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
A11 F1 I2 R1 760 67.6 3323148 92.7% 3080558 109.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,552,094 G→A I15I (ATC→ATT)  ypeA ← GNAT family putative N‑acetyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,552,0940GA98.4% 193.6 / ‑4.3 63I15I (ATC→ATT) ypeAGNAT family putative N‑acetyltransferase
Reads supporting (aligned to +/- strand):  ref base G (0/1);  new base A (29/33);  total (29/34)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.31e-01

CATCACCGTTCCGACCACGTCACCGTTTACCTCAGCGACCAAAAACAAACTGACGTCATGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTG‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTGCGGGTTAAAAGGCTGATTATGGCGTGAACGGTCGAATTAGCCAATATCTGACGAAAATCGGTTG  >  NC_000913/2551962‑2552221
                                                                                                                                      |                                                                                                                                  
cATCACCGTTCCGACCACGTCACCGTTTACCTCAGCGACCAAAAACAAACTGACGTCATGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGAcc                                                                                                                            >  1:426429/1‑139 (MQ=255)
    aCCGTTCCGACCACGTCACCGTTTACCTCAGCGACCAAAAACAAACTGACGTCATGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCtt                                                                                                                        <  1:1211646/139‑1 (MQ=255)
             aCCACGTCACCGTTTACCTCAGCGACCAAAAACAAACTGACGTCATGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCtt                                                                                                               >  1:643001/1‑139 (MQ=255)
               cACGTCACCGTTTACCTCAGCGACCAAAAACAAACTGACGTCATGGTTCATCTTACCCTCGATGTCCATTTCCGGAGCGTTCCACGGACGCAGCAAGTCTCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTcc                                                                                                             <  2:186622/139‑1 (MQ=255)
                  gTCACCGTTTACCTCAGCGACCAAAAACAAACTGACGTCATGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑Tgg                                                                                                         >  1:1098447/1‑139 (MQ=255)
                    cACCGTTTACCTCAGCGACCAAAAACAAACTGACGTCATGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCg                                                                                                       <  2:31972/139‑1 (MQ=255)
                         tttACCTCAGCGACCAAAAACAAACTGACGTCATGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATa                                                                                                  >  1:768130/1‑139 (MQ=255)
                             ccTCAGCGACCAAAAACAAACTGACGTCATGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATAcgcg                                                                                              <  2:426429/139‑1 (MQ=255)
                             ccTCAACGACCAAAAACAAACTGACGTCATGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATAcgcg                                                                                              <  2:1498697/139‑1 (MQ=255)
                              cTCAGCGACCAAAAACAAACTGACGTCATGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGt                                                                                             <  2:27821/139‑1 (MQ=255)
                               tCAGCGACCAAAAACAAACTGACGTCATGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTa                                                                                            <  2:778187/139‑1 (MQ=255)
                                   cGACCAAAAACAAACTGACGTGATGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCTACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTAtctc                                                                                        <  2:315485/139‑1 (MQ=255)
                                     aCCAAAAACAAACTGACGTCATGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCCTTGGCGAAATACGCGTATCTcc                                                                                       <  2:104506/139‑1 (MQ=255)
                                     aCCAAAAACAAACTGACGTCATGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCa                                                                                      <  1:4510/139‑1 (MQ=255)
                                               aacTGACGTCATGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGt                                                                            <  2:1138221/139‑1 (MQ=255)
                                               aacTGACGTCATGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGt                                                                            <  2:888169/139‑1 (MQ=255)
                                                acTGACGTCATGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGtt                                                                           >  1:556038/1‑139 (MQ=255)
                                                         aTGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATAcgcg                                                                                              <  2:368880/111‑1 (MQ=255)
                                                         aTGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATAcgcg                                                                                              >  1:368880/1‑111 (MQ=255)
                                                           ggTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTGCg                                                                <  2:1098447/139‑1 (MQ=255)
                                                                aTCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTGCGGGTTa                                                           >  2:109692/1‑139 (MQ=255)
                                                                    tACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTGCGGGTTAAAAg                                                       <  2:556038/139‑1 (MQ=255)
                                                                     aCGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTGCGGGTTAAAAgg                                                      <  1:797229/139‑1 (MQ=255)
                                                                      cGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGt                                                                                             <  2:194809/99‑1 (MQ=255)
                                                                      cGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGt                                                                                             >  1:194809/1‑99 (MQ=255)
                                                                      cGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTAt                                                                                           >  2:1432458/1‑101 (MQ=255)
                                                                      cGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTAt                                                                                           <  1:1432458/101‑1 (MQ=255)
                                                                      cGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTAt                                                                                           >  1:159846/1‑101 (MQ=255)
                                                                      cGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTAt                                                                                           <  2:159846/101‑1 (MQ=255)
                                                                      cGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTGCGGGTTAAAAGGc                                                     >  2:1337137/1‑139 (MQ=255)
                                                                           gATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTGCGGGTTAAAAGGCTGAtt                                                <  1:1601172/139‑1 (MQ=255)
                                                                           gATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTGCGGGTTAAAAGGCTGAtt                                                >  2:1601172/1‑139 (MQ=255)
