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
A6 F17 I0 R1 29 52.5 1051376 97.9% 1029297 229.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 3,206,484 C→A 22.3% Q8K (CAA→AAA)  ttdA → L‑tartrate dehydratase, alpha subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,206,4840CA22.3% 53.4 / 3.1 35Q8K (CAA→AAA) ttdAL‑tartrate dehydratase, alpha subunit
Reads supporting (aligned to +/- strand):  ref base C (10/17);  new base A (4/4);  total (14/21)
Fisher's exact test for biased strand distribution p-value = 6.85e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.79e-01

ATTCAGCATCGTTAATTATCCGCAGTTGTGATAAGCGCAGTGTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAG‑ACAAATACAAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTA‑CCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTCCTGCCTGTCAGGACACCGGGGAGATTATGTTCTTCGTTAAAGTCGGTTC  >  NC_000913/3206248‑3206716
                                                                                                                                                                                                                                              |                                                                                                                                                                                                                                         
aTTCAGCATCGTTAATTATCCGCAGTTGTGATAAGCGCAGTGTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAG‑ACAAATACAAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCaa                                                                                                                                                                                                                                         <  1:285995/239‑1 (MQ=255)
 ttCAGCATCGTTAATTATCCGCAGTTGTGATAAGCGCAGTGTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGGGGAATTTTTCAC‑AAAAAAACAAAAAATGGAGTTGTCCTTGTGT‑GGGAAAGTAATAAGAAAc                                                                                                                                                                                                                                        >  2:250348/1‑239 (MQ=255)
  tCAGCATCGTTAATTATCCGCAGTTTTGATAAGCGCAGTGTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCTTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAG‑ACAAATACAAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACa                                                                                                                                                                                                                                       <  2:341723/239‑1 (MQ=255)
      cATCGTTAATTATCCGCAGTTGTGATAAGCGCAGTGTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTTAT‑ACCAAAAAAAAAAATCGAGTTGGCCTGATTA‑GCGACAGGAATAAACaaacagca                                                                                                                                                                                                                                   >  2:25988/1‑233 (MQ=255)
       aTCGTTAATTATCCGCAGTTGTGATAAGCGCAGTGTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAG‑ACAAATACAAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGc                                                                                                                                                                                                                                    <  1:195128/237‑1 (MQ=255)
           ttAATTATCCGCAGTTGTGATAAGCGCAGTGTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGAGAATTTTTTCAG‑ACAAAAAAAAAAAATTGAGTTTCCATGGTGA‑GCGAAAGGAATAAGAAAAAGGCAATGaa                                                                                                                                                                                                                              >  1:103531/1‑239 (MQ=255)
                                 aGCGCAGTGTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTTAA‑ACAAAAACAAAAAAAGTAGTTGCCATGATGA‑GCGGAAGTAATAAACAACAAGCAGTGAATAAGATTACAGAGATTTTAGCt                                                                                                                                                                                                        >  1:13288/1‑239 (MQ=255)
                                                  aaaaCATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCTGAAAAAATAC‑AAAACAGGAGATGTCATGTAGAGGGGAAATAAAAAAAAAACAGGAAGAGAAAAGATTAACA‑AGATTGTTGCTACATTTAACACCATggt                                                                                                                                                                                       >  1:389349/1‑237 (MQ=255)
                                                    aaCATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCCA‑CCAAAAAAAAAAACTGTAGATGGCGTTTAGA‑GGGAAAGTAATAAACAACAAGAACTGAATAAATTGATAGAGAGTGTTAGCAACTTTACCGCCCTGAatt                                                                                                                                                                                     >  2:54487/1‑239 (MQ=255)
                                                      ctttGCCTTTCCCTGCTCTGGCGAAATATTCATTCTTATTTTCGTGTTAATTCACAAACTGTTAATTAAATATTCAGGGTGGCAAAAAATAAAAAACCACATTTTTAGTGGTAGTTTGGGGGGGTGAATTTTTCCAA‑AAAAATACAAAAACTGGAGTGGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCt                                                                                                                                                                                   <  2:13288/237‑1 (MQ=255)
                                                            cATTCCCCGCTCGGGCGAAATATTCATTCTTATTTTCGTGTTGATTCACGAACTGTTAATTAAATATTCACGGTGGAAAAAAATATAAAACCACATTTTTAGGGGTAGTTGGTGGGGGTGAATTTTTCAAG‑ACAAATAAAAAAACTGGGTTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTGGTTAACTTTACCGCCATGATTTCTA‑CCCGa                                                                                                                                                                            <  2:389349/239‑1 (MQ=255)
