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
A7 F1 I2 R1 94 59.5 3027142 91.9% 2781943 108.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,346,057 T→C L398P (CTG→CCG)  nrdA → ribonucleoside‑diphosphate reductase 1, alpha subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,346,0570TC96.8% 222.2 / ‑2.2 63L398P (CTG→CCG) nrdAribonucleoside‑diphosphate reductase 1, alpha subunit
Reads supporting (aligned to +/- strand):  ref base T (1/1);  new base C (30/31);  total (31/32)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.68e-01

ATCACCCTGTTCAGCCCGTCCGACGTACCGGGGCTGTACGACGCGTTCTTCGCCGATCAGGAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCTGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCT  >  NC_000913/2345921‑2346183
                                                                                                                                        |                                                                                                                              
atCACCCTGTTCAGCCCGTCCGACGTACCGGGGCTGTACGACGCGTTCTTCGCCGATCAGGAGGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGt                                                                                                                              >  2:97301/1‑139 (MQ=255)
atCACCCTGTTCAGCCCGTCCGACGTACCGGGGCTGTACGACGCGTTCTTCGCCGATCAGGAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGt                                                                                                                              >  1:304847/1‑139 (MQ=255)
atCACCCTGTTCAGCCCGTCCGACGTACCGGGGCTGTACGACGCGTTCTTCGCCGATCAGGAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGt                                                                                                                              >  2:689830/1‑139 (MQ=255)
         ttCAGCCCGTCCGACGTACCGGGGCTGTACGACGCGTTCTTCGCCGATCAGGAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCTGTTCTCGCtga                                                                                                                     >  1:560255/1‑139 (MQ=255)
         ttCAGCCCGTCCGACGTACCGGGGCTGTACGACGCGTTCTTCGCCGATCAGGAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCtga                                                                                                                     <  2:304847/139‑1 (MQ=255)
         ttCAGCCCGTCCGACGTACCGGGGCTGTACGACGCGTTCTTCGCCGATCAGGAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCtga                                                                                                                     >  1:708774/1‑139 (MQ=255)
                   ccGACGTACCGGGGCTGTACGACGCGTTCTTCGCCGATCAGGAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCtgat                                                                                                                    <  1:1244320/130‑1 (MQ=255)
                   ccGACGTACCGGGGCTGTACGACGCGTTCTTCGCCGATCAGGAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCtgat                                                                                                                    >  2:1244320/1‑130 (MQ=255)
                   ccGACGTACCGGGGCTGTACGACGCGTTCTTCGCCGATCAGGAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCtga                                                                                                                     <  2:932296/129‑1 (MQ=255)
                   ccGACGTACCGGGGCTGTACGACGCGTTCTTCGCCGATCAGGAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCtga                                                                                                                     >  1:932296/1‑129 (MQ=255)
                               ggCTGTACGACGCGTTCTTCGCCGATCAGGAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTAc                                                                                               <  2:1485485/139‑1 (MQ=255)
                               ggCTGTACGACGCGTTCTTCGCCGATCAGGAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTAc                                                                                               <  1:370129/139‑1 (MQ=255)
                                  tGTACGACGCGTTCTTCGCCGATCAGGAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAg                                                                                                             >  2:308859/1‑122 (MQ=255)
                                  tGTACGACGCGTTCTTCGCCGATCAGGAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAg                                                                                                             <  1:308859/122‑1 (MQ=255)
                                    tACGACGCGTTCTTCGCCGATCAGGAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTc                                                                                          >  2:1274587/1‑139 (MQ=255)
                                     acgacgCGTTCTTCGCCGATCAGGAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCg                                                                                         <  2:751603/139‑1 (MQ=255)
                                                        tCAGGAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGtt                                                                      <  1:689830/139‑1 (MQ=255)
                                                            gAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTa                                                                                                >  1:102420/1‑109 (MQ=255)
                                                            gAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTa                                                                                                <  2:102420/109‑1 (MQ=255)
                                                             aaGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCa                                                                 <  1:1274587/139‑1 (MQ=255)
                                                                 gTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGc                                                             >  2:656248/1‑139 (MQ=255)
                                                                  tttGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCg                                                                                         <  1:39813/110‑1 (MQ=255)
                                                                  tttGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCg                                                                                         >  2:39813/1‑110 (MQ=255)
                                                                  tttGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCg                                                                                         <  1:1309362/110‑1 (MQ=255)
                                                                  tttGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCg                                                                                         >  2:1309362/1‑110 (MQ=255)
                                                                   ttGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCaa                                                           <  2:230369/139‑1 (MQ=255)
                                                                           cTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCAATACCCATa                                                   >  2:1110003/1‑139 (MQ=255)
                                                                            tGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCTGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCAATACCCATAg                                                  <  2:560255/139‑1 (MQ=255)
                                                                            tGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTAt                                                                                      <  2:333459/103‑1 (MQ=255)
                                                                            tGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTAt                                                                                      >  1:333459/1‑103 (MQ=255)
                                                                            tGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCAATACCCATAg                                                  <  1:117151/139‑1 (MQ=255)