                                                                            aTGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGaaa                                                                                                    <  1:1637219/86‑1 (MQ=255)
                                                                            aTGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGaaa                                                                                                    >  2:1637219/1‑86 (MQ=255)
                                                                            aTGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTGCGGGTTAAAAGGCTGATTa                                               >  2:377890/1‑139 (MQ=255)
                                                                            aTGTCCATTTCCGGATCGATCCACGGACGCCGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCACATCGAAATCTTCC‑TGGCGAAACACGCGCATATCCATGGCATCCGTTACCTTTTTGCGGGTTAAAAGCCTGATTa                                               >  2:797229/1‑139 (MQ=255)
                                                                             tGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGt                                                                                             >  2:116162/1‑92 (MQ=255)
                                                                             tGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGt                                                                                             <  1:116162/92‑1 (MQ=255)
                                                                             tGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTGCGGGTTAAAAGGCTGATTAt                                              >  1:295041/1‑139 (MQ=255)
                                                                                   tttCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGATA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGt                                                                                             >  2:1120605/1‑86 (MQ=255)
                                                                                   tttCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGATA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGt                                                                                             <  1:1120605/86‑1 (MQ=255)
                                                                                       cGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGt                                                                                             >  2:971948/1‑82 (MQ=255)
                                                                                       cGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGt                                                                                             <  1:971948/82‑1 (MQ=255)
                                                                                         gATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATAcgcg                                                                                              >  1:721820/1‑79 (MQ=255)
                                                                                         gATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATAcgcg                                                                                              <  2:721820/79‑1 (MQ=255)
                                                                                              ttCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑Tgg                                                                                                         <  2:134760/63‑1 (MQ=255)
                                                                                              ttCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑Tgg                                                                                                         >  1:134760/1‑63 (MQ=255)
                                                                                              ttCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTg                                                                  <  2:170306/102‑1 (MQ=255)
                                                                                              ttCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTg                                                                  >  1:170306/1‑102 (MQ=255)
                                                                                              ttCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTGCGGGTTAAAAGGCTGATTATGGCGTGAACGGTCGAAt                             <  2:295041/139‑1 (MQ=255)
                                                                                              ttCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTGTTGCGGGTTAAAAGGCTGATTATGGCGTGAACGGTCGAAt                             >  2:1042091/1‑139 (MQ=255)
                                                                                              ttCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCATAGCTCCATGGTATTCGTTACCTTTTTGATGGTAAAAAGGCTGATTATGGCGTGAACGGTCGAAt                             >  2:861650/1‑139 (MQ=255)
                                                                                                      aCGCAGCAAGTCGCAACGCTCCCAAAGGGGGTA‑‑ATGACCTCTTCGAAATCTTCA‑TGGCGAAATACGCGTATCTCCATGGTa                                                                                 >  2:1435219/1‑81 (MQ=255)
                                                                                                      aCGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGGGTAATGACCTCTTCGAAATCTTCA‑TGGCGAAATACGCGTATCTCCATGGTa                                                                                 <  1:1435219/81‑1 (MQ=255)
                                                                                                        gcagcaAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTGCg                                                                <  2:988303/94‑1 (MQ=255)
                                                                                                        gcagcaAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTCCg                                                                >  1:988303/1‑94 (MQ=255)
                                                                                                         cagcaAGTCGCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTGCGGGTTAAAAGGCTGATTATGGCGTGAACGGTCGAATTAGCCAATATc                  >  2:550071/1‑139 (MQ=255)
                                                                                                                  gCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTAt                                                                                           <  1:150538/57‑1 (MQ=255)
                                                                                                                  gCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTAt                                                                                           >  2:150538/1‑57 (MQ=255)
                                                                                                                  gCAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTGCGGGTTAAAAGGCTGATTATGGCGTGAACGGTCGAATTAGCCAATATCTGACGaaaa         <  1:1337137/139‑1 (MQ=255)
                                                                                                                   cAACGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTGCGGGTTAAAAGGCTGATTATGGCGTGAACGGTCGAATTAGCCAATATCTGACGAAAAt        <  1:1042091/139‑1 (MQ=255)
                                                                                                                    aaCGCTCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTGCGGGTTAAAAGGCTGATTATGGCGTGAACGGTCGAATTAGCCAATATCTGACGAAAATc       <  1:377890/139‑1 (MQ=255)
                                                                                                                         tCCCAAA‑‑GGGTA‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTGCGGGTTAAAAGGCTGATTATGGCGTGAACGGTCGAATTAGCCAATATCTGACGAAAATCGGTTg  >  1:354313/1‑139 (MQ=255)
                                                                                                                                      |                                                                                                                                  
CATCACCGTTCCGACCACGTCACCGTTTACCTCAGCGACCAAAAACAAACTGACGTCATGGTTCATCTTACGCTCGATGTCCATTTCCGGATCGTTCCACGGACGCAGCAAGTCGCAACGCTCCCAAA‑‑GGGTG‑‑ATGACCTCTTCGAAATCTTCC‑TGGCGAAATACGCGTATCTCCATGGTATTCGTTACCTTTTTGCGGGTTAAAAGGCTGATTATGGCGTGAACGGTCGAATTAGCCAATATCTGACGAAAATCGGTTG  >  NC_000913/2551962‑2552221

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A