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
A12 F1 I2 R1 766 55.6 2631458 94.7% 2491990 109.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,567,285 T→C intergenic (‑145/+219) dosC ← / ← yddW diguanylate cyclase, cold‑ and stationary phase‑induced oxygen‑dependent biofilm regulator/liprotein, glycosyl hydrolase homolog

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,567,2850TC100.0% 239.0 / NA 66intergenic (‑145/+219)dosC/yddWdiguanylate cyclase, cold‑ and stationary phase‑induced oxygen‑dependent biofilm regulator/liprotein, glycosyl hydrolase homolog
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (32/34);  total (32/34)

TATAAGGCTGGGAAATCAGACGGAATCAAAATGAAACGCAACGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCTACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTTTCATATTCATACATTTTTATTAGGGATTTATGGCTGTTTAACTAAGTGTGGTTAATTTGACTTAAGTA  >  NC_000913/1567153‑1567420
                                                                                                                                    |                                                                                                                                       
tataAGGCTGGGAAATCAGACGGAATCAAAATGAAACGCAACGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGtt                                                                                                                                   >  1:674708/1‑139 (MQ=255)
tataAGGCTGGGAAATCAGACGGAATCAAAATGAAACGCAACGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGtt                                                                                                                                   >  1:43889/1‑139 (MQ=255)
   aaGGCTGGGAAATCAGACGGAATCAAAATGAAACGCAACGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGttctt                                                                                                                                <  1:1190103/139‑1 (MQ=255)
       cTGGGAAATCAGACGGAATCAAAATGAAACGCAACGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTg                                                                                                                                     <  1:1266038/130‑1 (MQ=255)
       cTGGGAAATCAGACGGAATCAAAATGAAACGCAACGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTg                                                                                                                                     >  2:1266038/1‑130 (MQ=255)
       cTGGGAAATCAGACGGAATCAAAATGAAACGCAACGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCaga                                                                                                                            >  2:80988/1‑139 (MQ=255)
         gggAAATCAGACGGAATCAAAATGAAACGCAACGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGttctt                                                                                                                                >  1:733467/1‑133 (MQ=255)
         gggAAATCAGACGGAATCAAAATGAAACGCAACGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGttctt                                                                                                                                <  2:733467/133‑1 (MQ=255)
         gggAAATCAGACGGAATCAAAATGAAACGCAACGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCagaag                                                                                                                          >  1:949584/1‑139 (MQ=255)
         gggAAATCAGACGGAATCAAAATGAAACGCAACGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCagaag                                                                                                                          >  2:168120/1‑139 (MQ=255)
         gggAAATCAGACGGAATCAAAATGAAACGCAACGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCa                                                                                                                              <  1:1047036/135‑1 (MQ=255)
         gggAAATCAGACGGAATCAAAATGAAACGCAACGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCa                                                                                                                              >  2:1047036/1‑135 (MQ=255)
          ggAAATCAGACGGAATCAAAATGAAACGCAACGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCagaaga                                                                                                                         >  1:837127/1‑139 (MQ=255)
           gAAATCAGACGGAATCAAAATGAAACGCAACGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAagag                                                                                                                        >  1:1229411/1‑139 (MQ=255)
                cAGACGGAATCAAAATGAAACGCAACGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCagaa                                                                                                                           <  2:664655/131‑1 (MQ=255)
                cAGACGGAATCAAAATGAAACGCAACGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCagaa                                                                                                                           >  1:664655/1‑131 (MQ=255)
                                       aaCGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTg                                                                                                                                     >  1:482978/1‑98 (MQ=255)
                                       aaCGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTg                                                                                                                                     <  2:482978/98‑1 (MQ=255)
                                         cGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGAc                                                                                          <  2:958983/139‑1 (MQ=255)
                                              gagaTCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGTCCATCGTAATTATTTTTCGGTGACAGCGa                                                                                     <  2:674708/139‑1 (MQ=255)
                                                      cTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTa                                                                             <  1:498431/139‑1 (MQ=255)
                                                      cTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTa                                                                             <  2:949584/139‑1 (MQ=255)
                                                      cTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTa                                                                             <  2:1229411/139‑1 (MQ=255)
                                                          cTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGt                                                                         <  1:80988/139‑1 (MQ=255)
                                                             cACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGtttt                                                                      >  2:679708/1‑139 (MQ=255)
                                                              aCCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGttttt                                                                     >  2:1004395/1‑139 (MQ=255)
                                                               ccATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTg                                                                                                                                     >  1:440082/1‑74 (MQ=255)
                                                               ccATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTg                                                                                                                                     <  2:440082/74‑1 (MQ=255)
                                                               ccATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTttc                                                                    <  2:43889/139‑1 (MQ=255)
                                                                   atTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTa                                                                             >  1:917901/1‑126 (MQ=255)
                                                                   atTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTa                                                                             <  2:917901/126‑1 (MQ=255)
                                                                      ctcCTGAAATATGAAGATATATTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTGTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTttcatcttca                                                             <  2:765053/139‑1 (MQ=255)
                                                                       tcCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTg                                                                                                                                     >  2:587664/1‑66 (MQ=255)
