAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAg                                                       <  2:959531/140‑1 (MQ=255)
                                                             ccAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAg                                                       <  2:571336/140‑1 (MQ=255)
                                                             ccAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAg                                                       <  2:1162955/140‑1 (MQ=255)
                                                                    gTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCt                                                <  1:908313/140‑1 (MQ=255)
                                                                      gAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTTCCCTAACCGCTTCATCAGGTGAAGCGGATCTGa                                              <  1:62349/140‑1 (MQ=255)
                                                                       aaaGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGAc                                             >  1:1260598/1‑140 (MQ=255)
                                                                         aGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCt                                           <  2:626993/140‑1 (MQ=255)
                                                                               tACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGtcatc                                     >  2:472487/1‑140 (MQ=255)
                                                                               tACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCAGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGAc                                             <  2:1001402/132‑1 (MQ=255)
                                                                               tACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCAGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGAc                                             >  1:1001402/1‑132 (MQ=255)
                                                                                 cGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAg                                   <  1:534/140‑1 (MQ=255)
                                                                                   tAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGaa                                 <  2:88709/140‑1 (MQ=255)
                                                                                   tAATTACGAAGCCGGGCGTGGGTTGTTGGCTTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAGCCGCTTCATCAGGTGAAGCGGATCTGACCTGTCCTCAGaa                                 <  2:771412/140‑1 (MQ=255)
                                                                                    aaTTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAAc                                >  2:1190315/1‑140 (MQ=255)
                                                                                      ttACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACga                              <  2:855381/140‑1 (MQ=255)
                                                                                         cGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACgagag                           >  2:957687/1‑140 (MQ=255)
                                                                                         cGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACgagag                           >  2:654214/1‑140 (MQ=255)
                                                                                           aTGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGaa                         >  2:1225109/1‑140 (MQ=255)
                                                                                              ccGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAAtt                       >  2:84930/1‑139 (MQ=255)
                                                                                              ccGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAAtt                       <  1:84930/139‑1 (MQ=255)
                                                                                                 ggCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGt                   >  1:525240/1‑140 (MQ=255)
                                                                                                  gCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACg                               >  1:973557/1‑127 (MQ=255)
                                                                                                  gCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACg                               <  2:973557/127‑1 (MQ=255)
                                                                                                   cGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGttt                 >  2:551917/1‑140 (MQ=255)
                                                                                                    gTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGTTTa                <  1:65070/140‑1 (MQ=255)
                                                                                                       ggTTGTTGGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGTTTAAAc             <  1:916808/140‑1 (MQ=255)
                                                                                                          tgttgGCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGTTTAAACCgg          <  2:553185/140‑1 (MQ=255)
                                                                                                              ggCGTCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGTTTAAACCGGAACt      <  1:551917/140‑1 (MQ=255)
                                                                                                                  tCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGTTTAAACCGGAACTCCtt  >  2:449178/1‑140 (MQ=255)
                                                                                                                  tCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGTTTAAACCGGAACTCCtt  >  1:737334/1‑140 (MQ=255)
                                                                                                                  tCCGGCGCTTTACCAGAGCCCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGTTTAAACCGGAACTCCtt  >  1:1128613/1‑140 (MQ=255)
                                                                                                                                    |                                                                                                                          
TGTACGCCACCGCGCAATCTCGTGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAG‑CCCCCC‑ACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGTTTAAACCGGAACTCCTT  >  NC_000913/2165436‑2165688

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