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 I227 R1
|
223 |
21.3 |
1167702 |
97.0% |
1132670 |
86.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,941,604 |
A→C |
G10G (GGT→GGG) |
ruvC ← |
crossover junction endodeoxyribonuclease RuvC |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,941,604 | 0 | A | C | 100.0%
| 62.9
/ NA
| 21 | G10G (GGT→GGG) | ruvC | crossover junction endodeoxyribonuclease RuvC |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (11/10); total (11/10) |
TTGGTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGAACCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTCGCTGCGACC > NZ_CP009273/1941524‑1941686
|
ttGGTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGAcccc > 2:457163/1‑84 (MQ=255)
ttGGTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGAcccc < 1:457163/84‑1 (MQ=255)
ttGGTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCa > 2:222306/1‑90 (MQ=255)
ttGGTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCa > 1:427277/1‑90 (MQ=255)
gTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATg > 2:123394/1‑90 (MQ=255)
cGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCg < 1:130496/90‑1 (MQ=255)
cGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCg < 2:466024/90‑1 (MQ=255)
cGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCg < 1:527451/90‑1 (MQ=255)
ggATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCga < 2:534335/90‑1 (MQ=255)
gATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCgag > 2:577300/1‑90 (MQ=255)
gATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCgag < 2:427277/90‑1 (MQ=255)
aCCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCAt > 1:171419/1‑90 (MQ=255)
gACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCgag > 2:39296/1‑68 (MQ=255)
gACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCgag < 1:39296/68‑1 (MQ=255)
gACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGtctc < 1:135567/90‑1 (MQ=255)
gACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGtctc > 1:527917/1‑90 (MQ=255)
gTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGtt > 1:19387/1‑90 (MQ=255)
ctacctacCTGGCGGATGACGCCGTAGCCGGTCACGCGCGAcccc < 1:536858/45‑1 (MQ=255)
ctacctacCTGGCGGATGACGCCGTAGCCGGTCACGCGCGAcccc > 2:536858/1‑45 (MQ=255)
ctacctacCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCt > 2:496486/1‑90 (MQ=255)
ctGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCa > 2:243547/1‑90 (MQ=255)
tGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAg < 2:150127/90‑1 (MQ=255)
tGGAGGTTGACGCCGTCACCGGTCGCTCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAg < 1:126298/90‑1 (MQ=255)
ggTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTTGCTg > 1:58583/1‑90 (MQ=255)
cgcgcgACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTCGCTGCGAcc < 2:469404/90‑1 (MQ=255)
|
TTGGTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGAACCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTCGCTGCGACC > NZ_CP009273/1941524‑1941686
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ 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
ATCATCCACTTTGGTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGAACCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTCGCTGCGACCTCATCAGAGATTTCACC > NZ_CP009273/1941514‑1941703
|
ATCATCCACTTTGGTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCA > SRR3722111.433634/1‑100 (MQ=60)
attcgtcggcagcgtcagatgtgtataagagacagGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGC < SRR3722111.545293/65‑1 (MQ=60)
TCCACTTTGGTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGC < SRR3722111.464104/100‑1 (MQ=60)
CGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAG < SRR3722111.132131/100‑1 (MQ=60)
CGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAG < SRR3722111.535728/100‑1 (MQ=60)
tataagagacagACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCC < SRR3722111.39769/88‑1 (MQ=60)
TGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCAT > SRR3722111.173560/1‑100 (MQ=60)
ACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTC > SRR3722111.536204/1‑100 (MQ=60)
AGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTT > SRR3722111.19622/1‑100 (MQ=60)
GACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTG < SRR3722111.137273/100‑1 (MQ=60)
TGGAGGTTGACGCCGTCACCGGTCGCTCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAG < SRR3722111.127881/100‑1 (MQ=60)
CGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTTGCTG > SRR3722111.59284/1‑100 (MQ=60)
CGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTCGCTGCGACCTCATCAGAGA > SRR3722111.437842/1‑100 (MQ=60)
CCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTCGCTGCGACCTCATCAGAGATTTCACC > SRR3722111.544212/1‑100 (MQ=60)
|
ATCATCCACTTTGGTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGAACCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTCGCTGCGACCTCATCAGAGATTTCACC > NZ_CP009273/1941514‑1941703
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
