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 I209 R1
|
216 |
14.4 |
815930 |
96.1% |
784108 |
85.2 |
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%
| 55.6
/ NA
| 18 | D40G (GAT→GGT) | entF | enterobactin non‑ribosomal peptide synthetase EntF |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (11/7); total (11/7) |
CGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGATTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGATAACGGC > NZ_CP009273/609648‑609813
|
cGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGcc < 2:270591/90‑1 (MQ=255)
tGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTg > 1:394108/1‑90 (MQ=255)
tGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTg > 2:124000/1‑90 (MQ=255)
ggCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTAc < 2:295831/83‑1 (MQ=255)
ggCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTAc > 1:295831/1‑83 (MQ=255)
aGAAAAACTGTCAGAATTCCCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTACCCGGAGAGGTTGGTTCGCCATTACTGGCCcgcgc < 2:394108/90‑1 (MQ=255)
gAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTCCTGGCCcgcgcg < 2:242820/90‑1 (MQ=255)
tCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGcc < 1:99562/90‑1 (MQ=255)
ccTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAgcgc < 1:54926/90‑1 (MQ=255)
gCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCa > 2:294578/1‑90 (MQ=255)
gCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGc < 2:146019/90‑1 (MQ=255)
gTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTg > 2:96274/1‑90 (MQ=255)
tGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGc > 1:293851/1‑90 (MQ=255)
gAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACg > 2:28423/1‑90 (MQ=255)
gAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACg > 1:158054/1‑90 (MQ=255)
aaCCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGa > 1:374590/1‑90 (MQ=255)
aaCCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGa > 2:387199/1‑90 (MQ=255)
gagGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGATAACGGc > 1:240300/1‑90 (MQ=255)
|
CGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGATTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGATAACGGC > NZ_CP009273/609648‑609813
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCCCGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGATTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGATAACGGC > NZ_CP009273/609645‑609813
|
GCCCGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTG > SRR3722091.401055/1‑100 (MQ=60)
GCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCG > SRR3722091.300838/1‑100 (MQ=60)
TCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGC < SRR3722091.101095/100‑1 (MQ=60)
CCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATAC < SRR3722091.55747/100‑1 (MQ=60)
GCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGC > SRR3722091.298809/1‑100 (MQ=60)
GCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACG > SRR3722091.160358/1‑100 (MQ=60)
ACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGA > SRR3722091.381214/1‑100 (MQ=60)
GTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGATAACGGC > SRR3722091.244009/1‑100 (MQ=60)
|
GCCCGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGATTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGATAACGGC > NZ_CP009273/609645‑609813
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
