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 69 53.0 2252012 96.1% 2164183 115.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,435,114 A→G W175R (TGG→CGG)  truA ← tRNA pseudouridine(38‑40) synthase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,435,1140AG100.0% 210.6 / NA 57W175R (TGG→CGG) truAtRNA pseudouridine(38‑40) synthase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (42/15);  total (42/15)

CCGACAATATTCCTGACCATATGATGTACAAAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCACGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACTCAGTACCG  >  NC_000913/2435011‑2435248
                                                                                                       |                                                                                                                                      
ccGACAATATTCCTGACCATATGATGTACAAAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACg                                                                                                     >  2:782303/1‑139 (MQ=255)
              gACCATATGATGTAC‑AAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATtct                                                                                      <  1:449254/139‑1 (MQ=255)
                 cATATGATGTACAAAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCa                                                                                                                 >  1:109306/1‑110 (MQ=255)
                 cATATGATGTACAAAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCa                                                                                                                 <  2:109306/110‑1 (MQ=255)
                   tatGATGTACAAAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGcc                                                                                  >  1:828645/1‑139 (MQ=255)
                         gTACAAAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCagcaa                                                                            >  2:149455/1‑139 (MQ=255)
                           aCAAAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCcgcg                                                                                                                                      >  2:151830/1‑79 (MQ=255)
                           aCAAAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCagcaagc                                                                          >  1:962557/1‑139 (MQ=255)
                             aaaaGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCAt                                                                        >  2:827669/1‑139 (MQ=255)
                              aaaGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATTACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCTCCGCACGGAACGAGGTGAAATCATTCTCGCCCcgcaagcaat                                                                       >  2:868448/1‑137 (MQ=255)
                               aaGCATTCGCTTTAATACCTACCACCACATAAGGACCGTGACGCGGGACATTAATATGCATAACTTTGCCCCGCGGGGTTCGGGACTGGCCCTGCACCGCCCGGAACGAGGTGAAATCATTCTCGCCAAGCAAGCATTg                                                                      >  2:564333/1‑139 (MQ=255)
                                  cATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCAc                                                                                                                <  1:433417/94‑1 (MQ=255)
                                  cATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCAc                                                                                                                >  2:433417/1‑94 (MQ=255)
                                      cGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTgcg                                                                    >  1:426610/1‑134 (MQ=255)
                                      cGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTgcg                                                                    <  2:426610/134‑1 (MQ=255)
                                                   accaccACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGtt                                                  >  1:517650/1‑139 (MQ=255)
                                                       ccacATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGc                                              >  1:1031022/1‑139 (MQ=255)
                                                        cacaTAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCg                                             >  2:283320/1‑139 (MQ=255)
                                                          caTAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTc                                           >  2:626066/1‑139 (MQ=255)
                                                          caTAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTc                                           >  1:300001/1‑139 (MQ=255)
                                                          caTAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTc                                           >  1:941339/1‑139 (MQ=255)
                                                          caTAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTc                                           >  1:645863/1‑139 (MQ=255)
                                                              aGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGc                                       >  2:39442/1‑139 (MQ=255)
                                                                  ccGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGtt                                   >  2:673870/1‑139 (MQ=255)
                                                                   cGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTc                                  <  1:296570/139‑1 (MQ=255)
                                                                   cGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTc                                  >  2:296570/1‑139 (MQ=255)
                                                                    gTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATg                                                          >  2:494764/1‑114 (MQ=255)
                                                                    gTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATg                                                          <  1:494764/114‑1 (MQ=255)
                                                                     tGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTc                                  <  2:593686/137‑1 (MQ=255)
                                                                     tGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTc                                  >  1:593686/1‑137 (MQ=255)
                                                                     tGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGt                                >  1:319871/1‑139 (MQ=255)
                                                                     tGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGt                                >  2:322473/1‑139 (MQ=255)
                                                                     tGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGt                                >  2:832297/1‑139 (MQ=255)
                                                                     tGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGt                                >  1:847256/1‑139 (MQ=255)
                                                                     tGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGt                                >  1:863237/1‑139 (MQ=255)
                                                                               cATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGt                      <  1:564333/139‑1 (MQ=255)
                                                                                       tGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCtt              >  1:200056/1‑139 (MQ=255)
                                                                                         cATAACGTTGCGCCGCGGTGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTa            >  2:622314/1‑139 (MQ=255)
                                                                                         cATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCAt                                                       <  2:50555/96‑1 (MQ=255)
                                                                                         cATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCAt                                                       >  1:50555/1‑96 (MQ=255)
                                                                                         cATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGt                      <  2:668413/129‑1 (MQ=255)
                                                                                         cATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGt                      >  1:668413/1‑129 (MQ=255)
                                                                                         cATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGATACCCCTTTa            >  1:361773/1‑139 (MQ=255)
                                                                                          aTAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAAt                                                                                            >  1:313772/1‑58 (MQ=255)
                                                                                          aTAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAAt                                                                                            <  2:313772/58‑1 (MQ=255)
                                                                                          aTAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTAc           >  1:542397/1‑139 (MQ=255)
                                                                                              cGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAg                                        <  2:150979/106‑1 (MQ=255)
                                                                                              cGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAg                                        >  1:150979/1‑106 (MQ=255)
                                                                                              cGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTagaaa                           <  1:764285/119‑1 (MQ=255)
                                                                                              cGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTaaaaa                           >  2:764285/1‑119 (MQ=255)
                                                                                              cGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACTCAg       >  1:471283/1‑139 (MQ=255)
                                                                                              cGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACTCAg       >  2:429413/1‑139 (MQ=255)
                                                                                              cGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACTCAg       >  1:495492/1‑139 (MQ=255)
                                                                                                 tGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAAc                                                                                                      <  1:214345/41‑1 (MQ=255)
                                                                                                 tGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAAc                                                                                                      >  2:214345/1‑41 (MQ=255)
                                                                                                 tGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACt          <  2:149446/133‑1 (MQ=255)
                                                                                                 tGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACt          >  1:149446/1‑133 (MQ=255)
                                                                                                 tGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACTCAGTAc    >  1:870271/1‑139 (MQ=255)
                                                                                                   cgccgcGGGGTTCGGGACTGGCACTGCACCGCACGGAAc                                                                                                      <  2:387845/39‑1 (MQ=255)
                                                                                                   cgccgcGGGGTTCGGGACTGGCACTGCACCGCACGGAAc                                                                                                      >  1:387845/1‑39 (MQ=255)
                                                                                                   cgccgcGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCg                                      >  1:791858/1‑103 (MQ=255)
                                                                                                   cgccgcGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCg                                      <  2:791858/103‑1 (MQ=255)
                                                                                                   cgccgcGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGt                      >  2:642721/1‑119 (MQ=255)
                                                                                                   cgccgcGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGt                      <  1:642721/119‑1 (MQ=255)
                                                                                                   cgccgcGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACTCAGTAccg  >  1:955860/1‑139 (MQ=255)
                                                                                                   cgccgcGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACTCAGTAccg  >  1:797065/1‑139 (MQ=255)
                                                                                                       |                                                                                                                                      
CCGACAATATTCCTGACCATATGATGTACAAAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCACGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACTCAGTACCG  >  NC_000913/2435011‑2435248

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