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 |
|
A2 F5 I179 R1
|
182 |
40.3 |
1547118 |
96.8% |
1497610 |
120.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
792,028 |
(T)5→4 |
coding (19/1059 nt) |
modC → |
molybdenum ABC transporter ATP‑binding protein ModC |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 792,024 | 0 | T | . | 100.0%
| 38.7
/ NA
| 10 | coding (15/1059 nt) | modC | molybdenum ABC transporter ATP‑binding protein ModC |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base . (5/5); total (5/5) |
CGGCGGGGAAAGTGGAGCGGCGAGACTGTGCATTATTTCTATTGCGCTGGCGATGATCTCCCTGTTGATTTCAGAATGGCTGGCCAGAATCAGCCGTGAACGGGCGGGGCGCTAATCATGCTGGAACTGAATTTTTCCCAGACGTTGGGCAACCATTGCCTGACTATTAATGAAACGCTGCCCGCCAATGGCATCACTGCTATCTTTGGCGTCTCCGGTGCCGGAAAAACTTCGCTGATTAACGCCATCAGTGGACTGA > NZ_CP009273/791893‑792151
|
cggcggGGAAAGTGGAGCGGCGAGACTGTGCATTATTTCTATTGCGCTGGCGATGATCTCCCTGTTGATTTCAGAATGGCTGGCCAGAATCAGCCGTGAACGGGCGGGGCGCTAATCATGCTGGAACTGAAttttcc > 1:535309/1‑135 (MQ=255)
gagaCTGTGCATTATTTCTATTGCGCTGGCGATGATCTCCCTGTTGATTTCAGAATGGCTGGCCAGAATCAGCCGTGAACGGGCGGGGCGCTAATCATGCTGGAACTGAA‑TTTTCCCAGACGTTGGGCAACCATTGCCt < 1:747916/139‑1 (MQ=255)
gagaCTGTGCATTATTTCTATTGCGCTGGCGATGATCTCCCTGTTGATTTCAGAATGGCTGGCCAGAATCAGCCGTGAACGGGCGGGGCGCTAATCATGCTGGAACTGAA‑TTTTCCCAGACGTTGGGCAACCATTGCCt < 2:461418/139‑1 (MQ=255)
agaCTGTGCATTATTTCTATTGCGCTGGCGATGATCTCCCTGTTGATTTCAGAATGGCTGGCCAGAATCAGCCGTGAACGGGCGGGGCGCTAATCATGCTGGAACTGAA‑TTTTCCCAGACGTTGGGCAAcc < 1:318665/131‑1 (MQ=255)
agaCTGTGCATTATTTCTATTGCGCTGGCGATGATCTCCCTGTTGATTTCAGAATGGCTGGCCAGAATCAGCCGTGAACGGGCGGGGCGCTAATCATGCTGGAACTGAA‑TTTTCCCAGACGTTGGGCAAcc > 2:318665/1‑131 (MQ=255)
cTGGCGATGATCTCCCTGTTGATTTCAGAATGGCTGGCCAGAATCAGCCGTGAACGGGCGGGGCGCTAATCATGCTGGAACTGAA‑TTTTCCCAGACGTTGGGCAACCATTGCCTGACTATTAATGAAACGCTGcccac > 2:755274/1‑136 (MQ=255)
ttaaGAATGGCTGGCCAGAATCAGCCGTGAACGGGCGGGGCGCTAATCATGCTGGAACTGAA‑TTTTCCCAGACGTTGGGCACCCATTGCCTGACTATTAATGAAACGCTGcc < 2:424291/109‑1 (MQ=255)
ttCAGAATGGCTGGCCAGAATCAGCCGTGAACGGGCGGGGCGCTAATCATGCTGGAACTGAA‑TTTTCCCAGACGTTGGGCAACCATTGCCTGACTATTAATGAAACGCTGcc > 1:424291/1‑112 (MQ=255)
gCCGTGAACGGGCGGGGCGCTAATCATGCTGGAACTGAA‑TTTTCCCAGACGTTGGGCAACCATTGCCTGACTATTAATGAAACGCTGCCCGCCAATGGCATCACTGc < 1:587773/107‑1 (MQ=255)
gCCGTGAACGGGCGGGGCGCTAATCATGCTGGAACTGAA‑TTTTCCCAGACGTTGGGCAACCATTGCCTGACTATTAATGAAACGCTGCCCGCCAATGGCATCACTGc > 2:587773/1‑107 (MQ=255)
