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
A8 F28 I1 R1 182 57.1 1926220 99.1% 1908884 138.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,476,107 A→G S112P (TCC→CCC)  yheO ← putative DNA‑binding transcriptional regulator YheO

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,476,1070AG98.2% 191.1 / NA 56S112P (TCC→CCC) yheOputative DNA‑binding transcriptional regulator YheO
Reads supporting (aligned to +/- strand):  ref base A (0/1);  new base G (30/25);  total (30/26)
Fisher's exact test for biased strand distribution p-value = 4.64e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TGAACCGACATCCGGGGTTTCTGGCGGCACAAAGGTGCTCATAATCTGCGAGAAGGGAACATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGACTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAGGTCAGTAATTGGCGAACCAATCTTCCGGCCTGTATGTTCACC  >  NC_000913/3475976‑3476242
                                                                                                                                   |                                                                                                                                       
tGAACCGACATCCGGGGTTTCTGGCGGCACAAAGGTGCTCATAATCTGCGAGAAGGGAACATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCtt                                                                                                                                      >  2:772164/1‑135 (MQ=255)
tGAACCGACATCCGGGGTTTCTGGCGGCACAAAGGTGCTCATAATCTGCGAGAAGGGAACATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCtt                                                                                                                                      <  1:772164/135‑1 (MQ=255)
         aTCCGGGGTTTCTGGCGGCACAAAGGTGCTCATAATCTGCGAGAAGGGAACATCAAGATTCATATTGATGCACAGCATACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATAcgccgc                                                                                                                        >  1:261134/1‑140 (MQ=255)
                gTTTCTGGCGGCACAAAGGTGCTCATAATCTGCGAGAAGGGAACATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGgc                                                                                                                 <  2:10011/140‑1 (MQ=255)
                gTTTCTGGCGGCACAAAGGTGCTCATAATCTGCGAGAAGGGAACATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGgc                                                                                                                 <  2:817389/140‑1 (MQ=255)
                gTTTCTGGCGGCACAAAGGTGCTCATAATCTGCGAGAAGGGAACATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGACTTCATTAATACGCCGCTTTTGgc                                                                                                                 <  2:389041/140‑1 (MQ=255)
                  ttCTGGCGGCACAAAGGTGCTCATAATCTGCGAGAAGGGAACATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGgcgc                                                                                                               <  2:210895/140‑1 (MQ=255)
                          gcACAAAGGTGCTCATAATCTGCGAGAAGGGAACATCAAGATTCATATTGATGCACAGTAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAg                                                                                                       <  1:315899/140‑1 (MQ=255)
                           cacaAAGGTGCTCATAATCTGCGAGAAGGGAACATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGgc                                                                                                                 >  2:224916/1‑129 (MQ=255)
                           cacaAAGGTGCTCATAATCTGCGAGAAGGGAACATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGgc                                                                                                                 <  1:224916/129‑1 (MQ=255)
                                 ggTGCTCATAATCTGCGAGAAGGGAACAGCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCAtt                                                                                                <  2:483517/140‑1 (MQ=255)
                                         tAATCTGCGAGAAGGGAACATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACg                                                                                        <  2:83873/140‑1 (MQ=255)
                                            tCTGCGAGAAGGGAACATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACgctg                                                                                     <  2:727773/140‑1 (MQ=255)
                                            tCTGCGAGAAGGGAACATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACgctg                                                                                     >  1:92102/1‑140 (MQ=255)
                                                cGAGAAGGGAACATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCa                                                                                                  <  2:929456/123‑1 (MQ=255)
                                                cGAGAAGGGAACATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCa                                                                                                  >  1:929456/1‑123 (MQ=255)
                                                cGAGAAGGGAACATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTAt                                                                                 >  2:829859/1‑140 (MQ=255)
                                                  agaAGGGAACATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATAGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATcc                                                                               >  1:188492/1‑140 (MQ=255)
                                                    aaGGGAACATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGc                                                                             <  1:303616/140‑1 (MQ=255)
                                                    aaGGGAACATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGCCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGc                                                                             >  2:175040/1‑140 (MQ=255)
                                                           cATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTc                                                                      <  1:575161/140‑1 (MQ=255)
                                                                 gATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCg                                                                >  1:429353/1‑140 (MQ=255)
                                                                 gATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCg                                                                >  1:364195/1‑140 (MQ=255)
                                                                  aTTCATATTGATGCACAGCATACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGt                                                               <  2:261134/140‑1 (MQ=255)
                                                                  aTTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATAGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGt                                                               <  2:188492/140‑1 (MQ=255)
                                                                   ttCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTg                                                              >  2:181174/1‑140 (MQ=255)
