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 |
|
A2 F5 I184 R1
|
278 |
29.6 |
1166432 |
97.3% |
1134938 |
124.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
747,264 |
T→C |
D124G (GAT→GGT) |
ybgQ ← |
fimbrial biogenesis outer membrane usher protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 747,264 | 0 | T | C | 100.0%
| 68.2
/ NA
| 20 | D124G (GAT→GGT) | ybgQ | fimbrial biogenesis outer membrane usher protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (14/6); total (14/6) |
CTGCTGGCAAACAAGTTGTAATCCATCAGGACACCGGCAACACCTTCTTTCCATGTAGAGGGGGGAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGATCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTGACGGATATCTGGTTTTAAACCAAATTTATCGACCAGTGAATCATTGATGCATGGAATGGTTTTGTCAC > NZ_CP009273/747129‑747399
|
ctgctgGCAAACAAGTTGTAATCCATCAGGACACCGGCAACACCTTCTTTCCATGTAGAGGGGGGAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCg > 1:333127/1‑138 (MQ=255)
aGTTGTAATCCATCAGGACACCGGCAACACCTTCTTTCCATGTAGAGGGGGGAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCAt > 1:375949/1‑139 (MQ=255)
aGGACACCGGCAACACCTTCTTTCCATGTAGAGGGGGGAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGaa < 1:348321/138‑1 (MQ=255)
ccTTCTTTCCATGTAGAGGGGGGAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACAcc > 2:172424/1‑139 (MQ=255)
gagGGGGGAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGc < 1:226418/138‑1 (MQ=255)
ggggAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGa < 1:292491/139‑1 (MQ=255)
ggAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACt > 2:62537/1‑139 (MQ=255)
ggAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACt > 1:317532/1‑139 (MQ=255)
aGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAGGAGCATTTAAGGTCGGGAACTGAAATCAAAACACCGATCTATCTGTGCCAAGGACTGa > 1:561509/1‑139 (MQ=255)
aGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTGa > 1:550629/1‑139 (MQ=255)
cTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTGACGGATATCTGGTTTTAAACCAAATTTATCGAc < 1:62537/139‑1 (MQ=255)
cGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGa < 1:237817/99‑1 (MQ=255)
cGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGa > 2:237817/1‑99 (MQ=255)
ttCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTGACGGATATCTGGTTTTAAACCAAATTTATCGACCAGTGAATCATTGATg > 1:236265/1‑138 (MQ=255)
cAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTGACGTATATCTGGTTTTAAACCAAATTTATCGACCAGTGAATCATTGATGCAt > 1:135872/1‑139 (MQ=255)
cAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTGACGGATATCTGGTTTTAAACCAAATTTATCGACCAGTGAATCATTGATGCAt > 2:10303/1‑139 (MQ=255)
tGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTGACGGCTATCTGGTTTTAAACCAAATTTATCGACCAGTGAATCATTGATGCATGGAATGGtttt > 2:124421/1‑139 (MQ=255)
tGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGAc > 1:507612/1‑69 (MQ=255)
tGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGAc < 2:507612/69‑1 (MQ=255)
tGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTGACGGATATCTGGTTTTAAACCAAATTTATCGACCAGTGAATCATTGATGCATGGAATGGTTTTGTCAc > 2:403114/1‑139 (MQ=255)
|
CTGCTGGCAAACAAGTTGTAATCCATCAGGACACCGGCAACACCTTCTTTCCATGTAGAGGGGGGAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGATCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTGACGGATATCTGGTTTTAAACCAAATTTATCGACCAGTGAATCATTGATGCATGGAATGGTTTTGTCAC > NZ_CP009273/747129‑747399
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GTGGGCGGTAGCTGCTGGCAAACAAGTTGTAATCCATCAGGACACCGGCAACACCTTCTTTCCATGTAGAGGGGGGAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGATCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTGACGGATATCTGGTTTTAAACCAAATTTATCGACCAGTGAATCATTGATGCATGGAATGGTTTTGTCACC > NZ_CP009273/747118‑747400
|
GTGGGCGGTAGCTGCTGGCAAACAAGTTGTAATCCATCAGGACACCGGCAACACCTTCTTTCCATGTAGAGGGGGGAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGA > SRR3722139.337207/1‑150 (MQ=60)
GTAGCTGCTGGCAAACAAGTTGTAATCCATCAGGACACCGGCAACACCTTCTTTCCATGTAGAGGGGGGGGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAG < SRR3722139.246135/151‑1 (MQ=60)
GCTGGCAAACAAGTTGTAATCCATCAGGACACCGGCAACACCTTCTTTCCATGTAGAGGGGGGAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATT > SRR3722139.380449/1‑151 (MQ=60)
CAGGACACCGGCAACACCTTCTTTCCATGTAGAGGGGGGAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAAT < SRR3722139.352538/150‑1 (MQ=60)
ATGTAGAGGGGGGAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTG > SRR3722139.321456/1‑151 (MQ=60)
GTAGAGGGGGGAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAGGAGCATTTAAGGTCGGGAACTGAAATCAAAACACCGATCTATCTGTGCCAAGGACTGAC > SRR3722139.567932/1‑151 (MQ=60)
GTAGAGGGGGGAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTGAC > SRR3722139.556961/1‑151 (MQ=60)
AGAGGGGGGAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTGACG < SRR3722139.229192/150‑1 (MQ=60)
cgtgggctcggagatgtgtataagagacagAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTGACGGATAT < SRR3722139.240760/121‑1 (MQ=60)
GGGGGAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTGACGGATAT < SRR3722139.296165/151‑1 (MQ=60)
GCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTGACGGATATCTGGTTTTAAACCAAATTTATCGACCAGTGAATCAT < SRR3722139.63259/151‑1 (MQ=60)
GAATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTGACGGATATCTGGTTTTAAACCAAATTTATCGACCAGTGAATCATTGATGC > SRR3722139.239186/1‑150 (MQ=60)
ATACTAATATTCAGTTGCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTGACGTATATCTGGTTTTAAACCAAATTTATCGACCAGTGAATCATTGATGCATG > SRR3722139.137513/1‑151 (MQ=60)
GCTGATTGGCTTGACCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTGACGGATATCctgtctcttatacacatctccgagcccacgagaccgtactagatctcgtatgccgtcttc > SRR3722139.513460/1‑91 (MQ=60)
|
GTGGGCGGTAGCTGCTGGCAAACAAGTTGTAATCCATCAGGACACCGGCAACACCTTCTTTCCATGTAGAGGGGGGAGCCCAGTTTTCTGAGTGCCACGCCAGCCAGGCTTGCGGAATACTAATATTCAGTTGCTGATTGGCTTGATCGAAATTGAAGAGCATTTCAGGTCGGGAACTGAAATCAATACACCGATCTATCTGTGGCAAGGACTGACGGATATCTGGTTTTAAACCAAATTTATCGACCAGTGAATCATTGATGCATGGAATGGTTTTGTCACC > NZ_CP009273/747118‑747400
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