                                                                            tGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCAATACCCATAg                                                  <  1:999503/139‑1 (MQ=255)
                                                                                     aaTATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTAt                                                                                      <  1:1352741/94‑1 (MQ=255)
                                                                                     aaTATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTAt                                                                                      >  2:1352741/1‑94 (MQ=255)
                                                                                     aaTATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGAc                                                                   <  1:274522/113‑1 (MQ=255)
                                                                                     aaTATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGAc                                                                   >  2:274522/1‑113 (MQ=255)
                                                                                     aaTATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCAATACCCa                                                     <  1:1478594/127‑1 (MQ=255)
                                                                                     aaTATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCAATACCCa                                                     >  2:1478594/1‑127 (MQ=255)
                                                                                     aaTATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGa                                         >  2:435110/1‑139 (MQ=255)
                                                                                      atatGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGAt                                        >  2:407251/1‑139 (MQ=255)
                                                                                        atGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATcc                                      >  2:189796/1‑139 (MQ=255)
                                                                                               aGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACg                                                                        <  2:538662/98‑1 (MQ=255)
                                                                                               aGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACg                                                                        >  1:538662/1‑98 (MQ=255)
                                                                                                 acgacAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATcgc                             >  1:30691/1‑139 (MQ=255)
                                                                                                     cAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGAc                                                                   >  2:820497/1‑97 (MQ=255)
                                                                                                     cAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGAc                                                                   <  1:820497/97‑1 (MQ=255)
                                                                                                       gCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGt                       >  1:1052149/1‑139 (MQ=255)
                                                                                                          tCCGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCg                    <  2:315885/139‑1 (MQ=255)
                                                                                                           ccGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTAc                                                                                               <  2:1239769/63‑1 (MQ=255)
                                                                                                           ccGCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTAc                                                                                               >  1:1239769/1‑63 (MQ=255)
                                                                                                             gCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGc                                   >  1:870073/1‑121 (MQ=255)
                                                                                                             gCAAGCAGCGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGc                                   <  2:870073/121‑1 (MQ=255)
                                                                                                                     cGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCa                                                                             <  2:733425/71‑1 (MQ=255)
                                                                                                                     cGTGTGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCa                                                                             >  1:733425/1‑71 (MQ=255)
                                                                                                                      gtgtGAAAGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCt        <  1:189796/139‑1 (MQ=255)
                                                                                                                           aaaGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGcc   <  1:987630/139‑1 (MQ=255)
                                                                                                                            aaGCCGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCt  <  1:97301/139‑1 (MQ=255)
                                                                                                                                cGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACg                                                                        >  2:313059/1‑65 (MQ=255)
                                                                                                                                cGTTGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACg                                                                        <  1:313059/65‑1 (MQ=255)
                                                                                                                                  ttGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATc                                                                                     >  2:415107/1‑50 (MQ=255)
                                                                                                                                  ttGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATc                                                                                     <  1:415107/50‑1 (MQ=255)
                                                                                                                                  ttGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCaa                                                           <  1:921323/76‑1 (MQ=255)
                                                                                                                                  ttGAGCCGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCaa                                                           >  2:921323/1‑76 (MQ=255)
                                                                                                                                        |                                                                                                                              
ATCACCCTGTTCAGCCCGTCCGACGTACCGGGGCTGTACGACGCGTTCTTCGCCGATCAGGAAGAGTTTGAACGTCTGTATACCAAATATGAGAAAGACGACAGCATCCGCAAGCAGCGTGTGAAAGCCGTTGAGCTGTTCTCGCTGATGATGCAGGAACGTGCGTCTACCGGTCGTATCTATATTCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCT  >  NC_000913/2345921‑2346183

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A