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
A10 F54 I0 R2 227 88.8 3424874 95.5% 3270754 127.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP006881 1,474,968 G→T 35.1% S88* (TCA→TAA)  U712_07575 ← Uncharacterized protein ykoA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068811,474,9680GT35.1% 45.1 / 15.1 44S88* (TCA→TAA) U712_07575Uncharacterized protein ykoA
Reads supporting (aligned to +/- strand):  ref base G (4/24);  new base T (13/2);  total (18/26)
Fisher's exact test for biased strand distribution p-value = 5.22e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CCGAAACGGGCTGGGACTGATCGCGGAAGATCGAATTGTCGGCACATCGAAGT‑TTGTCTTTTTCCCGTTTAAC‑GAAATGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACCAATGCAATGCATAAAACCGTGATG‑AACACTGAACCGATAATAGCCAGCACACTGAAGAAAAGGTGAACCTGTTTGTTCTCTTTTCCGCGCTTTTCTAATAGCCGTTTAGAAA  >  CP006881/1474834‑1475094
                                                                                                                                         |                                                                                                                               
ccGAAACGGGCTGGGACTGATCGCGGAAGATCGAATTGTCGGCACATCGAAGT‑TTGTCTTTTTCCCGTTTAAC‑GAAATGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑GTTTATTTTTaaa                                                                                                                              >  1:236378/1‑138 (MQ=255)
    acggggCGGGTACTTATCGCGTAATATCTAATTGGGGGAACATCTAATT‑TTGTTTTTTACCCTTTAAAC‑CAAATGCTACAAAAAAAAAAAAACCGCCTTGCTGGCCTAGGACCGCAGGCGT‑TTTTATTTTGaaaaa                                                                                                                            <  4:294254/133‑1 (MQ=255)
    aaggggCTGGTACTGATCGCGCAATATCGAATTGTCGGAACATCTATGT‑TTGTCTTTTTCCCGTTAAAC‑TAAATGCGTCAAAAAAAAAAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGaaaaa                                                                                                                            <  3:276758/133‑1 (MQ=255)
         gcggggACTGATCGCGGACGATCGAATTGTCGGCACATCGAAGT‑TTGTCTTTTTCCCGTTAAAC‑GAAATGCTTAAAAAAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGAc                                                                                                                    <  5:374344/136‑1 (MQ=255)
          cTGGGACTGATCGCGGAAGATCGAATTGTCGGCACATCGAAGT‑TTGTCTTTTTCCCGTTTAAC‑GAAATGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTTATAAAGAAGCGAc                                                                                                                    >  1:115959/1‑138 (MQ=255)
          cTGGGACTGATCGCGGAAGATCGAATTGTCGGCACATCGAAGT‑TTGTCTTTTTCCCGGTTAAC‑GAAATGCCTCAAACAAAAAAAAAACGCCTTGCTGGCCTAGGACACCAGGCGTGGTTTTTTTTAAAAAAAAAGCAAc                                                                                                                    >  5:34100/1‑139 (MQ=255)
           ggggACTTACCGCGCAACATCTAATGGGCGGAACAGCGATTT‑TTGACTTTTTCCCGTTAAAC‑AAAATGCGTAAAAAAAAAAAAACACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACca                                                                                                                  <  1:80610/138‑1 (MQ=255)
              gACTGATCGCGGAAGATCGAATTGTCGGCACATCGAAGT‑TTGTCTTTTTCCCGTTTAAC‑GAAATGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACcaatg                                                                                                               <  7:59371/139‑1 (MQ=255)
                ctcaTCGCGTAACTTCGAATTGTCGCCACATCTAAGT‑TTGTGTTTTCCCCGTTTAAC‑TAAATCCCTAAAAAAAAAAAAAACCGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACcaatgca                                                                                                             <  5:420168/136‑1 (MQ=255)
                cTGATCGGGGACGATCTAATTGTCGGCACATCGAAGT‑TTGACTTTTTCCCGTTTAAC‑GAATTGGGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACcaatgca                                                                                                             <  7:330707/139‑1 (MQ=255)
                cTGATCGCGGAAGATCGAATTGTCGGCACATCGAAGT‑TTGTCTTTTTCCCGTTTAAC‑GAAATGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACcaat                                                                                                                <  3:169009/136‑1 (MQ=255)
                cTGATCGCGGAAGATCGAATTGTCGGCACATCGAAGT‑TTGTCTTTTTCCCGTTTAAC‑GAAATGCGTCAAACAAAAAAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACcaatgca                                                                                                             <  7:331806/139‑1 (MQ=255)
                cTGAGCGGGGAAGTTGTAATTGTGGGCACATCGATGT‑TTTTCTTTTTCCCTTTTAAC‑TAAATGCGTAAAAAAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACcaat                                                                                                                <  3:53991/136‑1 (MQ=255)
