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
A29 F119 I0 R1 76 56.4 2152892 90.0% 1937602 142.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 760,485 G→A 100% G594S (GGC→AGC)  sucA → subunit of E1(0) component of 2‑oxoglutarate dehydrogenase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913760,4850GA98.0% 110.3 / ‑5.8 45G594S (GGC→AGC) sucAsubunit of E1(0) component of 2‑oxoglutarate dehydrogenase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  major base A (21/22);  minor base C (2/0);  total (23/22)
Fisher's exact test for biased strand distribution p-value = 4.89e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GAGATGAAGCGCCTGCAGGAGCTGGCGAAACGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGGGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTCGCGGTACCTTCTTCCACCGCCACGCGGTGATCCACAACCAGTCTAACGGTTCCACT  >  NC_000913/760353‑760619
                                                                                                                                    |                                                                                                                                      
gagaTGAAGCTCCTGCAGGCGCTGGCGAAACGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGa                                                                                                                              <  2:241111/143‑1 (MQ=255)
   aTGAAGCGGCTGGAGTGGCTGGCGAAACGCATGAGCGCGGTGGGGGGGGCAGTTGAAATGCAGTCTCGCGGTGCCAAGGTGTATGGCGATCGCCAGGCGATGGGTGCCGGTGAGAAACTGGTCGACTGGAGCGGTGCGGaaaa                                                                                                                           <  1:447988/143‑1 (MQ=255)
    tGAAGCCCCTGCAGGAGCTGGCGAAACGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAAc                                                                                                                          <  1:1031512/143‑1 (MQ=255)
      aaGCGCCTGCAGCAGCTGGCGTAACGCATCAGCGCGGTGCCGGAAGCAGGTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCt                                                                                                                        <  1:900255/143‑1 (MQ=255)
       ggcgtCTGCAGCAGCGGGCGAAAGGGCTCAGCACGGTGCCGGAAGTATGTGGAATGCAGTTTCGCGTTGCCAAGCTTTATTGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTc                                                                                                                       <  2:425952/142‑1 (MQ=255)
       agaggcTGCAGGAGCTGGCGAAACGCAACAGAACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTc                                                                                                                       <  1:10579/138‑1 (MQ=255)
        gcgcCTGCAGGAGCTGGCGAAACGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCg                                                                                                                      <  1:170296/143‑1 (MQ=255)
        gcgcCTGCAGGAGCTGGCGAAACGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGGGCGGAAAAcaccg                                                                                                                      >  2:599038/1‑139 (MQ=255)
        gcgcCTGCAGGAGCTGGCGAAACGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGGTGGCAGGATTTATGGCGAGCGCCAGGCGAAGGCTGCCGGTGAGAAACTGCTCGACTGGAGCGGTGCGGAAAACCtgg                                                                                                                      >  2:953288/1‑141 (MQ=255)
         cgcCTGCGGGAGCTGGCGAAACGCATCAGCACGGTGCCGGAAGCAGCTGAAATGCAGTCTCGCGTTGCCAAGATCTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGAGTGGAGCGGTGCGGCAAACCTCGc                                                                                                                     >  2:838529/1‑143 (MQ=255)
         cgcCTGCAGGAGCTGGCGAAACGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGTCTGGCGCGGTGCGGAAAAcaacgc                                                                                                                     >  1:886023/1‑138 (MQ=255)
         cgcCTGCAGGAGCTGGCGAAACGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGc                                                                                                                     <  1:625084/143‑1 (MQ=255)
            cTGCAGGAGCTGGCGAAACGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCACGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAGAACCTCGCTTa                                                                                                                  >  2:666334/1‑143 (MQ=255)
             tGCAGGAGCTGGCGAAACGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGAGTTATGGCGATCGCCAGGCGCTGGCTGACGGTGAGAAACTGATAAACAGGAGCAGTACAGAAAACCTGGATTAc                                                                                                                 >  1:263686/1‑143 (MQ=255)
              ggaGGGGCTGGCGAAACGCATCTGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACg                                                                                                                <  2:355287/141‑1 (MQ=255)
                 ggAGCGGGCGAAACGCCTCAGCACGGTGCCGGAAGCAGTTGACATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCa                                                                                                             <  2:324387/143‑1 (MQ=255)
                  gAGCTTGCGAAGTTCATGAGGACGGTGCCGGACGCAGTTGAAGTGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGTGGTGCGGAAAACCTCGCTTACGCCAc                                                                                                            <  2:920109/143‑1 (MQ=255)
                   aGCTGGCGAAACGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGAGCGGAAGACCTCGCTTACGCCCCg                                                                                                           >  1:687192/1‑143 (MQ=255)
                      tGGCGAAACGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTg                                                                                                        >  1:1014433/1‑143 (MQ=255)
                         cGAAACGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGtt                                                                                                     >  1:695703/1‑143 (MQ=255)
                          gAAACGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAGACCTCGCTTACGCCACGCTGGTtg                                                                                                    >  1:765562/1‑143 (MQ=255)
                             aCGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTtgatg                                                                                                 <  1:674360/143‑1 (MQ=255)
