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 F56 I1 R1 155 65.2 3164312 95.9% 3034575 99.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,436,937 A→T D305E (GAT→GAA)  pdxB ← erythronate‑4‑phosphate dehydrogenase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,436,9370AT98.7% 255.0 / NA 74D305E (GAT→GAA) pdxBerythronate‑4‑phosphate dehydrogenase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  major base T (31/42);  minor base C (0/1);  total (31/43)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ATCGAACTCACCCGGTATCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGATCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTCATGCCCAATAAACTTGCTATAA  >  NC_000913/2436841‑2437033
                                                                                                |                                                                                                
aTCGAACTCACCCGGTATCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCg                                                                                               <  2:562861/100‑1 (MQ=255)
  cGAACTCACCCGGTATCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAg                                                                                             >  2:1262982/1‑100 (MQ=255)
   gAACTCACCCGGTATCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGc                                                                                            >  2:220676/1‑100 (MQ=255)
   gAACTCACCCGGTATCCCGGCGACTTAACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGc                                                                                            >  1:960721/1‑100 (MQ=255)
    aaCTCACCCGGTATCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCg                                                                                           >  1:686942/1‑100 (MQ=255)
     aCTCACCCGGTATCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGc                                                                                            >  2:680554/1‑98 (MQ=255)
      cTCACCCGGTATCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCggg                                                                                         >  1:714596/1‑100 (MQ=255)
      cTCACCCGGTATCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCggg                                                                                         >  1:1126544/1‑100 (MQ=255)
       tCACCCGGTATCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGc                                                                                        <  1:939756/100‑1 (MQ=255)
       tCACCCGGTATCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGc                                                                                        <  1:975795/100‑1 (MQ=255)
         caccGGTATCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAAAGCCCCCGCCTTTTCAGCGTCGGTTGTTCGAGCGGGcc                                                                                       >  2:654604/3‑99 (MQ=255)
         aCCCGGTATCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCa                                                                                      >  2:1494684/1‑100 (MQ=255)
            cGGTATCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGc                                                                                   <  2:813312/100‑1 (MQ=255)
            cGGTATCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGc                                                                                   >  1:1033414/1‑100 (MQ=255)
            cGGTATCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAAAGCACCAGACTTTTCAGCGTCGGCTGTTCGAGCGGACAATGc                                                                                   >  2:801321/1‑100 (MQ=255)
              gTATCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAg                                                                                 <  1:476059/100‑1 (MQ=255)
                aTCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAAGTCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCg                                                                               <  2:1504827/100‑1 (MQ=255)
                 tCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGt                                                                              <  2:332952/100‑1 (MQ=255)
                 tCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGt                                                                              >  1:260523/1‑100 (MQ=255)
                     ggCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATg                                                                          <  2:337065/100‑1 (MQ=255)
                        gACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGa                                                                       >  1:1413457/1‑100 (MQ=255)
                         aCTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGAc                                                                      <  2:311308/100‑1 (MQ=255)
                           tttACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCa                                                                    <  2:1580909/100‑1 (MQ=255)
                           tttACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCa                                                                    <  2:1578466/100‑1 (MQ=255)
                            ttACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCaa                                                                   >  1:419829/1‑100 (MQ=255)
                            ttACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCaa                                                                   <  1:317814/100‑1 (MQ=255)
                            ttACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCaa                                                                   <  2:99679/100‑1 (MQ=255)
                                 cAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAActct                                                              >  1:990591/1‑100 (MQ=255)
                                 cAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAActct                                                              <  2:1569524/100‑1 (MQ=255)
                                 cAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAActct                                                              <  2:1255134/100‑1 (MQ=255)
                                    cGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGgc                                                           <  1:1262987/100‑1 (MQ=255)
                                     ggTGCGTCATCGCGGCGCACATCATACTCCAAATGCACCAGCCTTTTCAGCTTCGGTTGTTCGAGCGGTTCATGCAGCGTAATGCGACCAAACTCTGgcg                                                          <  2:387819/100‑1 (MQ=255)
                                        gCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCgcag                                                       <  1:987899/100‑1 (MQ=255)
                                        gCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCgcag                                                       <  1:1446659/100‑1 (MQ=255)
                                          gccATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCgcaggc                                                     <  2:960716/98‑1 (MQ=255)
                                            cATCGCGGCGCAGATCATACACCAAGTGCGCCAGCCTTTTCAGCGTCGGTTGTTCGGCCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCgcaggca                                                    <  2:862953/99‑1 (MQ=255)
