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
A30 F30 I1 R1 25 26.9 915936 99.4% 910440 139.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,797,105 C→A intergenic (‑77/‑106) yqaE ← / → ygaV Pmp3 family protein/putative DNA‑binding transcriptional regulator YgaV

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,797,1050CA100.0% 66.1 / NA 20intergenic (‑77/‑106)yqaE/ygaVPmp3 family protein/putative DNA‑binding transcriptional regulator YgaV
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (12/8);  total (12/8)

GCAGCACGCCGAGCGGCGGCAGAATGATGGTGATGACGATTCTCCAGAAACCCATATGTACTCCCTATAAGAAAATTACTCATTGTTTAAAAAGAGATTTTATCTCTTAAGCGTAGTAATTTTAGCGGAGCCTGCCAGTTTCAGCTTACGCTTTTACTCTCATTTACGCTGCTGAGGCTGGTATATGTTGCATTTTTAGTTTAGAGTTTACTTAATTTAGAAAATACTTAAATAAATATGACTGAACTCGCGCA  >  NC_000913/2796974‑2797227
                                                                                                                                   |                                                                                                                          
gcagcaCGCCGAGCGGCGGCAGAATGATGGTGAAGACGATTCTCCAGAAACCCATATGTACTCCCTATAAGAAAATTACTCATTGTTTAAAAAGAGATTTTATCTCTTAAGCGTAGTAATTTTAGCGGAGCATGCCAGtt                                                                                                                    >  1:20455/1‑140 (MQ=255)
    caCGCCGAGCGGCGGCAGAATGATGGTGATGACGATTCTCCAGAAACCCATATGTACTCCCTATAAGAAAATTACTCATTGTTTAAAAAGAGATTTTATCTCTTAAGCGTAGTAATTTTAGCGGAGCATGCCAGTTTCAg                                                                                                                >  1:388381/1‑140 (MQ=255)
                  gcAGAATGATGGTGATGACGATTCTCCAGAAACCCATATGTACTCCCTATAAGAAAATTACTCATTGTTTAAAAAGAGATTTTATCTCTTAAGCGTAGTAATTTTAGCGGAGCATGCCAGTTTCAGCTTACGCTTTTAct                                                                                                  <  2:321062/140‑1 (MQ=255)
                                 tgaCGATTCTCCAGAAACCCATATGTACTCCCTATAAGAAAATTACTCATTGTTTAAAAAGAGATTTTATCTCTTAAGCGTAGTAATTTTAGCGGAGCATGCCAGTTTCAGCTTACGCTTTTACTCTCATTTACgctgct                                                                                   <  1:219239/140‑1 (MQ=255)
                                    cGATTCTCCAGAAACCCATATGTACTCCCTATAAGAAAATTACTCATTGTTTAAAAAGAGATTTTATCTCTTAAGCGTAGTAATTTTAGCGGAGCATGCCAGTTTCAGCTTACGCTTTTACTCTCATTTACGCTGCTGAg                                                                                <  2:154885/140‑1 (MQ=255)
                                          tcCAGAAACCCATATGTACTCCCTATAAGAAAATTACTCATTGTTTAAAAAGAGATTTTATCTCTTAAGCGTAGTAATTTTAGCGGAGCATGCCAGTTTCAGCTTACGCTTTTACTCTCATTTACGCTGCTGAGGCTGGt                                                                          <  1:28333/140‑1 (MQ=255)
                                                             tCCCTATAAGAAAATTACTCATTGTTTAAAAAGAGATTTTATCTCTTAAGCGTAGTAATTTTAGCGGAGCATGCCAGTTTCAGCTTACGCTTTTACTCTCATTTACGCTGCTGAGGCTGGTATATGTTGCATTtttagtt                                                       >  1:111523/1‑140 (MQ=255)
                                                              cccTATAAGAAAATTACTCATTGTTTAAAAAGAGATTTTATCTCTTAAGCGTAGTAATTTTAGCGGAGCATGCCAGTTTCAGCTTACGCTTTTACTCTCATTTACGCTGCTGAGGCTGGTATATGTTGCATTtttagttt                                                      >  2:360556/1‑140 (MQ=255)
                                                                 tataAGAAAATTACTCATTGTTTAAAAAGAGATTTTATCTCTTAAGCGTAGTAATTTTAGCGGAGCATGCCAGTTTCAGCTTACGCTTTTACTCTCATTTACGCTGCTGAGGCTGGTATATGTTGCATTTTTAGTTTaga                                                   >  2:403491/1‑140 (MQ=255)