                                                             aTTCCCTGCTCTGGCTAAATTTTAATTCTTTTTTCCGCGTTATTTCACGAACTGTTAATTACATATTCGCGGTGGCAAAAAATATAAAACCACATTTTTATGGGTAGTTTGTGGGGGTAAATTTTTCCAG‑ACAAATACAAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGTTAACTTTACCGCCATGATTTCTA‑CCCGaa                                                                                                                                                                           <  2:210357/239‑1 (MQ=255)
                                                                   tGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGGAAATTTTCAG‑ACAAATAAAAAAAATTGAATTGCCATGGTGA‑GGGGAAGTAATAAGCAAAACGCAGTGAATAAATTTGCAGAGATTGTTGCTAACATTACCGGCCTGATTTTTATCCCGatagctg                                                                                                                                                                      >  1:435241/1‑233 (MQ=255)
                                                                         ggCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGAGAGATTTTTTAG‑ACAAAAACAAAAACAAGAGTTGCGATGGTGA‑GCGCAAGTAATAAACAAAAGAGAGGGAATAAATTGACAGAGAATTTTGCTCACTTTACCGCCACGATTTTTT‑ACCGCAAGCCtgtttatg                                                                                                                                                               >  1:150395/1‑233 (MQ=255)
                                                                          gcgcAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGGATTTTTTTAG‑AAAAAAAAAAAAAATGGAGTTTGCATGAGTA‑GGGGAAGGTATAAACAAAAAGCAAGGAAAAAAGTTACAGAGATTGTCGCTAAATTTACACCCCTGATTTTCA‑ACCGAAAGCCtggttgaat                                                                                                                                                              >  2:57195/1‑232 (MQ=255)
                                                                            gcAATATTCATTTTTATTTTCGCTTTGATTAACAAACTGTTAATTATATATTCTGGGTGGCAAAAAATATAAAACCACATTTTGAGTGGTAGTTTGGGGCGGTGAATTTTTCAAG‑AAAAATAAAAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTA‑CCCGAATGCCTGATGACgtg                                                                                                                                                             <  2:435241/238‑1 (MQ=255)
                                                                                tatTCATTCTTATTTTGGCGTTAATTCACAAACTGTTAATTACATATTGAGGGTGGAAAAAAATATAAACCCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTACCAG‑AAAAATACAAAAACTGGAGTTGCCAGGATGA‑GCGAAATTAATAAGCAACAGGCAGAGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTA‑CCCGAATGCCTGATGACGTGGTGGa                                                                                                                                                        <  1:25988/239‑1 (MQ=255)
                                                                                tatTCATTCTTATTTACGCGTTGATACACGAACTTTTAATTACATTTTCCCGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAG‑ACAAATACAAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGCTACCTTTCCCGCCATGATTTCTA‑CCCGAATGCCTGATGACGTGGTGGa                                                                                                                                                        <  2:266158/239‑1 (MQ=255)
                                                                                             tttCGCTTTAATTCGAGAACTTTTAATTACATATTCACGGTGGCAAAAAATAAAAACCCACATTTTTAGTGGTATTTTGTGGCGGTGAATTTTTCAAA‑AAAAATAAAAAAACTGGATTTGCCATGATGA‑GCAAAAGTAATAACCAACGGGCAGTAAATAATTTGACAGAAATTGTCGCTAACTTTACCGCCATGATTTCTA‑CCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAg                                                                                                                                           <  1:12985/239‑1 (MQ=255)
                                                                                                                   tgaaTTACATATTCACGGTGGAAAAAATAATAAACACCCATTTTAATTGGTATTTTGGTGGGGTTAATTTTCCAAA‑ACAAATAAAAAAACTGGAGTTGCCATGAGGA‑GCTAATGTATTAAGAAACAGGCAGTAAAAAATTTGACAGAGATTGTCGTGAACTTTACCGCCATGATTTCTA‑CCCGAATGCCTGATGACGTGGTGGATAAACTaaaa                                                                                                                                              <  1:363901/212‑1 (MQ=255)
                                                                                                                            tatTCAGGTGGGAAAAAAATAAAAAACCACATTTTTAGTGGTAGTTTGGGGCGGTGAATTTTTCCAG‑AAAAATACAAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTAACCGCCATGATTTCTA‑CCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGa                                                                                                            <  2:103531/239‑1 (MQ=255)
                                                                                                                            tatTCACGGTGGCAAAAAAAAAAAACCCACATTTTGAGTGGTAGTTTGTGGCGGTGAATTTTCCCAA‑CAAAAAACAAAAACTGGGGTTGCCATGATAA‑GCAAAATTAATAAGCAACAGACAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTA‑CCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGa                                                                                                            <  1:287084/239‑1 (MQ=255)
                                                                                                                             atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAA‑AGAAAAACAAAAAAACGAGGTTTCATGTTGA‑GCGAAAGTAAAAAACAACACGAAGTGAATAAGATGTCAGAGACTTTCGCTAACATTATCACCAAGATTTCTA‑TCCCAAAGTCTGATAACGTTGTGGTGAAACTAAAACAGATaaaag                                                                                                                                    >  1:99391/1‑212 (MQ=255)
