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 I206 R1
|
206 |
23.7 |
1314362 |
96.8% |
1272302 |
86.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
609,731 |
A→G |
D40G (GAT→GGT) |
entF → |
enterobactin non‑ribosomal peptide synthetase EntF |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 609,731 | 0 | A | G | 100.0%
| 50.2
/ NA
| 17 | D40G (GAT→GGT) | entF | enterobactin non‑ribosomal peptide synthetase EntF |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (6/11); total (6/11) |
CGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGATTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGA > NZ_CP009273/609648‑609806
|
cGGCATCTGGATGGCAGAAAAACTGTCAGAATTCCCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGcc < 2:408711/90‑1 (MQ=255)
cGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGcc < 2:511749/90‑1 (MQ=255)
cGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGcc < 1:274003/90‑1 (MQ=255)
cGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGcc > 1:602128/1‑90 (MQ=255)
tGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTg > 2:451947/1‑90 (MQ=255)
cAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGcc > 1:225026/1‑76 (MQ=255)
cAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGcc < 2:225026/76‑1 (MQ=255)
aGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCcgcgc < 1:228484/90‑1 (MQ=255)
aTTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACt < 1:452310/90‑1 (MQ=255)
ccTCCGCCTGGAGCGTGGCGCATTACGTTTAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAgcgc < 1:200083/90‑1 (MQ=255)
ccGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAg > 1:489414/1‑90 (MQ=255)
ccGCCTGGAGCGTGGCGCATTACGTTGAGTGAACCGGAGAGGATGGCGCGCCCTTACTGGCCCGCGCGGGGGTTGCCGGACCAGCGCacg > 2:394421/1‑88 (MQ=255)
cGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGc < 1:599376/90‑1 (MQ=255)
gAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATAc < 1:254172/90‑1 (MQ=255)
gCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGc < 2:633370/90‑1 (MQ=255)
tGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTAc < 2:602128/90‑1 (MQ=255)
aaCCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGa > 2:472752/1‑90 (MQ=255)
|
CGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGATTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGA > NZ_CP009273/609648‑609806
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 31 ≤ 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
CCGCACAGCCCGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGATTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATG > NZ_CP009273/609638‑609792
|
CCGCACAGCCCGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCC > SRR3722088.609543/1‑100 (MQ=60)
CGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCC < SRR3722088.276646/100‑1 (MQ=60)
ATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCtgt > SRR3722088.227277/1‑97 (MQ=60)
AGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCC < SRR3722088.230762/100‑1 (MQ=60)
GAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAG > SRR3722088.495246/1‑100 (MQ=60)
ATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCA < SRR3722088.457581/100‑1 (MQ=60)
CCTCCGCCTGGAGCGTGGCGCATTACGTTTAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATAC < SRR3722088.202075/100‑1 (MQ=60)
CGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTG < SRR3722088.606756/100‑1 (MQ=60)
GAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATG < SRR3722088.256649/100‑1 (MQ=60)
|
CCGCACAGCCCGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGATTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATG > NZ_CP009273/609638‑609792
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
