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
A1 F1 I2 R1 65 21.2 1002576 96.5% 967485 111.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,461,176 A→G D95G (GAC→GGC)  paaJ → 3‑oxoadipyl‑CoA/3‑oxo‑5,6‑dehydrosuberyl‑CoA thiolase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,461,1760AG100.0% 60.9 / NA 18D95G (GAC→GGC) paaJ3‑oxoadipyl‑CoA/3‑oxo‑5,6‑dehydrosuberyl‑CoA thiolase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (10/8);  total (10/8)

GTGATCCTCGGCTGTGCTAATCAGGCGGGAGAAGATAACCGTAACGTAGCCCGGATGGCGACTTTACTGGCGGGGCTGCCGCAGAGTGTTTCCGGCACAACCATTAACCGCTTGTGTGGTTCCGGGCTGGACGCACTGGGGTTTGCCGCACGGGCGATTAAAGCGGGCGATGGCGATTTGCTGATCGCCGGTGGCGTGGAGTCAATGTCACGGGCACCGTTTGTTATGGGCAAGGCAGCCAGTGCATTTTCTCGT  >  NC_000913/1461046‑1461300
                                                                                                                                  |                                                                                                                            
gtgATCCTCGGCTGTGCTAATCAGGCGGGAGAAGATAACCGTAACGTAGCCCGGATGGCGACTTTACTGGCGGGGCTGCCGCAGAGTGTTTCCGGCACAACCATTAACCGCTTGTGTGGTTCCGGGCTGGGCGCACTgg                                                                                                                      >  2:330028/1‑139 (MQ=255)
        cGGCTGTGCTAATCAGGCGGGAGAAGATAACCGTAACGTAGCCCGGATGGCGACTTTACTGGCGGGGCTGCCGCAGAGTGTTTCCGGCACAACCATTAACCGCTTGTGTGGTTCCGGGCTGGGCGCACTGGGGTTTGcc                                                                                                              >  2:256672/1‑139 (MQ=255)
              tgCTAATCAGGCGGGAGAAGATAACCGTAACGTAGCCCGGATGGCGACTTTACTGGCGGGGCTGCCGCAGAGTGTTTCCGGCACAACCATTAACCGCTTGTGTGGTTCCGGGCTGGGCGCACTGGGGTTTGCCGCACgg                                                                                                        >  2:246629/1‑139 (MQ=255)
                           ggAGAAGATAACCGTAACGTAGCCCGGATGGCGACTTTACTGGCGGGGCTGCCGCAGAGTGTTTCCGGCACAACCATTAACCGCTTGTGTGGTTCCGGGCTGGGCGCACTGGGGTTTGCCGCACGGGCGATTAAAGCgg                                                                                           >  2:98692/1‑139 (MQ=255)
                                            cGTAGCCCGGATGGCGACTTTACTGGCGGGGCTGCCGCAGAGTGTTTCCGGCACCACCATTAACCGCTTGTGTGGTTCCGGGCTGGGCGCACTGGGGTTTGCCGCACGGGCGATTAAAGCGGGCGATGGCGATTTGCTg                                                                          >  1:115734/1‑139 (MQ=255)
                                               aGCCCGGATGGCGACTTTACTGGCGGGGCTGCCGCAGCGTGTTTCCGGCACAACCATTAACCGCTTGTGTGGTTCCGGGCTGGGCGCACTGGGGTTTGCCGCACGGGCGATTAAAGCGGGCGATGGCGGTTTGCTGATc                                                                       >  1:12040/1‑139 (MQ=255)
                                                                   tGGCGGGGCTGCCGCAGAGTGTTTCCGGCACAACCATTAACCGCTTGTGTGGTTCCGGGCTGGGCGCACTGGGGTTTGCCGCACGGGCGATTAAAGCGGGCGATGGCGATTTGCTGATCGCCGGTGGCGTGGAGTCAAt                                                   <  1:98692/139‑1 (MQ=255)
                                                                        gggCTGCCGCAGAGTGTTTCCGGCACAACCATTAACCGCTTGTGTGGTTCCGGGCTGGGCGCACTGGGGTTTGCCGCACGGGCGATTAAAGCGGGCGATGGCGATTTGCTGATCGCCGGTGGCGTGGAGTCAATGTCAc                                              >  2:34549/1‑139 (MQ=255)
