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
A23 F67 I0 R1 35 27.8 1096780 91.1% 999166 142.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 674,768 G→T 100% R6S (CGC→AGC)  leuS ← leucine‑‑tRNA ligase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913674,7680GT100.0% 76.5 / NA 28R6S (CGC→AGC) leuSleucine‑‑tRNA ligase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (15/13);  total (15/13)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

CATGTGTAGTCGACCAGAAGGATAGGGAAGCATAGACAGGCAGTAATACTTCTCTTTGCTCTCGTCTTCGGTTACTTCAAATGTGCGCTTCTCATCCCAATGAAG‑CTGTACTTTGGATTCTATCTCTTCCGGGCGGTATTGCTCTTGCATGGCAGCCAGTGGTCCTGTTTTCAATACGGCTACAAATGTAGCGTTGAGGTGGTTTTTCAGATCCGCATAGCATAGCCCAAACGTCCGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGAAA  >  NC_000913/674634‑674905
                                                                                                                                       |                                                                                                                                         
cATGTGTAGTCGACCAGAAGGATAGGGAAGCATAGACAGGCAGTAATACTTCTCTTTGCTCTCGTCTTCGGTTACTTCAAATGTGCGCTTCTCATCCCAATGAAG‑CTGTACTTTGGATTCTATCTCTTCCGGGCTGTATTGct                                                                                                                                   >  2:496432/1‑143 (MQ=255)
      tAGTCGACCAGAAGGATAGGGAAGCATAGACATGCGGGGATACTTCTCTTTGCTCTCGTCTTCGGTTACTGCAAATGTGCGCTTCTCATCCCAATAAAG‑ATGTACTTTGGCTTCTATCTCTTCCGGGCTGTATTGCTCTTGcg                                                                                                                             >  2:193976/1‑142 (MQ=255)
      tAGTCGACCAGAAGGATAGGGAAGCATAGACAGGCAGTAATACTTCTCTTTGCTCTCGTCTTCGGTTACTTCTAATGGGCGCAAAT‑AACTCAAGCATGTCTGTACTTTGGATTCTATCTCTTCCGCGCTGTATTGCTATTGCa                                                                                                                             >  2:532213/1‑143 (MQ=255)
      tAGTCGACCAGAAGGATAGGGAAGCATAGACAGGCAGTAATACTTCTCTTTGCTCTCGTCTTCGGTTACTTCAATTGTGCGCTTCTCATCCCAATGCAG‑CTGTACTCTGGATTCTATCTCTTCCGGGCTGTATTGCTCTTGcg                                                                                                                             >  2:261228/1‑142 (MQ=255)
      tAGTCGACCAGAAGGATAGGGAAGCATAGACAGGCAGTAATACTTCTCTTTGCTCTCGTCTTCGGTTACTTCAAATGTGCGCTTCTCATCCCAATGAAG‑CCGAAGTATAGATTCTATCTCTTACGGGCTGTATTGCCCTCGcc                                                                                                                             >  2:239368/1‑142 (MQ=255)
            aCCAGAAGGATAGGGAAGCATAGACAGGCAGTAATACTTCTCTTTGCTCTCGTCTTCGGTTACTTCAAATGTGCGCTTCTCATCCCAATGAAG‑CTGTACTTTGGATTCTATCTCTTCCGGGCTGTATTGCTCTTGCATGGCAg                                                                                                                       >  1:193812/1‑143 (MQ=255)
                  aGGATAGGTAAGCATAGACAGGCAGTACTCCTCCACTTTGTTCGCGTCTGCGGTTACTTCAAATGTGCGCTTCTCATCCCAATGAAG‑CTGTACTTTGGATTCTATCTCTTCCGGGCTGTATTGCTCTTGCATGGCAGCCAGTg                                                                                                                 <  2:357052/143‑1 (MQ=255)
                                            actACTTCTCTTTGCCCTCGTCTTCTGTTACTTCAAATGTGCGCTTCTCATCCCAATGAAT‑CTGTACTTTGGATTCTATCTCTTCCGTGCTGTATTGCTCTTGCATGGCAGCCATTGGTCCTGTTTTCAATACGGCTACAAAt                                                                                       <  2:338527/141‑1 (MQ=255)