gCTGGAACTGAA‑TTTTCCCAGACGTTGGGCAACCATTGCCTGACTATTAATGAAACGCTGCCCGCCAATGGCATCACTGCTATCTTTGGCGTCTCCGGTGCCGGAAAAACTTCGCTGATTAACGCCATCAGTGGACTGa > 2:418644/1‑139 (MQ=255)
|
CGGCGGGGAAAGTGGAGCGGCGAGACTGTGCATTATTTCTATTGCGCTGGCGATGATCTCCCTGTTGATTTCAGAATGGCTGGCCAGAATCAGCCGTGAACGGGCGGGGCGCTAATCATGCTGGAACTGAATTTTTCCCAGACGTTGGGCAACCATTGCCTGACTATTAATGAAACGCTGCCCGCCAATGGCATCACTGCTATCTTTGGCGTCTCCGGTGCCGGAAAAACTTCGCTGATTAACGCCATCAGTGGACTGA > NZ_CP009273/791893‑792151
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
ATCCAGACCCCCGGCGGGGAAAGTGGAGCGGCGAGACTGTGCATTATTTCTATTGCGCTGGCGATGATCTCCCTGTTGATTTCAGAATGGCTGGCCAGAATCAGCCGTGAACGGGCGGGGCGCTAATCATGCTGGAACTGAATTTTTCCCAGACGTTGGGCAACCATTGCCTGACTATTAATGAAACGCTGCCCGCCAATGGCATCACTGCTATCTTTGGCGTCTCCGGTGCCGGAAAAACTTCGCTGATTAACGCCATCAGTGGACTGACGCGCCCGCAAAAAGGGCGGA > NZ_CP009273/791882‑792172
|
ATCCAGACCCCCGGCGGGGAAAGTGGAGCGGCGAGACTGTGCATTATTTCTATTGCGCTGGCGATGATCTCCCTGTTGATTTCAGAATGGCTGGCCAGAATCAGCCGTGAACGGGCGGGGCGCTAATCATGCTGGAACTGAATTTTCCC > SRR3722133.542463/1‑149 (MQ=60)
GGAGCGGCGAGACTGTGCATTATTTCTATTGCGCTGGCGATGATCTCCCTGTTGATTTCAGAATGGCTGGCCAGAATCAGCCGTGAACGGGCGGGGCGCTAATCATGCTGGAACTGAA‑TTTTCCCAGACGTTGGGCAACCATTGCCTGACT < SRR3722133.323063/151‑1 (MQ=60)
CGAGACTGTGCATTATTTCTATTGCGCTGGCGATGATCTCCCTGTTGATTTCAGAATGGCTGGCCAGAATCAGCCGTGAACGGGCGGGGCGCTAATCATGCTGGAACTGAA‑TTTTCCCAGACGTTGGGCAACCATTGCCTGACTATTAATG < SRR3722133.757618/151‑1 (MQ=60)
TCCCTGTTGATTTCAGAATGGCTGGCCAGAATCAGCCGTGAACGGGCGGGGCGCTAATCATGCTGGAACTGAA‑TTTTCCCAGACGTTGGGCAACCATTGCCTGACTATTAATGAAACGCTGCCCGCCAATGGCActgtctcttatacacat > SRR3722133.430131/1‑134 (MQ=60)
cggagatgtgtataagagacagGGCCAGAATCAGCCGTGAACGGGCGGGGCGCTAATCATGCTGGAACTGAA‑TTTTCCCAGACGTTGGGCAACCATTGCCTGACTATTAATGAAACGCTGCCCGCCAATGGCATCACTGCTATCTTTGGCG < SRR3722133.595548/129‑1 (MQ=60)
GAA‑TTTTCCCAGACGTTGGGCAACCATTGCCTGACTATTAATGAAACGCTGCCCGCCAATGGCATCACTGCTATCTTTGGCGTCTCCGGTGCCGGAAAAACTTCGCTGATTAACGCCATCAGTGGACTGACtgtctcttatacacatctcc > SRR3722133.210223/1‑131 (MQ=60)
|
ATCCAGACCCCCGGCGGGGAAAGTGGAGCGGCGAGACTGTGCATTATTTCTATTGCGCTGGCGATGATCTCCCTGTTGATTTCAGAATGGCTGGCCAGAATCAGCCGTGAACGGGCGGGGCGCTAATCATGCTGGAACTGAATTTTTCCCAGACGTTGGGCAACCATTGCCTGACTATTAATGAAACGCTGCCCGCCAATGGCATCACTGCTATCTTTGGCGTCTCCGGTGCCGGAAAAACTTCGCTGATTAACGCCATCAGTGGACTGACGCGCCCGCAAAAAGGGCGGA > NZ_CP009273/791882‑792172
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