                                                                  ataAGAAAATTACTCATTGTTTAAAAAGAGATTTTATCTCTTAAGCGTAGTAATTTTAGCGGAGCATGCCAGTTTCAGCTTACGCTTTTACTCTCATTTACGCTGCTGAGGCTGGTATATGTTGCATTTTTAGTTTagag                                                  >  1:222153/1‑140 (MQ=255)
                                                                    aaGAAAATTACTCATTGTTTAAAAAGAGATTTTATCTCTTAAGCGTAGTAATTTTAGCGGAGCATGCCAGTTTCAGCTTACGCTTTTACTCTCATTTACGCTGCTGAGGCTGGTATATGTTGCATTTTTAGTTTAGAGtt                                                >  2:382163/1‑140 (MQ=255)
                                                                        aaaTTACTCATTGTTTAAAAAGAGATTTTATCTCTTAAGCGTAGTAATTTTAGCGGAGCATGCCAGTTTCAGCTTACGCTTTTACTCTCATTTACGCTGCTGAGGCTGGTATATGTTGCATTTTTAGTTTAGAGTTTACt                                            <  2:61047/140‑1 (MQ=255)
                                                                           ttACTCATTGTTTAAAAAGAGATTTTATCTCTTAAGCGTAGTAATTTTAGCGGAGCATGCCAGTTTCAGCTTACGCTTTTACTCTCATTTACGCTGCTGAGGCTGGTATATGTTGCATTTTTAGTTTAGAGTTTACTTaa                                         >  2:166059/1‑140 (MQ=255)
                                                                                   tGTTTAAAAAGAGATTTTATCTCTTAAGCGTAGTAATTTTAGCGGAGCATGCCAGTTTCAGCTTACGCTTTTACTCTCATTTACGCTGCTGAGGCTGGTATATGTTGCATTTTTAGTTTAGAGTTTACTTAATTTAGaaa                                 <  2:284987/140‑1 (MQ=255)
                                                                                    gTTTAAAAAGAGATTTTATCTCTTAAGCGTAGTAATTTTAGCGGAGCATGCCAGTTTCAGCTTACGCTTTTACTCTCATTTACGCTGCTGAGGCTGGTATATGTTGCATTTTTAGTTTAGAGt                                                 <  2:817/123‑1 (MQ=255)
                                                                                    gTTTAAAAAGAGATTTTATCTCTTAAGCGTAGTAATTTTAGCGGAGCATGCCAGTTTCAGCTTACGCTTTTACTCTCATTTACGCTGCTGAGGCTGGTATATGTTGCATTTTTAGTTTAGAGt                                                 >  1:817/1‑123 (MQ=255)
                                                                                               gaTTTTATCTCTTAAGCGTAGTAATTTTAGCGGAGCATGCCAGTTTCAGCTTACGCTTTTACTCTCATTTACGCTGCTGAGGCTGGTATATGTTGTATTTTTAGTTTAGAGTTTACTTAATTTAGAAAATACTtaaataa                     >  1:324036/1‑140 (MQ=255)
                                                                                                           tAAGCGTAGTAATTTTAGCGGAGCATGCCAGTTTCAGCTTACGCTTTTACTCTCATTTACGCTGCTGAGGCTGGTATATGTTGCATTTTTAGTTTAGAGTTTACTTAATTTAGAAAATACTTAAATAAATATGACTGAAc         >  2:37325/1‑140 (MQ=255)
                                                                                                            aaGCGTAGTAATTTTAGCGGAGCATGCCAGTTTCAGCTTACGCTTTTACTCTCATTTACGCTGCTGAGGCTGGTATATGTTGCATTTTTAGTTTAGAGTTTACTTAATTTAGAAAATACTTAAATAAATATGACTGAACt        <  1:253538/140‑1 (MQ=255)
                                                                                                                  agtaATTTTAGCGGAGCATGCCAGTTTCAGCTTACGCTTTTACTCTCATTTACGCTGCTGAGGCTGGTATATGTTGCATTTTTAGTTTAGAGTTTACTTAATTTAGAAAATACTTAAATAAATATGACTGAACTCGCGCa  >  1:122579/1‑140 (MQ=255)
                                                                                                                                   |                                                                                                                          
GCAGCACGCCGAGCGGCGGCAGAATGATGGTGATGACGATTCTCCAGAAACCCATATGTACTCCCTATAAGAAAATTACTCATTGTTTAAAAAGAGATTTTATCTCTTAAGCGTAGTAATTTTAGCGGAGCCTGCCAGTTTCAGCTTACGCTTTTACTCTCATTTACGCTGCTGAGGCTGGTATATGTTGCATTTTTAGTTTAGAGTTTACTTAATTTAGAAAATACTTAAATAAATATGACTGAACTCGCGCA  >  NC_000913/2796974‑2797227

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A