                                                      ttttCTCTCGTCTTCGGTTACGTCAAATGTGCGCTTCTCATCCCAATGAAG‑CTGTTCTTTGGATTCTATCTCTTCCGGGCTGTATTGCTCTTGCATGGCAGCCAGTGGTCCTGTTTTCAATACGGCTACAAATGTAGCGTTGa                                                                             <  2:182454/143‑1 (MQ=255)
                                                      tttGCTCTCGTCTTCGGTTACTTCAAATGTGCGCTTCTCATCCCAATGAAG‑CTGTACTTTGGATTCTATCTCTTCCGGGCTGTATTGCTCTTGCATGGCAGCCAGGGGTCCTGTTTTCAATACGGCCAAAAATGTAGGGCTGa                                                                             >  2:281199/1‑143 (MQ=255)
                                                                tCTGCGGTTACTTCAAATGTGCGCTTCTCATCCCAATGAAG‑CTGTACTTTGGATTCTATCTCTTCCGGGCTGTATTGCTCTTGCATGGCAGCCAGTGGTCCTGTTTTCAATACGGCTACAAATGTAGCGTTGAGGTGGttttt                                                                   <  2:288427/143‑1 (MQ=255)
                                                                 cTTCGGTTCCTTCTAACGTGCGCTTCTCCTCCCGATGTAG‑CTGTACTTTGGATTCTATCTCTTCCGGGCTGGATTGCTCTTGCATGGCAGCCAGTGGTCCTGTTTTCAATACGGCTACAAATGTAGCGTTGAGGTGGTTTTTc                                                                  <  2:352893/143‑1 (MQ=255)
                                                                    cGGTTACTTCAAATGTGCGCTTCTAATCCCAATGAAG‑CTGTACTTTGGATTCTATCTCTTCCGGGCTCTATTGCTCTTGCATGGCAGCCAGCGGACCTGTTTCCAATACGGATACAAATGTGACGTTGAGATGATGTTACAGa                                                               >  2:289345/1‑143 (MQ=255)
                                                                           ttCAAATGTGCGCTTCTCATCCCAATGAAG‑CTGTACTTTGGCTTCTATCTCTTCCGGGCTGTATTGCTCTTGCATGGCAGCCAGCGGTCCTGTTTTCAATACGGCTACAAATGTAGCGCTGAGGTCGTTTTTCAGCTCCccat                                                        >  1:430679/1‑143 (MQ=255)
                                                                           ttCAAATGTGCGCTTCTCATCCCAATGAAG‑CTGTACTTTGGATTCTATCTCTTCCGGGCTGTATTGCTCTTGCATGGCAGCCAGTGGTCCTGTTTTCAATACGGCTACAAATGTAGCGTTGAGGTGGTTTTTCAGATCCgcat                                                        <  1:368685/143‑1 (MQ=255)
                                                                           ttCAAATGTGCGCTTCTCATCCCAATGAAG‑CTGTACTTTGGATTCTATCTCTTCCGGGCTGTATTGCTCTTGCATGGCAGCCAGTGGTCCTGTTTTCAATACGGCTACAAATGTAGCGTTGAGGTGGTTTTTCAGATCCgcat                                                        >  1:40368/1‑143 (MQ=255)
                                                                            tCAAATGTGCGCTTCTCATCCCAATGAAG‑CTGTACTTTGGATTCTATCGCTTCCGGGCTGTATTGCTCTTGCATGGCAGCCAGTGGTCCTGTTTTCAATACGGCTACACATGTAGCGTTGAGGTGGTTTTTCAGATCCgcata                                                       <  2:494191/143‑1 (MQ=255)
                                                                               agtgtgGGCTTGTCAGCGCAATGAAG‑CTGTACTTTGGGTTCTATCTCTTCCGGGCTGTATTGCTCTTGCATGGCAGCGAGTGGTCCTGTTTTCAATACGGCTACAAATGTAGCGTTGAGGTGGTTTTTCAGATCCgcatagca                                                    <  2:46748/141‑1 (MQ=255)
                                                                                     cgcgTCTCATCCCAATGAAG‑CTGTACTGTGGATTCTATCTCTTCCGGGCTGTATTGCTCGGGCATGGCAGCCAGTGGTCCTGTTTTCAATACGGCTACAAATGTAGCGTTGAGGTGGTTTTTCAGATCCGCATAGCATAGccc                                              <  2:62608/143‑1 (MQ=255)
