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
A7 F50 I2 R1 209 44.2 1360995 98.7% 1343302 150.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,578,677 A→G V17A (GTG→GCG)  gntR ← d‑gluconate inducible gluconate regulon transcriptional repressor

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,578,6770AG94.0% 152.0 / 1.0 50V17A (GTG→GCG) gntRd‑gluconate inducible gluconate regulon transcriptional repressor
Reads supporting (aligned to +/- strand):  ref base A (1/2);  new base G (21/26);  total (22/28)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.77e-01

AATCGCCCGGCTGGTGGCGTTAGAGAGGATATCGGGCGCACGATTGGGAATATAGCCCAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCACGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTAC  >  NC_000913/3578529‑3578811
                                                                                                                                                    |                                                                                                                                      
aaTCGCCCGGCTGGTGGCGTTAGAGAGGATATCGGGCGCACGATTGGGAATATAGCCCAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTcgcg                                                                                                                                      >  1:269376/1‑151 (MQ=255)
           tggtggCGTTAGAGAGGATATCGGGCGCACGATTGGGGATATAGCCCAGTTCATCAAGAGCCGCGGCAATCTTGACGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGCAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTc                                                                                                                           >  1:303988/1‑151 (MQ=255)
           tggtggCGTTAGAGAGGATATCGGGCGCACGATTGGGAATATAGCCCAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTc                                                                                                                           >  1:638935/1‑151 (MQ=255)
               ggCGTTAGAGAGGATATCGGGCGCACGATTGGGAATATAGCCCAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGc                                                                                                                        <  2:424841/150‑1 (MQ=255)
                gCGTTAGAGAGGATATCGGGCGCACGATTGGGAATATAGCCCAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCACGCCTACACGGTCAGcc                                                                                                                       >  1:589714/1‑150 (MQ=255)
                       agagGATATCGGGCGCACGATTGGGAATATAGCCCAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTg                                                                                                               >  1:152316/1‑151 (MQ=255)
                       agagGATATCGGGCGCACGATTGGGAATATAGCCCAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGCAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTg                                                                                                               >  2:404982/1‑151 (MQ=255)
                        gagGATATCGGGCGCACGATTGGGAATATAGCCCAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGa                                                                                                              <  1:635547/151‑1 (MQ=255)
                         agGATATCGGGCGCACGATTGGGAATATAGCCCAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGa                                                                                                              >  2:101004/1‑150 (MQ=255)
                                cGGGCGCACGATTGGGAATATAGCCCAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACgg                                                                                                       <  1:574271/150‑1 (MQ=255)
                                 gggCGCACGATTGGGAATATAGCCCAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGt                                                                                                     <  1:453317/151‑1 (MQ=255)
                                    cgcACGATTGGGAATATAGCCCAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGtctt                                                                                                  >  1:404461/1‑151 (MQ=255)
                                        cGATTGGGAATATAGCCCAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGtcttttct                                                                                              >  2:100547/1‑151 (MQ=255)
                                           ttGGGAATATAGCCCAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTcttttctttt                                                                                           >  2:392722/1‑151 (MQ=255)
                                               gAATATAGCCCAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCAt                                                                                       >  1:548393/1‑151 (MQ=255)
                                                aaTATAGCCCAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATc                                                                                      <  2:559300/151‑1 (MQ=255)
                                                  tataGCCCAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGt                                                                                    >  1:464887/1‑151 (MQ=255)
                                                      gCCCAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTg                                                                                >  2:646267/1‑151 (MQ=255)
                                                       cccAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGa                                                                               <  1:657288/151‑1 (MQ=255)
                                                       cccAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGa                                                                               <  2:327553/151‑1 (MQ=255)
                                                              catcaAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTAc                                                                         <  2:535294/150‑1 (MQ=255)
                                                                 caAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACaaa                                                                      >  2:356525/1‑150 (MQ=255)
                                                                  aaGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACaaa                                                                      >  1:419363/1‑149 (MQ=255)
                                                                    gagCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAagag                                                                  <  1:129341/151‑1 (MQ=255)
                                                                                   tGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTa                                                     <  2:654140/149‑1 (MQ=255)
                                                                                   tGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGt                                                   >  2:645733/1‑151 (MQ=255)
                                                                                    gCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGt                                                   <  1:519637/150‑1 (MQ=255)
                                                                                       gcgTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTaa                                               <  2:415684/151‑1 (MQ=255)
                                                                                         gTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAaca                                             <  2:115596/151‑1 (MQ=255)
                                                                                                gACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACa                                                                        >  1:266816/1‑117 (MQ=255)
                                                                                                gACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACa                                                                        <  2:266811/117‑1 (MQ=255)
                                                                                                   ggAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATc                                   <  2:91999/151‑1 (MQ=255)
                                                                                                    gAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCa                                  <  1:389285/151‑1 (MQ=255)
                                                                                                    gAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCa                                  <  2:641469/151‑1 (MQ=255)
                                                                                                           gCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCtt                           <  1:297620/151‑1 (MQ=255)
                                                                                                              ccGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCACGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTcc                         <  1:632850/150‑1 (MQ=255)
                                                                                                               cGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCg                       <  1:40718/151‑1 (MQ=255)
                                                                                                                gggTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCgg                      >  1:211939/1‑151 (MQ=255)
                                                                                                                gggTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCgg                      >  2:601336/1‑151 (MQ=255)
                                                                                                                        tAAAAAACGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCAACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAAc               >  2:337138/1‑150 (MQ=255)
                                                                                                                         aaaaaaCGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACa              <  2:556834/150‑1 (MQ=255)
                                                                                                                         aaaaaaCGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACa              <  1:14857/150‑1 (MQ=255)
                                                                                                                         aaaaaaCGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAg             <  2:390748/151‑1 (MQ=255)
                                                                                                                          aaaaaCGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGt            >  1:590696/1‑151 (MQ=255)
                                                                                                                          aaaaaCGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGt            <  2:362571/151‑1 (MQ=255)
                                                                                                                           aaaaCGGCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTg           >  2:199346/1‑151 (MQ=255)
                                                                                                                              aCGGCTGACCGTCATTTTGGTCACGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCtt        <  2:589696/151‑1 (MQ=255)
                                                                                                                                 gCTGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGtt     <  1:607533/151‑1 (MQ=255)
                                                                                                                                   tGACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGttt    >  1:537172/1‑150 (MQ=255)
                                                                                                                                    gACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTAc  <  2:657936/151‑1 (MQ=255)
                                                                                                                                    gACCGTCATTTTGGTCGCGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTAc  <  2:235003/151‑1 (MQ=255)
                                                                                                                                                    |                                                                                                                                      
AATCGCCCGGCTGGTGGCGTTAGAGAGGATATCGGGCGCACGATTGGGAATATAGCCCAGTTCATCAAGAGCCGCGGCAATCTTGCCGCGTAGAGCGACGGAAACCTGCTCCGGGTTGCGTAAAAAACGGCTGACCGTCATTTTGGTCACGCCTACACGGTCAGCCACATCCTGAAGTACGGGTCTTTTCTTTTTCATCGTCCTGAAGGTACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTAC  >  NC_000913/3578529‑3578811

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A