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 |
|
A1 F2 I225 R1
|
227 |
21.4 |
1179702 |
97.1% |
1145490 |
86.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,054,234 |
A→G |
E232G (GAA→GGA) |
torC → |
pentaheme c‑type cytochrome TorC |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,054,234 | 0 | A | G | 100.0%
| 41.6
/ NA
| 14 | E232G (GAA→GGA) | torC | pentaheme c‑type cytochrome TorC |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (10/4); total (10/4) |
GCTGTACTCTATTGATATTAAGCCAATTTATGCGGCGAAAGGCGATAAAGAAGCCTCTGGTTCTCTGCTGCCTGCTTCGGAAGTGAAAGTCCTTAAACGTGACGGCGACTGGCTGCAAATTGAAATTACCGGCTGGACGGAAAGCGCCGGACGTCAGCGTGTACTCA > NZ_CP009273/1054154‑1054320
|
gCTGTACTCTATTGATATTAAGCCAATTTATGCGGCGAAAGGCGATAAAGAAGCCTCTGGTTCTCTGCTGCCTGCTTCGGGAGTGAAAGt > 2:236456/1‑90 (MQ=255)
aCTCTATTGATATTAAGCCAATTTATGCGGCGAAAGGCGATAAAGAAGCCTCTGGTTCTCTGCTGCCTGCTTCGGGAGTGAAAGTCCTTa < 1:547346/90‑1 (MQ=255)
tctATTGATATTAAGCCAATTTATGCGGCGAAAGGCGATAAAGAAGCCTCTGGTTCTCTGCTGCCTGCTTCGGGAGTGAAAGTCCTTaaa > 1:466292/1‑90 (MQ=255)
tatTAAGCCAATTTATGCGGCGAAAGGCGATAAAGAAGCCTCTGGTTCTCTGCTGCCTGCTTCGGGAGTGAAAGTCCTTAAACGTGACgg > 1:70465/1‑90 (MQ=255)
tAAGCCAATTTATGCGGCGAAAGGCGATAAAGAAGCCTCTGGTTCTCTGCTGCCTGCTTCGGGAGTGAAAGTCCTTAAACGTGACGGCGa > 1:11784/1‑90 (MQ=255)
tAAGCCAATTTATGCGGCGAAAGGCGATAAAGAAGCCTCTGGTTCTCTGCTGCCTGCTTCGGGAGTGAAAGTCCTTAAACGTGACGGCGa > 1:519511/1‑90 (MQ=255)
gCCTCTGGTTCTCTGCTGCCTGCTTCGGGAGTGAAAGTCCTTAAACGTGACGGCGACTGGCTGCAAATTGAAATTACCGGCTGGACGGaa > 1:534607/1‑90 (MQ=255)
ctGGTTCTCTGCTGCCTGCTTCGGGAGTGAAAGTCCTTAAACGTGACGGCGACTGGCTGCAAATTGAAATTACCGGCTGGACGGaaa < 1:566387/87‑1 (MQ=255)
ctGGTTCTCTGCTGCCTGCTTCGGGAGTGAAAGTCCTTAAACGTGACGGCGACTGGCTGCAAATTGAAATTACCGGCTGGACGGaaa > 2:566387/1‑87 (MQ=255)
ctctGCTGCCTGCTTCGGGAGTGAAAGTCCTTAAACGTGACGGCGACTGGCTGCAAATTGAAATTACCGGCTGGACGGAAAGCGCCGGAc > 2:214771/1‑90 (MQ=255)
ctgctgCCTGCTTCGGGAGTGAAAGTCCTTAAACGTGACGGCGACTGGCTGCAAATTGAAATTACCGGCTGGACGGAAAGCGCCGGACGt < 2:51791/90‑1 (MQ=255)
gcctgcTTCGGGAGTGAAAGTCCTTAAACGTGACGGCGACTGGCTGCAAATTGAAATTACCGGCTGGACGGAAAGCGCCGGACGTCAGCg > 1:16795/1‑90 (MQ=255)