                                                                                                                                    ggagaaaaaaaTAAAAAACCATATTTTTAGGGGTAGTTTGGGGCGGTAAATTTTTCCAA‑AAAAATAAAAAAACTGGAGTTGACATGATGA‑GCAAAAGAAATAAGCAACAGGAAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTA‑CCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTAt                                                                                                     <  2:219371/233‑1 (MQ=255)
                                                                                                                                     tGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAG‑ACAAAAACAAAAAAATGAGGTGGCATGATGA‑GGGGAAGGAATAAAAAAAAAGCAAAGAAAAAATTGAAAGAGAATGTTGCTAAATTTTACGCCATGATTTTTA‑CCCCAAAGCCTGATGACGTGGGGGATAAACTAAAAAAGCTAAAAGATGCCGGAACGACGTCGATTGGGGAAATTATCt                                                                                                   >  1:170046/1‑239 (MQ=255)
                                                                                                                                             aaTAAAAACCAACATTTTTAGTGGTATTTTGGGGGGGTAAATTTTCCCAA‑AAAAATACAAAAACGGGAGTTGCCATGAGGA‑GCGAAAGAAAAAAACAACAGCCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTAGCCGCCATGATTTCTA‑CCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACg                                                                                           <  1:92411/239‑1 (MQ=255)
                                                                                                                                               taaaaaaCCAAATTTTTAGTGGTAGTTTGGGGGGGTGAATTTTTCAAG‑AAAAATAAAAAAACGGGAGTTGCCAGGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTA‑CCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGa                                                                                                            <  2:187751/217‑1 (MQ=255)
                                                                                                                                                                  gggTAGTTGGGGGCGGTGAATTTTTCAAG‑AAAAAAAGAAAAACTGGAGTGGCCATAATGA‑GAAAAAGTAATAAGAAACGGGCAGTGAATAAGTTGAAAGGGATTGTGACTAATTGTACCGCCATGATTTCTA‑CCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCaaaa                                                                       <  1:250348/237‑1 (MQ=255)
                                                                                                                                                                                                aaaaaaaaaaaaaTTGAATTTGCAAGAATAA‑GCGAAAGTAACAAGAAACGGGAGGAAAATAAGTTGCAAGAAATGGCCGCTAACTTTACCGCCATGATTTCTA‑CCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTCCTGCCTGTCa                                         <  1:57195/231‑1 (MQ=255)
                                                                                                                                                                                                 cAAATACAAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTA‑CCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTCCTGCCTGTCAg                                        >  1:507347/1‑239 (MQ=255)
                                                                                                                                                                                                        ataagagaaatttGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTAAAAAAGTTGACAGAGTTTGTCGTAAACTTTACCGCCATGATTTCTA‑CCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTCCTGCCTGTCAGGACACCg                                 <  2:411135/228‑1 (MQ=255)
                                                                                                                                                                                                          aaaCTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTA‑CCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTCCTGCCTGTCAGGACACCggg                               >  2:307976/1‑239 (MQ=255)
                                                                                                                                                                                                           aaCTGGGGTTGCAAGGAGGA‑GGAAAAGTAAAAAGCAAGGGGAGGGGAATAGATTGAAGGAGATTGCGGCAAACTTAACCGCCATGATTTCTA‑CCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTCCTGCCTGTCAGGACACCgggg                              <  2:150395/239‑1 (MQ=255)
                                                                                                                                                                                                                              a‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTA‑CCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTCCTGCCTGTCAGGACACCGGAGAGATTAt                       >  1:411135/1‑227 (MQ=255)
                                                                                                                                                                                                                                        aataaCAAACAGGAAGTGAATAGTTTGACAGAGTTGTTCGTAAACTTTACCGCCATGATTTCTA‑CCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTCCTGCCTGTCAGGACACCGGGGAGATTATGTTCTTCGTTAAAGTCGGTTc  <  1:304520/239‑1 (MQ=255)
                                                                                                                                                                                                                                              |                                                                                                                                                                                                                                         
ATTCAGCATCGTTAATTATCCGCAGTTGTGATAAGCGCAGTGTATTTCGCAAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAG‑ACAAATACAAAAACTGGAGTTGCCATGATGA‑GCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTA‑CCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTCCTGCCTGTCAGGACACCGGGGAGATTATGTTCTTCGTTAAAGTCGGTTC  >  NC_000913/3206248‑3206716

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A