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 I211 R1
|
223 |
18.0 |
1007644 |
96.3% |
970361 |
85.7 |
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%
| 18.2
/ NA
| 7 | D40G (GAT→GGT) | entF | enterobactin non‑ribosomal peptide synthetase EntF |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (5/2); total (5/2) |
GAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGATTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGATAACGGC > NZ_CP009273/609664‑609813
|
gAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCcgcgcg < 2:280219/90‑1 (MQ=255)
aaCTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCggtgg < 1:239253/90‑1 (MQ=255)
gTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGCTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGc > 1:227657/1‑90 (MQ=255)
ccGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAg > 1:331168/1‑90 (MQ=255)
aaCCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGa > 2:150388/1‑90 (MQ=255)
aaCCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGa > 2:153240/1‑90 (MQ=255)
gagGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGATAACGGc > 2:221494/1‑90 (MQ=255)
|
GAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGATTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGATAACGGC > NZ_CP009273/609664‑609813
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ 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
CAGCCCGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGATTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTA > NZ_CP009273/609643‑609799
|
CAGCCCGGCATCTGGATGGCAGAAAAACTGTCAGAATTGCCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTAC < SRR3722094.294336/100‑1 (MQ=60)
CAGCCCGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTAC < SRR3722094.149748/100‑1 (MQ=60)
CAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGCTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGC > SRR3722094.230764/1‑100 (MQ=60)
AACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACT < SRR3722094.242653/100‑1 (MQ=60)
GAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAG > SRR3722094.336571/1‑100 (MQ=60)
GCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCtgtctcttatacacatctgacgctgccgacgaccatcttagtgtagatctc > SRR3722094.205351/1‑49 (MQ=60)
|
CAGCCCGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGATTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTA > NZ_CP009273/609643‑609799
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