                                                                       tcCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTg                                                                                                                                     <  1:587664/66‑1 (MQ=255)
                                                                       tcCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTg                                                                                            >  2:784343/1‑107 (MQ=255)
                                                                       tcCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTg                                                                                            <  1:784343/107‑1 (MQ=255)
                                                                            aaaTATGAAGATATACTGAAACGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTAGGGTTTTTCATATTCATAAAtt                                                       >  2:1124899/1‑139 (MQ=255)
                                                                                      atatACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGt                                                                         <  1:760862/111‑1 (MQ=255)
                                                                                      atatACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGt                                                                         >  2:760862/1‑111 (MQ=255)
                                                                                      atatACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTTTCATATTCATACATTTTTATTAggg                                             >  2:522187/1‑139 (MQ=255)
                                                                                          aCTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTTTCATATTCATACATTTTTATTAg                                               <  2:1253492/133‑1 (MQ=255)
                                                                                          aCTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTTTCATATTCATACATTTTTATTAg                                               >  1:1253492/1‑133 (MQ=255)
                                                                                          aCTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTTTCATATTCATACATTTTTATTAGGGAttt                                         >  2:155653/1‑139 (MQ=255)
                                                                                              aaaaGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTTTCATATTCATACATTTTTATTAGGGATTTATgg                                     <  2:813261/139‑1 (MQ=255)
                                                                                              aaaaGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTTTCATATTCATACATTTTTATTAGGGATTTATgg                                     <  2:594046/139‑1 (MQ=255)
                                                                                              aaaaGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTTTCATATTCATACATTTTTATTAGGGATTTATgg                                     <  1:432995/139‑1 (MQ=255)
                                                                                                aaGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTg                                                                                            <  2:603281/82‑1 (MQ=255)
                                                                                                aaGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTg                                                                                            >  1:603281/1‑82 (MQ=255)
                                                                                                aaGAAATAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTTTCATATTCATACATTTTTATTAGGGATTTATGGCt                                   <  1:155653/139‑1 (MQ=255)
                                                                                                   aaaTAAGCGATTTAGGACAGTTTGAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTa                                                                             >  2:1085503/1‑94 (MQ=255)
                                                                                                   aaaTAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTa                                                                             <  1:1085503/94‑1 (MQ=255)
                                                                                                   aaaTAAGCGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTTTCATATTCATACATTTTTATTAGGGATTTATGGCTGtt                                >  1:1297415/1‑139 (MQ=255)
                                                                                                          cGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTttcatattcata                                                           >  2:99336/1‑105 (MQ=255)
                                                                                                          cGATTTAGGACAGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTttcatattcata                                                           <  1:99336/105‑1 (MQ=255)
                                                                                                                     aGTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTTTCATATTCATACATTTTTATTAGGGATTTATGGCTGTTTAACTAAGTGTGGTTAAt              <  1:522187/139‑1 (MQ=255)
                                                                                                                      gTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGaa                                                                                    >  2:1274268/1‑68 (MQ=255)
                                                                                                                      gTTTCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGaa                                                                                    <  1:1274268/68‑1 (MQ=255)
                                                                                                                       tttCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTTTCATATTCATACATTTTTATTAGGGATTTATGGCTGTTTAACt                           >  1:990656/1‑124 (MQ=255)
                                                                                                                       tttCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTTTCATATTCATACATTTTTATTAGGGATTTATGGCTGTTTAACt                           <  2:990656/124‑1 (MQ=255)
                                                                                                                       tttCAATCTACGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTTTCATATTCATACATTTTTATTAGGGATTTATGGCTGTTTAACTAAGTGTGGTTAAttt            >  2:221153/1‑139 (MQ=255)
                                                                                                                                aCGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTTTCATATTCATACATTTTTATTAGGGATTTATGGCTGTTTAACTAAGTGTGGTTAATTTGACTtaagt   <  2:1297415/139‑1 (MQ=255)
                                                                                                                                aCGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTTTCATATTCATACATTTTTATTAGGGATTTATGGCTGTTTAACTAAGTGTGGTTAATTTGACTtaagt   <  1:151685/139‑1 (MQ=255)
                                                                                                                                 cGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTttcatattca                                                             <  1:1158548/80‑1 (MQ=255)
                                                                                                                                 cGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTttca                                                                   <  2:149114/74‑1 (MQ=255)
                                                                                                                                 cGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTTTCATATTCATACATTTttat                                                  >  2:299661/1‑91 (MQ=255)
                                                                                                                                 cGCCACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTTTCATATTCATACATTTTTATTAGGGATTTATGGCTGTTTAACTAAGTGTGGTTAATTTGACTtaagta  >  2:1117890/1‑139 (MQ=255)
                                                                                                                                    |                                                                                                                                       
TATAAGGCTGGGAAATCAGACGGAATCAAAATGAAACGCAACGTGCGAGATCGACTAACTGCACCATATTCTCCTGAAATATGAAGATATACTGAAAAGAAATAAGCGATTTAGGACAGTTTCAATCTACGCTACTGTTCTTCAGAAGAGTATAGCCCATCGTAATTATTTTTCGGTGACAGCGAATATCGTATGGTTTTTCATATTCATACATTTTTATTAGGGATTTATGGCTGTTTAACTAAGTGTGGTTAATTTGACTTAAGTA  >  NC_000913/1567153‑1567420

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A