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 I2 R1 757 38.1 1607544 96.5% 1551279 117.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,726,622 G→A *200* (TAG→TAA)  nemR → transcriptional repressor for the nemRA‑gloA operon, quinone‑, glyoxal‑, and HOCl‑activated

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,726,6220GA100.0% 57.4 / NA 19*200* (TAG→TAA) nemRtranscriptional repressor for the nemRA‑gloA operon, quinone‑, glyoxal‑, and HOCl‑activated
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (9/10);  total (9/10)

ACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAGCAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCAAACCGTATTTTTATGGCACCGCTGACGCGTCTGCGCAG  >  NC_000913/1726513‑1726750
                                                                                                             |                                                                                                                                
aCGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCggg                                                                                                     <  1:184507/139‑1 (MQ=255)
        tgGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTa                                                                                             >  2:50496/1‑139 (MQ=255)
                cgcgAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCt                                                                                     >  1:321292/1‑139 (MQ=255)
                        tGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACt                                                                             <  2:725329/139‑1 (MQ=255)
                                              tttCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCggg                                                                                                     >  2:681695/1‑93 (MQ=255)
                                              tttCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCggg                                                                                                     <  1:681695/93‑1 (MQ=255)
                                                                                 aaaaCATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTc                                                                                         <  1:773770/70‑1 (MQ=255)
                                                                                 aaaaCATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTc                                                                                         >  2:773770/1‑70 (MQ=255)
                                                                                       ttattGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCAAACCGTATTTTTATGGCACCGCTGAc              >  2:269836/1‑139 (MQ=255)
                                                                                        tattGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCAAACCGTATTTTTATGGCACCGCTGAcg             >  2:463929/1‑139 (MQ=255)
                                                                                        tattGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCAAACCGTATTTTTATGGCACCGCTGAcg             >  1:30177/1‑139 (MQ=255)
                                                                                              gACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCAAACCGTATTTTTATGGCACCGCTGACGCGTCTg       <  1:50496/139‑1 (MQ=255)
                                                                                              gACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCAAACCGTATTTTTATGGCACCGCTGACGCGTCTg       <  1:463929/139‑1 (MQ=255)
                                                                                                cGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCAAACCGTATTTTTATgg                        >  2:205578/1‑120 (MQ=255)
                                                                                                cGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCAAACCGTATTTTTATgg                        <  1:205578/120‑1 (MQ=255)
                                                                                                cGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCAAACCGTATTTTTATGGCACCGCTGACGCGTCTgcg     >  1:595099/1‑139 (MQ=255)
                                                                                                cGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCAAACCGTATTTTTATGGCACCGCTGACGCGTCTgcg     <  2:321292/139‑1 (MQ=255)
                                                                                                cGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCAAACCGTATTTTTATGGCACCGCTGACGCGTCTgcg     <  2:670497/139‑1 (MQ=255)
                                                                                                   cTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCAAACCGTATTTTTATGGCACCGCTGACGCGTCTGCGCAg  <  1:742208/139‑1 (MQ=255)
                                                                                                             |                                                                                                                                
ACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAGCAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCAAACCGTATTTTTATGGCACCGCTGACGCGTCTGCGCAG  >  NC_000913/1726513‑1726750

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