tgcTTCGGGAGTGAAAGTCCTTAAACGTGACGGCGACTGGCTGCAAATTGAAATTACCGGCTGGACGGAAAGCGCCGGACGTCAGCgtgt > 2:108843/1‑90 (MQ=255)
cGGGAGTGAAAGTCCTTAAACGTGACGGCGACTGGCTGCAAATTGAAATTACCGGCTGGACGGAAAGCGCCGGACGTCAGCGTGTACTCa < 2:213888/90‑1 (MQ=255)
|
GCTGTACTCTATTGATATTAAGCCAATTTATGCGGCGAAAGGCGATAAAGAAGCCTCTGGTTCTCTGCTGCCTGCTTCGGAAGTGAAAGTCCTTAAACGTGACGGCGACTGGCTGCAAATTGAAATTACCGGCTGGACGGAAAGCGCCGGACGTCAGCGTGTACTCA > NZ_CP009273/1054154‑1054320
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CACGCTGTACTCTATTGATATTAAGCCAATTTATGCGGCGAAAGGCGATAAAGAAGCCTCTGGTTCTCTGCTGCCTGCTTCGGAAGTGAAAGTCCTTAAACGTGACGGCGACTGGCTGCAAATTGAAATTACCGGCTGGACGGAAAGCGCCGGACGTCAGCG > NZ_CP009273/1054151‑1054312
|
CACGCTGTACTCTATTGATATTAAGCCAATTTATGCGGCGAAAGGCGATAAAGAAGCCTCTGGTTCTCTGCTGCCTGCTTCGGGAGTGAAAGTCCTTAAA > SRR3722109.473308/1‑100 (MQ=60)
ACTCTATTGATATTAAGCCAATTTATGCGGCGAAAGGCGATAAAGAAGCCTCTGGTTCTCTGCTGCCTGCTTCGGGAGTGAAAGTCCTTAAACGTGACGG < SRR3722109.555657/100‑1 (MQ=60)
ACTCTATTGATATTAAGCCAATTTATGCGGCGAAAGGCGATAAAGAAGCCTCTGGTTCTCTGCTGCCTGCTTCGGGAGTGAAAGTCCTTAAACGTGACGG > SRR3722109.71311/1‑100 (MQ=60)
CTATTGATATTAAGCCAATTTATGCGGCGAAAGGCGATAAAGAAGCCTCTGGTTCTCTGCTGCCTGCTTCGGGAGTGAAAGTCCTTAAACGTGACGGCGA > SRR3722109.11950/1‑100 (MQ=60)
CTATTGATATTAAGCCAATTTATGCGGCGAAAGGCGATAAAGAAGCCTCTGGTTCTCTGCTGCCTGCTTCGGGAGTGAAAGTCCTTAAACGTGACGGCGA > SRR3722109.527423/1‑100 (MQ=60)
CGATAAAGAAGCCTCTGGTTCTCTGCTGCCTGCTTCGGGAGTGAAAGTCCTTAAACGTGACGGCGACTGGCTGCAAATTGAAATTACCGGCTGGACGGAA > SRR3722109.542745/1‑100 (MQ=60)
CCTCTGGTTCTCTGCTGCCTGCTTCGGGAGTGAAAGTCCTTAAACGTGACGGCGACTGGCTGCAAATTGAAATTACCGGCTGGACGGAAAGCGCCGGACG < SRR3722109.574983/100‑1 (MQ=60)
GTTCTCTGCTGCCTGCTTCGGGAGTGAAAGTCCTTAAACGTGACGGCGACTGGCTGCAAATTGAAATTACCGGCTGGACGGAAAGCGCCGGACGTCAGCG > SRR3722109.17015/1‑100 (MQ=60)
|
CACGCTGTACTCTATTGATATTAAGCCAATTTATGCGGCGAAAGGCGATAAAGAAGCCTCTGGTTCTCTGCTGCCTGCTTCGGAAGTGAAAGTCCTTAAACGTGACGGCGACTGGCTGCAAATTGAAATTACCGGCTGGACGGAAAGCGCCGGACGTCAGCG > NZ_CP009273/1054151‑1054312
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