                               gCATCAGCACGGTGCCGGAAGCAGTAGAAATGCAGACTCGAGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACAGATCGACTGGAACGGCGCGGAAAACCTCGCATACGCAACGCTGGATGATGaa                                                                                               >  2:329706/1‑143 (MQ=255)
                                           tGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATGCCGGtt                                                                                   <  2:817751/143‑1 (MQ=255)
                                                    gggTTGTACTGCCGTCTGGCGTGGCCATGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCg                                                                          <  2:357918/141‑1 (MQ=255)
                                                       gtGAAATGCAGGCGCGCGTTGCCAAGATGTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGAGGAAGGCATTCCGGTTCGCCTGTCGGGt                                                                       <  1:19507/142‑1 (MQ=255)
                                                          aaaTGCAGTCTCGCGTTGTCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCggctcaa                                                                    >  2:279843/1‑138 (MQ=255)
                                                               gcgTCTCGCGTTGCCAAGCTTTATGGCGAGGGCCAGGCGATGGCTTCCGGTGAGAAACTGTTCGAGTGTAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTc                                                               <  2:42001/141‑1 (MQ=255)
                                                                     cgcgTTGCGAAGCTTTGTGGCGATCGCCAGGCGAGGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTcg                                                         <  2:902988/143‑1 (MQ=255)
                                                                        gTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGGTCGACTGTAGCGGTGCGGAAAACCTCGCTTACGCTATGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTCGCgg                                                      <  1:180475/143‑1 (MQ=255)
                                                                           gCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGAGAGAAACTGTGCGACTGGCGCGGTGCGGGACACCGCGCTTGCCCCACGCTGGTGGATGAAGGCAGTCCGGTTCGGCTGGCACGCGAAGACCCAGGTGGCGGtgc                                                   >  2:162961/1‑141 (MQ=255)
                                                                            ccAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGCAGACTCCGGTCGCGGTAcc                                                  >  2:652999/1‑143 (MQ=255)
                                                                            ccAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTCGCGGTAcc                                                  >  1:289541/1‑143 (MQ=255)
                                                                             cAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTGGCAGATAGGGTGCAGAGGCCGGTCGCGGTACct                                                 >  2:730318/1‑143 (MQ=255)
                                                                                  tttATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTCGCGGTACCttcttc                                            <  2:618206/143‑1 (MQ=255)
                                                                                          gctCGCCAGGCGATGGCTGCCGGTGAGACACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTGCGCAACGCTGGTTGATGAAGGCATTCCGGGTCGCCAGTCGGGTGAAGACTCCGGGCGCGGTACCCTCCTCCACCGccc                                    >  1:173760/3‑142 (MQ=255)
                                                                                                      aTGTCTGCCGGTGAGGAGCTGCGCGATCGGAGCGGTGCGGAAAGCCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTCGCGGTACCTTCTTCCACCGCCACGCGGTGATCca                        <  2:964168/143‑1 (MQ=255)
                                                                                                          cTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTCGCGGTACCTTCTTCCACCGCCACGCGGTGATCCACAAc                    >  1:463040/1‑143 (MQ=255)
                                                                                                            gCCGGCGAGAAACTGTTCGACTGGAGCGGCGCGGAACACCCCGCTCACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCCGTCGCGTGAAGACTACGGTAGCGCTACCTCATTCCCCCGCCACACGGCGACCCCccacca                  >  2:520565/1‑143 (MQ=255)
                                                                                                             ccGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTCGCGGTACCTTCTTCCACCGCCACGCGGGGATCCACAACCAg                 >  1:739910/1‑143 (MQ=255)
                                                                                                              cGGTGGGAAGCTGGTCGACTGGAGCGGTGCGGCAACCCTCGCTTATGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTCGCGGTACCTTCTTCCACCGCCACGCGGTGATCCACAACCAGt                <  2:36925/143‑1 (MQ=255)
                                                                                                              cGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTCGCGGTACCTTCTTCCACCGCCACGCGGTGATCCACAACCAGt                >  1:968980/1‑143 (MQ=255)
                                                                                                                  gagaAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGACATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTCGCGGTACCTTCTTCCACCCCCACGCGGTGATCCACAACCAGtgaaa            >  1:1071438/1‑139 (MQ=255)
                                                                                                                       aCTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTCGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTCGCGGTACCTTCTTCCACCGCCACGCGGTGATCCACAACCAGTCTAACGGtt       <  1:875550/143‑1 (MQ=255)
                                                                                                                            tCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTCGCGGTACCTTCTTCCACCGCCACGCGGTGGTCCACAACCAGTCTACCGGTTCCaat  >  1:83358/1‑141 (MQ=255)
                                                                                                                                    |                                                                                                                                      
GAGATGAAGCGCCTGCAGGAGCTGGCGAAACGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGGGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTCGCGGTACCTTCTTCCACCGCCACGCGGTGATCCACAACCAGTCTAACGGTTCCACT  >  NC_000913/760353‑760619

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A