                                                                                              tCCCATTGAAG‑CGCTACTTTGGATTCTCTCTCTTCCGGGCTGTATTGCTCTTGCATGGCAGCCAGTGGTCCTGTGTTCAATACGGCTACAAATGTAGCGTTGAGGTGGTTTTTCAGATCCGCATAGCATAGCCCAAACGTCcg                                     <  1:535819/143‑1 (MQ=255)
                                                                                                          cTGTACTTTGGATTCTATCTCTTCCGGGCTGTATTGCTCTTGCATCCACGACATTCCTCCTGTTTTCAATACGGCTACAAATGAACCGCCAAGGCGTTTTTTCAGACCCGCATCGCATGCCCCGAGCGTCCGCGACTCAACAg                          >  2:503381/1‑143 (MQ=255)
                                                                                                                tttGGATTCTATCTCTTCCGGGCTGTATTGCTCTTGCATGGCAGCCAGTGGTCCTGTTTTCAATACGGCTACAAATGTAGCGGTGAGGTGGTTTTTCAGATCCGCATAGCATAGCCCCAACGTCCGCGTCCAAACAGCCTTTc                    >  2:44798/1‑143 (MQ=255)
                                                                                                                  ttgATTCTTGCTATTCCGTGTTGTATGGCTCTTGGATGGCAGGCGGTGTTCCTGTTTTCAATACGGCTACAATGGTAGCGTTGAGGTGGTTTTTCAGATCTGCATAGCATAGCTCAAGCGTCCGCGTCAAAACAGCGTTTcgc                  <  2:337067/141‑1 (MQ=255)
                                                                                                                             tctTCCGGGCTGTATTGCTCTTGCATGGCAGCCAGTGGTCCTGTTTTCAATACGGCTACAAATGTAGCGTTGAGGTGGTTTGTCAGATCCGCATAGCATAGCCCAAACGTCCGCGTCAAAACAGCCTGTGGGGCACTGGACgg       >  1:155632/1‑142 (MQ=255)
                                                                                                                               ttCCGGGCTGTATTGCTCTTGCATGGCAGCCAGTGGTCCTGTTTTCAATACGGCTACAACTGTAGCGTTGAGGTGGTTTTTCAGATCCGCATAGCATAGCCCGAACGTCCGCGTCAAAACAGCCTTTCGTGCACTCGACGGTg     >  1:98058/1‑143 (MQ=255)
                                                                                                                                 ccGGGCTGTATTGCTCTTGCATGGCAGCCAGTGGTCCTGTTTTCAATACGGCTACAAATGTAGCGTTGAGGTGGGTTTTCAGATCCGCATAGCATAGCCCAAACGTCCGCGACAAAACAGCCTTTCGAGCACTCGACGGTGaa   >  2:457557/1‑143 (MQ=255)
                                                                                                                                  cGGGCTGTATTGCTCTTGCATGGCAGCCAGTGGTCCTGTTTTCAATACGGCTACAAATGTAGCGTTGAGGTGGTTTTTCAGATCCGCATAGCATAGCCCAAACGTCCGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGaaa  <  1:454208/143‑1 (MQ=255)
                                                                                                                                  cGGGCTGTATTGCTCTTGCATGGCAGCCAGTGGTCCTGTTTTCAATACGGCTACAAATGTAGCGTTGAGGTGGTTTTTCAGATCCGCATAGCATAGCCCAAACGTCCGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGaaa  <  1:454481/143‑1 (MQ=255)
                                                                                                                                       |                                                                                                                                         
CATGTGTAGTCGACCAGAAGGATAGGGAAGCATAGACAGGCAGTAATACTTCTCTTTGCTCTCGTCTTCGGTTACTTCAAATGTGCGCTTCTCATCCCAATGAAG‑CTGTACTTTGGATTCTATCTCTTCCGGGCGGTATTGCTCTTGCATGGCAGCCAGTGGTCCTGTTTTCAATACGGCTACAAATGTAGCGTTGAGGTGGTTTTTCAGATCCGCATAGCATAGCCCAAACGTCCGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGAAA  >  NC_000913/674634‑674905

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