                                               cgcgGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTaa                                                >  1:60709/1‑100 (MQ=255)
                                               cgcgGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTaa                                                >  1:600997/1‑100 (MQ=255)
                                               cgcgGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTaa                                                <  2:438329/100‑1 (MQ=255)
                                                 cggcgCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATg                                              <  2:840967/100‑1 (MQ=255)
                                                  ggcgCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGt                                             <  2:1379632/100‑1 (MQ=255)
                                                   gcgcACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTa                                            <  1:1046497/100‑1 (MQ=255)
                                                    cgcACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTAt                                           <  1:1207736/100‑1 (MQ=255)
                                                       acaTCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCa                                        >  2:1300044/1‑100 (MQ=255)
                                                        catcatACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAg                                       <  2:641287/100‑1 (MQ=255)
                                                             tACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCaa                                  >  1:1025850/1‑100 (MQ=255)
                                                             tACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCaa                                  >  1:10149/1‑100 (MQ=255)
                                                              acacCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAAc                                 >  2:50448/1‑100 (MQ=255)
                                                               cacCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACg                                >  2:632013/1‑100 (MQ=255)
                                                                acCAAATGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGAGCAACGt                               >  1:1565548/1‑100 (MQ=255)
                                                                   aaaTGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTGTCCAGCGCAACGTGCt                            >  2:925385/1‑100 (MQ=255)
                                                                   aaaTGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAgcacgttgcgct                            <  1:1080331/100‑11 (MQ=255)
                                                                   aaaTGCACCAGCCTTTTCAGCGTCGATTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCt                            >  2:595609/1‑100 (MQ=255)
                                                                    aaTGCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTg                           <  1:1249531/100‑1 (MQ=255)
                                                                       gCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTc                        <  2:1033408/100‑1 (MQ=255)
                                                                       gCACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTc                        <  1:294667/100‑1 (MQ=255)
                                                                        cACCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTCa                       >  2:751226/1‑100 (MQ=255)
                                                                         aCCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTCAt                      >  1:321998/1‑100 (MQ=255)
                                                                         aCCAGCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTCAt                      <  1:333896/100‑1 (MQ=255)
                                                                             gCCTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTCATGccc                  <  2:856124/100‑1 (MQ=255)
                                                                              ccTTTTCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTCATGCCCa                 <  2:1521405/100‑1 (MQ=255)
                                                                                ttttCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTCATGCCCAAt               <  2:507264/100‑1 (MQ=255)
                                                                                ttttCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTCATGCCCAAt               <  1:1048244/100‑1 (MQ=255)
                                                                                 tttCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTCATGCCCAAt               >  1:1191745/1‑99 (MQ=255)
                                                                                 tttCAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTCATGCCCAATa              <  1:220676/100‑1 (MQ=255)
                                                                                    cAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTCATGCCCAATAAAc           >  1:681234/1‑100 (MQ=255)
                                                                                    cAGCGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTCATGCCCAATAAAc           <  2:1504010/100‑1 (MQ=255)
                                                                                       cGTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTCATGCCCAATAAACTTg        <  1:440041/100‑1 (MQ=255)
                                                                                        gTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTCATGCCCAATAAACTTGc       >  1:688559/1‑100 (MQ=255)
                                                                                        gTCGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTCATGCCCAATAAACTTGc       <  1:934991/100‑1 (MQ=255)
                                                                                          cGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTCATGCCCAATAAACTTGCta     <  1:632015/100‑1 (MQ=255)
                                                                                          cGGTTGTTCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTCATGCCCAATAAACTTGCta     <  2:1174678/100‑1 (MQ=255)
                                                                                            gTTGCTCGAGCGGGCCATGCAGCGTAATGCGACCAAACACTGTCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTCATGCCCAATAAACTTGCtata   <  2:793504/100‑1 (MQ=255)
                                                                                             ttGTTCGTGCGAGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGAAACGTGCTGTTCATGCCCAATAAACTTGCTATaa  >  2:830700/1‑100 (MQ=255)
                                                                                                |                                                                                                
ATCGAACTCACCCGGTATCCCGGCGACTTTACGCAGCGGTGCGTCATCGCGGCGCACATCATACACCAAATGCACCAGCCTTTTCAGCGTCGGTTGATCGAGCGGGCCATGCAGCGTAATGCGACCAAACTCTGGCGCAGGCAGTAATGTATCCAGCGCAACGTGCTGTTCATGCCCAATAAACTTGCTATAA  >  NC_000913/2436841‑2437033

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A