                cTGAGCGCGGACGATCTAATTGTCGGCACATGGAATT‑TGGTGTTTTTCCCGTTAAAC‑TAATTGCGTCAAAAAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACcaatgca                                                                                                             <  2:276327/139‑1 (MQ=255)
                   aTCGCGGAAGATCGAATTGTCGGCACATCGAAGT‑TTGTCTTTTTCCCGTTTAAC‑GAAATGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTTTTTTTAAAAAGAAGCGTCcaaaggaat                                                                                                           >  5:313164/1‑138 (MQ=255)
                   aTCGCGGAAGATCGAATTGTCGGCACATCGAAGT‑TTGTCTTTTTCCCGTTTAAC‑GAAATGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACcaatgcaatg                                                                                                          >  7:62174/1‑139 (MQ=255)
                   aTCGCGGAAGATCGAATTGTCGGCACATCGAAGT‑TTGTCTTTTTCCCGTTTAAC‑GAAATGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑GTTTTTTTTTTAAAAGAACGGACcaatggaatt                                                                                                          >  7:163325/1‑138 (MQ=255)
                      gcgGAAGATCGAATTGTCGGCACATCGAAGT‑TTGTCTTTTTCCCGTTTAAC‑GAAATGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑GTTTTTTTTTAAAAAAAAGCGACcaattcaatg                                                                                                          >  3:259262/1‑136 (MQ=255)
                        gttaGATCTAATTGACGGCACATCGATTT‑TTTTCTTTTTCCCGTTTAAC‑TAAATGCGTCAAAAAAATTAAAAACGCCTTGGTGGCCTTGGACAGCAGGGGT‑TTTTATTTTGAAAAAGAAGCGACCAatgcaatgca                                                                                                        <  4:200008/133‑1 (MQ=255)
                        ggAAGATCGAATTGTCGGCACATCGAAGT‑TTGTCTTTTTCCCGTTTAAC‑GAAATGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTTTTTTTAAAAACAAGCCGCCCatgcaaagcaaa                                                                                                      >  2:134010/1‑136 (MQ=255)
                            gATCTAATTCTCGCCACATCGATGT‑TTGTATTTTTCCCTTTAAAC‑TAAAGCCGTAAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACCAATGCAATGCATAAAAcc                                                                                                 <  5:12153/139‑1 (MQ=255)
                             aTCGAATTGTCGGCACATCGAAGT‑TTGTCTTTTTCCCGTTTAAC‑GAAATGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGCCAGCAGGCGT‑TTTTATTTTTAAAAAGCAGCGACCAAAGCAAAGCATAAAACCg                                                                                                >  8:137826/1‑139 (MQ=255)
                             aTCGAATTGTCGGCACATCGAAGT‑TTGTCTTTTTCCCGTTTAAC‑GAAATGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTTAAAAAGAAGCGACCAAAGGAATTCATAAAAccc                                                                                                >  2:267370/1‑138 (MQ=255)
                               cGAAGTGGCGGAACCTCGACGT‑TTGTCTTTTTCCCGTTAAAC‑GAATTGCGTCAAACAAAAAAAACACGCCTTGCTGGCCTAGGCCAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACCAATGCAATGCATAAAACCGtg                                                                                              <  2:349814/139‑1 (MQ=255)
                                 taTTGTCGGCAAATCGAAGT‑TTGTCTTTTACCCGTTAAAC‑CAAATGCGTAAAACAAAAAAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACCAATGCAATGCATAAAACCGtgat                                                                                            <  8:86938/138‑1 (MQ=255)
                                 atttGTCGGAACATCGAAGT‑TTTTCTTTTACCCGTTAAAC‑TAAATGCGTCAAAAAAAAAAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTTAAAAAGAAGCGACCAATGCAATGCATAAAACCGtgat                                                                                            <  1:267370/137‑1 (MQ=255)
                                  tttGTGGGCACATCTAAGT‑TTGTATTTTTGCCGTTTAAC‑TAATTGCTAAAAAAAAAATAAAAACGGCTTGGTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACCAATGCAATGCATAAAACCGtgat                                                                                            <  6:313164/137‑1 (MQ=255)
                                  aTTTTCGGAACATCGTAGTGTTGT‑TTTTTCCC‑TTTAACAGAAAGGCTAAAAAAAAAAAAAAAACGCCTTGCTGGCCTAGGAAAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACCAATGCAATGCATAAAACCGtgat                                                                                            <  5:139140/138‑1 (MQ=255)
                                  aTTGTCGGCAAATCCTATT‑TTTTTTTTTTCCCGTTTAAC‑TAAATGCGTCAAAAAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACCAATGCAATGCATAAAACCGtgat                                                                                            <  6:341689/138‑1 (MQ=255)
