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
A97 F1 I1 R1 18 21.9 1431356 95.6% 1368376 76.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA REL606 3,145,853 G→A intergenic (+184/‑11) dnaG → / → rpoD DNA primase/RNA polymerase sigma factor

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*REL6063,145,8530GA100.0% 70.9 / NA 19intergenic (+184/‑11)dnaG/rpoDDNA primase/RNA polymerase sigma factor
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (8/11);  total (8/11)

GGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAACTTCTTGTCACCCGTGGTAAGGAGCAAGGCTA  >  REL606/3145784‑3145925
                                                                     |                                                                        
ggATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGAATACCg                                                                    <  1:95601/76‑1 (MQ=255)
   tttCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGAATACCGTCt                                                                 <  2:174227/76‑1 (MQ=255)
     tCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGAATACCGTCTTa                                                               <  1:659549/76‑1 (MQ=255)
       aGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGAATACCGTCTTATg                                                             <  1:257003/76‑1 (MQ=255)
        gCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGATTACCGTCTTATgg                                                            <  1:471843/76‑1 (MQ=255)
        gCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGAATACCGTCTTATgg                                                            <  2:689096/76‑1 (MQ=255)
                     aaGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGAATACCGTCTTATGGAGCAAAACCCGCa                                               >  1:41067/1‑76 (MQ=255)
                        gACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGAATACCGTCTTATGGAGCAAAACCCGCAGTc                                            <  1:11608/76‑1 (MQ=255)
                        gACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGAATACCGTCTTATGGAGCAAAACCCGCAGTc                                            <  2:494527/76‑1 (MQ=255)
                        gACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGAATACCGTCTTATGGAGCAAAACCCGCAGTc                                            >  2:594312/1‑76 (MQ=255)
                          cATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGAATACCGTCTTATGGAGCAAAACCCGCAGTcac                                          <  2:20522/76‑1 (MQ=255)
                           aTCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGAATACCGTCTTATGGAGCAAAACCCGCAGTcaca                                         >  1:393871/1‑76 (MQ=255)
                                  cAATCGCCCAACACCAACCTCATGAAATAAGTGTGAATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGaaa                                  <  1:410518/76‑1 (MQ=255)
                                           aaCACCAACCTCATGAAATAAGTGTGAATACCGTCTTATGGAGCAAACCCCGCAGTCACAGCTGAAACTTCTTGTc                         >  1:552664/1‑76 (MQ=255)
                                           aaCACCAACCTCATGAAATAAGTGTGAATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAACTTCTTGTc                         >  2:167627/1‑76 (MQ=255)
                                           aaCACCAACCTCATGAAATAAGTGTGAATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAACTTCTTGTc                         >  2:421104/1‑76 (MQ=255)
                                                   ccTCATGAAATAAGTGTGAATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAACTTCTTGTCACCCGTgg                 >  1:703571/1‑76 (MQ=255)
                                                          aaaTAAGTGAGAATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAACTTCTTGTCACCCGTGGTAAGGAg          >  2:210410/1‑76 (MQ=255)
                                                                  gtgAATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAACTTCTTGTCACCCGTGGTAAGGAGCAAGGCTa  <  2:595879/76‑1 (MQ=255)
                                                                     |                                                                        
GGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAACTTCTTGTCACCCGTGGTAAGGAGCAAGGCTA  >  REL606/3145784‑3145925

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A