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 F5 I102 R1
|
278 |
39.1 |
2251254 |
95.8% |
2156701 |
87.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
771,555 |
A→G |
E84G (GAG→GGG) |
tolR → |
colicin uptake protein TolR |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 771,555 | 0 | A | G | 100.0%
| 155.8
/ NA
| 42 | E84G (GAG→GGG) | tolR | colicin uptake protein TolR |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (29/13); total (29/13) |
CGGTGAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGAGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACGGTCTTTCTGATCGGTGGCGCAA > NZ_CP009273/771468‑771641
|
cGGTGAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCg > 1:728844/1‑91 (MQ=255)
ggTGAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGt > 1:244354/1‑91 (MQ=255)
ggTGAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGt > 1:333079/1‑91 (MQ=255)
gTGAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGtt > 1:142094/1‑91 (MQ=255)
gTGAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGtt > 2:647523/1‑91 (MQ=255)
tGAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGttt < 1:47747/91‑1 (MQ=255)
gAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTa < 1:978304/91‑1 (MQ=255)
aGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTaccac > 1:366474/1‑91 (MQ=255)
taTAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCag < 2:1116614/87‑1 (MQ=255)
gATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCag > 1:1116614/1‑88 (MQ=255)
aGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGc < 2:728844/91‑1 (MQ=255)
gtgtCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGcc < 1:764493/91‑1 (MQ=255)
gtCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGt > 1:994485/1‑91 (MQ=255)
gtCTGGGATTGGTCAGTACAACGTGGTGGTTGGGAAAGATAGCCTGGGGCGTTTACCACCAGCGCAGGTGGAGGCGGAAGTGTCCAGCCGt > 2:930922/1‑91 (MQ=255)
cTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGttt > 1:537684/1‑91 (MQ=255)
gTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCaa < 2:108741/91‑1 (MQ=255)
gTATTGGGCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTaaa > 2:81357/1‑91 (MQ=255)
ttGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGc > 1:881009/1‑91 (MQ=255)
ggTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCa > 1:467537/1‑91 (MQ=255)
ggTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCa > 2:154218/1‑91 (MQ=255)
ggTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCa > 1:443930/1‑91 (MQ=255)
ggTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCa > 1:301862/1‑91 (MQ=255)
gTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCg > 2:9784/1‑91 (MQ=255)
gTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCg > 1:785748/1‑91 (MQ=255)
gTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCg > 1:936591/1‑91 (MQ=255)
gTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCg > 1:227935/1‑91 (MQ=255)
gTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCg > 1:27723/1‑91 (MQ=255)
cacCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGaaa < 1:1079542/91‑1 (MQ=255)
ccGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAAc < 2:157345/91‑1 (MQ=255)
ccGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAAc > 2:596591/1‑91 (MQ=255)
ccGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAAc > 2:624658/1‑91 (MQ=255)
ccGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAAc > 2:1014792/1‑91 (MQ=255)
cGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACg > 1:459802/1‑91 (MQ=255)
gtggtgGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACgg > 2:644377/1‑91 (MQ=255)
tggtggTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACGGt < 2:339163/91‑1 (MQ=255)
tggtggTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACGGt < 2:1033663/91‑1 (MQ=255)
gtggtTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACGGTCt > 2:558723/1‑91 (MQ=255)
gtggtTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACGGTCt > 1:1085890/1‑91 (MQ=255)
gtTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACGGTCTTTc > 1:654483/1‑91 (MQ=255)
aGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACGGTCTTTCTGATCGGt < 1:770765/91‑1 (MQ=255)
gATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACGGTCtt < 2:438192/80‑1 (MQ=255)
gATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACGGTCtt > 1:438192/1‑80 (MQ=255)
cTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACGGTCTTTCTGATCGGTGGCGCaa < 2:455634/91‑1 (MQ=255)
|
CGGTGAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGAGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACGGTCTTTCTGATCGGTGGCGCAA > NZ_CP009273/771468‑771641
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ 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
TGAATCACAGGCGGTGAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGAGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACGGTCTTTCTGATCGGTGGCGCAAAAGATGTGC > NZ_CP009273/771457‑771650
|
TGAATCACAGGCGGTGAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCCGGGGC < SRR3722125.711274/101‑1 (MQ=60)
GAATCACAGGCGGTGAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCG > SRR3722125.744548/1‑101 (MQ=60)
AATCACAGGCGGTGAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGT > SRR3722125.249261/1‑101 (MQ=60)
AATCACAGGCGGTGAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGT > SRR3722125.339975/1‑101 (MQ=60)
ATCACAGGCGGTGAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTT > SRR3722125.144799/1‑101 (MQ=60)
ctagtctcgtgggctcggagatgtgtataagagacagGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTAC < SRR3722125.722861/64‑1 (MQ=60)
GGCGGTGAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCAC > SRR3722125.374162/1‑101 (MQ=60)
TGAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAG < SRR3722125.48630/101‑1 (MQ=60)
GAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGC < SRR3722125.1000146/101‑1 (MQ=60)
GAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGC > SRR3722125.1141820/1‑101 (MQ=60)
TTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGT > SRR3722125.1016692/1‑101 (MQ=60)
GTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTT > SRR3722125.549163/1‑101 (MQ=60)
GTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGC < SRR3722125.781060/101‑1 (MQ=60)
GTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGC > SRR3722125.900485/1‑101 (MQ=60)
GTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCA > SRR3722125.308041/1‑101 (MQ=60)
GTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCA > SRR3722125.453296/1‑101 (MQ=60)
GTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCA > SRR3722125.477405/1‑101 (MQ=60)
GTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCG > SRR3722125.802870/1‑101 (MQ=60)
GTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCG > SRR3722125.957385/1‑101 (MQ=60)
GTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCG > SRR3722125.28210/1‑101 (MQ=60)
GTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCG > SRR3722125.232467/1‑101 (MQ=60)
GTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACG > SRR3722125.469503/1‑101 (MQ=60)
GTACACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACGGTCT > SRR3722125.1110335/1‑101 (MQ=60)
CACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACGGTCTTTC > SRR3722125.668593/1‑101 (MQ=60)
CACCGTGGTGGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACGGTCTTTC < SRR3722125.1103833/101‑1 (MQ=60)
GGTTGAGAAAGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACGGTCTTTCTGATCGGTC > SRR3722125.447424/1‑101 (MQ=60)
AGATCGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACGGTCTTTCTGATCGGTGGCGCAAAAG < SRR3722125.787503/101‑1 (MQ=60)
CGCCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGctgtctcttatacacatctccgagcccacgagactaggcatgatctcgtatgccgtcttct > SRR3722125.703699/1‑40 (MQ=60)
CCTGGGGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACGGTCTTTCTGATCGGTGGCGCAAAAGATGTGC < SRR3722125.643181/101‑1 (MQ=60)
|
TGAATCACAGGCGGTGAGCAGTAACGATAATCCGCCAGTGATTGTTGAAGTGTCTGGTATTGGTCAGTACACCGTGGTGGTTGAGAAAGATCGCCTGGAGCGTTTACCACCAGAGCAGGTGGTGGCGGAAGTGTCCAGCCGTTTCAAGGCCAACCCGAAAACGGTCTTTCTGATCGGTGGCGCAAAAGATGTGC > NZ_CP009273/771457‑771650
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