                                    tGTCGGCACATCGAAGT‑TTGTCTTTTTCCCGTTTAAC‑GAAATGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTTTTTTTTAAAAAAAGAGGCCAAATCAAATCATAAAAACCtgatta                                                                                          >  2:346399/1‑136 (MQ=255)
                                      tCGCCACAGCTATGT‑TTGTTTTTTTCCCTTTTAAC‑TAAATGCTTCAAAAAAATAAAAAACGCCTTGCTGGCCTAGGACAGCTGGCGT‑TTTTATTTTGAAAAAGAAGCGACCAATGCAATGCATAAAACCGTGATG‑Aaca                                                                                      <  5:47213/139‑1 (MQ=255)
                                        ggCACATCGAAGT‑TTGTCTTTTTCCCGTTTAAC‑GAAATGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTTTAAAAGAAGCGACCAATGCAATGCATAAAACCGTGATT‑AACACt                                                                                    >  7:3721/1‑139 (MQ=255)
                                        ggCACATCGAAGT‑TTGTCTTTTTCCCGTTTAAC‑GAAATGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTTAAAAACAAGCGACCAATGCAATGCATAAAAACCTGATG‑aaaa                                                                                      >  7:9839/1‑135 (MQ=255)
                                            caTCGATTT‑TTTTCTTTTTCCCTTTAAAC‑TAAATGCGAAAAAAAAAAAAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACCAATGCAATGCATAAAACCGTGATG‑AACACTGAAc                                                                                <  1:346399/139‑1 (MQ=255)
                                                 aaGT‑TTGTCTTTTTCCCGATAAAC‑CAAATGCGTCAAACAAAAAAAACACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACCAATGCAATGCATAAAACCGTGATG‑AACACTGAACCg                                                                              <  3:82308/136‑1 (MQ=255)
                                                        gTCTTTTTCCCGTTTAAC‑GAAATGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACCAATGCAATGCATAAAACCGTGATG‑AACACTGAACCGataat                                                                         <  3:212129/135‑1 (MQ=255)
                                                         tCTTTTTCCCGTTTAAC‑GAAATGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTTTTTTTTAAAAAAAACACCCCATTCAATTCATAAAAACAGAATGAAACAC‑GAACCGACAATAACCa                                                                    >  2:402755/1‑139 (MQ=255)
                                                                accGTTAAAC‑AAATTGCGAAAAAAAAATTTAAACCTCATTGCTGGCCTAGTCATGCTGGCGT‑TTTTATTTTTAATAAGAAGCGACCAATGCAATTCATAAAACCGTGATG‑AACACTGAACCGATAATAGCCAGCacac                                                              <  5:18248/137‑1 (MQ=255)
                                                                  cGTTTAAC‑GAAATGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑GTTTATTTTGAAAAAGAAGCGACCAATGCAATTCATAAAACCCTGATT‑AACACAGAACCGATAATAACCAGcaca                                                               >  3:322570/1‑135 (MQ=255)
                                                                       taatcaaaTCCGTTAAAAAAATTAAAATGGCTTTGCTGGCCTAGGAGAGCTGGCGT‑TTTTATTTTGAAAAAGAAGCGTCCTATGCAATGCATTAAACCGTGATG‑AACACTGAACCGATAATAGCCAGCACACTga                                                           <  3:110755/130‑1 (MQ=255)
                                                                               tGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑GTTTTTTTTGTAAAAGAAGCGCCCAATGCAATGCATAAAACCGGGATG‑AACACTGAACCGATAATAGCCCGCCCACTGAAGAAAAGGTgga                                               >  5:337522/1‑137 (MQ=255)
                                                                                                   cGCCTTGCTGGCCTAGGACAGCAGGCGT‑GTTTTTTTTGTAAAAGAAGCGACCAATGCAATGCATAAAACCGTGATG‑AACACTGAACCGATAATAGCCAGCACACTGAAGAAAAGGTGAACCTGTTTGTTCTCtttt                              >  3:198486/1‑136 (MQ=255)
                                                                                                          cTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACCAATGCAATGCATAAAACCGTGATG‑AACACTGAACCGATAATAGCCAGCACACTGAAGAAAAGGTGAACCTGTTTGTTCTCTTTTCCGCGCttt                     <  6:337522/138‑1 (MQ=255)
                                                                                                                                 ttttttttTAAAAATAAGCGACCAATGCAATGCATAAAACCGGGATG‑GACAAAGAACCGATAAAAACCAGCACACTGAAGAAAAGGTTAACCGGTTTGGTGTCTTTTAAGCGCTTTTATAATAGCCGTTTAGaaa  >  4:106217/1‑135 (MQ=255)
                                                                                                                                         |                                                                                                                               
CCGAAACGGGCTGGGACTGATCGCGGAAGATCGAATTGTCGGCACATCGAAGT‑TTGTCTTTTTCCCGTTTAAC‑GAAATGCGTCAAACAAAATAAAAACGCCTTGCTGGCCTAGGACAGCAGGCGT‑TTTTATTTTGAAAAAGAAGCGACCAATGCAATGCATAAAACCGTGATG‑AACACTGAACCGATAATAGCCAGCACACTGAAGAAAAGGTGAACCTGTTTGTTCTCTTTTCCGCGCTTTTCTAATAGCCGTTTAGAAA  >  CP006881/1474834‑1475094

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A