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
A10 F1 I1 R1 14 23.9 1506608 98.1% 1477982 76.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA REL606 4,202,595 T→C intergenic (‑36/‑164) iclR ← / → metH DNA‑binding transcriptional repressor/B12‑dependent methionine synthase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*REL6064,202,5950TC100.0% 60.3 / NA 16intergenic (‑36/‑164)iclR/metHDNA‑binding transcriptional repressor/B12‑dependent methionine synthase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (13/3);  total (13/3)

GGTTTTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTATTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACAAATCT  >  REL606/4202522‑4202661
                                                                         |                                                                  
ggTTTTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAAtcatttcca                                                                  >  2:678648/1‑76 (MQ=255)
   tttCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAAtcatttccattt                                                               <  1:479114/76‑1 (MQ=255)
     tCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTCCAttttt                                                             >  1:341141/1‑76 (MQ=255)
         ccGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTCCATTTTTATTg                                                         >  2:67806/1‑76 (MQ=255)
                          gggTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTCTATTTTTATTGTTAGCTAATGCAATAGt                                        >  1:167576/1‑76 (MQ=255)
                            gTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTCCATTTTTATTGTTAGCTAATGCAATAGTTg                                      >  1:342164/1‑76 (MQ=255)
                              gCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTCCATTTTTATTGTTAGCTAATGCAATAGTTGCt                                    >  2:236059/1‑76 (MQ=255)
                                  ccATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTCCATTTTTATTGTTAGCTAATGCAATAGTTGCTGAAc                                >  1:638313/1‑76 (MQ=255)
                                       aCAGTCTCCTTTTTCTGTATCGTGGAAATCATTTCCATTTTTATTGTTAGCTAATGCAATAGTTGCTGAACTGATc                           <  2:562048/76‑1 (MQ=255)
                                         aGTCTCCTTTTTCTGTATCGTGGAAATCATTTCCATTTTTATTGTTAGCTAATGCAATAGTTGCTGAACTGATCCg                         <  2:661907/76‑1 (MQ=255)
                                            ctcCTTTTTCTGTATCGTGGAAATCATTTCCATTTTTATTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATg                      >  1:164982/1‑76 (MQ=255)
                                             tcCTTTTTCTGTATCGTGGAAATCATTTCCATTTTTATTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGa                     <  2:358395/76‑1 (MQ=255)
                                              ccTTTTTCTGTATCGTGGAAATCATTTCCATTTTTATTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAg                    >  2:680889/1‑76 (MQ=255)
                                               cTTTTTCTGTATCGTGGAAATCATTTCCATTTTTATTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGt                   >  2:549560/1‑76 (MQ=255)
                                                       gTATCGTGGAAATCATTTCCATTTTTATTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTg           >  1:274502/1‑76 (MQ=255)
                                                        tATCGTGGAAATCATTTCCATTTTTATTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGa          >  1:733160/1‑76 (MQ=255)
                                                          tCGTGGAAATCATTTCCACTTTTATTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAAc        >  1:328017/1‑76 (MQ=255)
                                                                aaaTCATTTCCATTTTTATTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACAAAtct  >  2:464887/1‑76 (MQ=255)
                                                                         |                                                                  
GGTTTTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTATTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACAAATCT  >  REL606/4202522‑4202661

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A