                                                                   ttCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTg                                                              >  2:911633/1‑140 (MQ=255)
                                                                    tCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTgc                                                             <  2:92102/140‑1 (MQ=255)
                                                                     cATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTgca                                                            >  2:555538/1‑140 (MQ=255)
                                                                      atatTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTgcag                                                           >  1:54066/1‑140 (MQ=255)
                                                                       tatTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTgcagc                                                          >  2:57517/1‑140 (MQ=255)
                                                                        atTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTgcagca                                                         <  1:555538/140‑1 (MQ=255)
                                                                        atTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTgcagca                                                         >  2:883428/1‑140 (MQ=255)
                                                                         ttGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCAt                                                        >  1:391088/1‑140 (MQ=255)
                                                                                    cagACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCa                                             >  2:488422/1‑140 (MQ=255)
                                                                                    cagACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTAGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCa                                             >  2:680853/1‑140 (MQ=255)
                                                                                      gACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTgcagca                                                         >  2:113666/1‑126 (MQ=255)
                                                                                      gACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTgcagca                                                         <  1:113666/126‑1 (MQ=255)
                                                                                      gACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAgg                                           >  1:171824/1‑140 (MQ=255)
                                                                                       aCCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAGGt                                          >  1:377327/1‑140 (MQ=255)
                                                                                       aCCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAGGt                                          >  2:530112/1‑140 (MQ=255)
                                                                                       aCCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAGGt                                          <  2:377327/140‑1 (MQ=255)
                                                                                            ttACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAGGTCAGTa                                     >  2:609398/1‑140 (MQ=255)
                                                                                                 cGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAGGTCAGTAATTgg                                >  2:732986/1‑140 (MQ=255)
                                                                                                 cGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTAGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAGGTCAGTAATTgg                                <  1:680853/140‑1 (MQ=255)
                                                                                                   cTGTTCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAGGTCAGTAATTGGCg                              <  1:530112/140‑1 (MQ=255)
                                                                                                      ttCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAGGTCAGTAATTGGCGAAc                           >  1:52877/1‑140 (MQ=255)
                                                                                                      ttCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAGGTCAGTAATTGGCGAAc                           >  1:371228/1‑140 (MQ=255)
                                                                                                      ttCGCGGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAGGTCAGTAATTGGCGAAc                           >  2:199789/1‑140 (MQ=255)
                                                                                                        cgcgGTTACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAGGTCAGTAATTGGCGAACCa                         <  1:732986/140‑1 (MQ=255)
                                                                                                              tACGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAGGTCAGTAATTGGCGAACCAATCTTc                   <  2:171824/140‑1 (MQ=255)
                                                                                                                cGAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAGGTCAGTAATTGGCGAACCAATCTTCCg                 >  1:779079/1‑140 (MQ=255)
                                                                                                                 gAATCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAGGTCAGTAATTGGCGAACCAATCTTCCgg                <  1:175040/140‑1 (MQ=255)
                                                                                                                   aTCGCGATAGTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAGGTCAGTAATTGGCGAACCAATCTTCCGGcc              <  1:829859/140‑1 (MQ=255)
                                                                                                                            gTCAGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAGGTCAGTAATTGGCGAACCAATCTTCCGGCCTGTATGTTc     <  1:57517/140‑1 (MQ=255)
                                                                                                                               aGGGGCTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAGGTCAGTAATTGGCGAACCAATCTTCCGGCCTGTATGTTCAcc  >  1:2018/1‑140 (MQ=255)
                                                                                                                                   |                                                                                                                                       
TGAACCGACATCCGGGGTTTCTGGCGGCACAAAGGTGCTCATAATCTGCGAGAAGGGAACATCAAGATTCATATTGATGCACAGCAGACCAATTACACGCTGTTCGCGGTTACGAATCGCGATAGTCAGGGACTTCATTAATACGCCGCTTTTGGCGCGAGTAAAGTAGCATTTAGAAACGCTGCTATCCGCTCCCGTCATATCGTGCAGCATACGTAGCGCCAGGTCAGTAATTGGCGAACCAATCTTCCGGCCTGTATGTTCACC  >  NC_000913/3475976‑3476242

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