                                                                         ggCTGCCGCAGAGTGTTTCCGGCACAACCATTAACCGCTTGTGTGGTTCCGGGCTGGGCGCACTGGGGTTTGCCGCACGGGCGATTAAAGCGGGCGATGGCGATTTGCTGATCGCCGGTGGCGTGGAGTCAATGTCACg                                             <  1:256672/139‑1 (MQ=255)
                                                                          gCTGCCGCAGAGTGTTTCCGGCACAACCATTAACCGCTTGTGTGGTTCCGGGCTGGGCGCACTGGGGTTTGCCGCACGGGCGATTAAAGCGGGCGATGGCGATTTGCTGATCGCCGGTGGCGTGGAGTCAATGTCACgg                                            >  1:115518/1‑139 (MQ=255)
                                                                           cTGCCGCAGAGTGTTTCCGGCACAACCATTAACCGCTTGTGTGGTTCCGGGCTGGGCGCACTGGGGTTTGCCGCACGGGCGATTAAAGCGGGCGATGGCGATTTGCTGATCGCCGGTGGCGTGGAGTCAATGTCACggg                                           <  2:115734/139‑1 (MQ=255)
                                                                                 cAGAGTGTTTCCGGCACAACCATTAACCGCTTGTGTGGTTCCGGGCTGGGCGCACTGGGGTTTGCCGCACGGGCGATTAAAGCGGGCGATGGCGATTTGCTGATCGCCGGTGGCGTGGAGTCAATGTCACGGGCACCGt                                     <  1:330028/139‑1 (MQ=255)
                                                                                                     cATTAGCCGCTTGTGTGGTTCCGGGCTGGGCGCACTGGGGTTTGCCGCACGGGCGATTAAAGCGGGCGATGGCGATTTGCTGATCGCCGGTGGCGTGGAGTCAATGTCACGGGCACCGTTTGTTATGGGCAAGGCAGcc                 <  1:472352/139‑1 (MQ=255)
                                                                                                              cTTGTGTGGTTCCGGGCTGGGCGCACTGGGGTTTGCCGCACGGGCGATTAAAGCGGGCGATGGCGATTTGCTGATCGCCGGTGGCGTGGAGTCAATGTCACGGGCACCGt                                     >  1:460783/1‑110 (MQ=255)
                                                                                                              cTTGTGTGGTTCCGGGCTGGGCGCACTGGGGTTTGCCGCACGGGCGATTAAAGCGGGCGATGGCGATTTGCTGATCGCCGGTGGCGTGGAGTCAATGTCACGGGCACCGt                                     <  2:460783/110‑1 (MQ=255)
                                                                                                              cTTGTGTGGTTCCGGGCTGGGCGCACTGGGGTTTGCCGCACGGGCGATTAAAGCGGGCGATGGCGATTTGCTGATCGCCGGTGGCGTGGAGTCAATGTCACGGGCACCGTTTGTTATGGGCAAGGCAGCCAGTGCAttt        >  2:48039/1‑139 (MQ=255)
                                                                                                                   gtgGTTCCGGGCTGGGCGCACTGGGGTTTGCCGCACGGGCGATTAAAGCGGGCGATGGCGATTTGCTGATCGCCGGTGGCGTGGAGTCAATGTCACGGGCACCGTTTGTTATGGGCAAGGCAGCCAGTGCATTTTCTCg   <  1:246629/139‑1 (MQ=255)
                                                                                                                    tgGTTCCGGGCTGGGCGCACTGGGGTTTGCCGCACGGGCGATTAAAGCGGGCGATGGCGATTTGCTGATCGCCGGTGGCGTGGAGTCAATGTCACGGGCACCGTTTGTTATGGGCAAGGCAGCCAGTGCATTTTCTCGt  <  1:34549/139‑1 (MQ=255)
                                                                                                                                  |                                                                                                                            
GTGATCCTCGGCTGTGCTAATCAGGCGGGAGAAGATAACCGTAACGTAGCCCGGATGGCGACTTTACTGGCGGGGCTGCCGCAGAGTGTTTCCGGCACAACCATTAACCGCTTGTGTGGTTCCGGGCTGGACGCACTGGGGTTTGCCGCACGGGCGATTAAAGCGGGCGATGGCGATTTGCTGATCGCCGGTGGCGTGGAGTCAATGTCACGGGCACCGTTTGTTATGGGCAAGGCAGCCAGTGCATTTTCTCGT  >  NC_000913/1461046‑1461300

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A