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 I225 R1
|
227 |
21.4 |
1179702 |
97.1% |
1145490 |
86.5 |
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%
| 44.1
/ NA
| 15 | G10G (GGT→GGG) | ruvC | crossover junction endodeoxyribonuclease RuvC |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (4/11); total (4/11) |
ATCCACTTTGGTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGAACCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTCGCTGCGACC > NZ_CP009273/1941517‑1941686
|
atcCACTTTGGTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGAccc > 1:58760/1‑90 (MQ=255)
tGGTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCaa < 1:343954/90‑1 (MQ=255)
tGGTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCaa < 2:412218/90‑1 (MQ=255)
cGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGGCCCCGGATCAATGCCg < 1:490550/90‑1 (MQ=255)
ggTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCAcgc > 1:392865/1‑90 (MQ=255)
tacctGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGc > 1:546395/1‑84 (MQ=255)
tacctGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGc < 2:546395/84‑1 (MQ=255)
gCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGc < 1:273149/90‑1 (MQ=255)
cGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGcc < 2:234936/90‑1 (MQ=255)
ggATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCt > 1:331499/1‑90 (MQ=255)
gATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCtc < 1:14061/90‑1 (MQ=255)
ggTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTCGCTg > 1:464237/1‑90 (MQ=255)
tCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTCGCTGCg < 2:25439/90‑1 (MQ=255)
cgcgcgACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTCGCTGCGAcc < 1:6594/90‑1 (MQ=255)
cgcgcgACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTCGCTGCGAcc < 2:2410/90‑1 (MQ=255)
cgcgcgACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTCGCTGCGAcc < 2:317132/90‑1 (MQ=255)
|
ATCCACTTTGGTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGAACCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTCGCTGCGACC > NZ_CP009273/1941517‑1941686
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ 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
ACGGTAAATCATCCACTTTGGTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGAACCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTCGCTGCGACCTCATCAGAGATTTCAC > NZ_CP009273/1941507‑1941702
|
ACGGTAAATCATCCACTTTGGTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCC > SRR3722109.59458/1‑100 (MQ=60)
TGGTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAAT < SRR3722109.348540/100‑1 (MQ=60)
CGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGGCCCCGGATCAATGCCGAGAATAATAG < SRR3722109.497944/100‑1 (MQ=60)
CCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGC > SRR3722109.398498/1‑100 (MQ=60)
AGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCctgtctcttatacacatctgacgctgccgacgaat > SRR3722109.142975/1‑65 (MQ=60)
GTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTA > SRR3722109.554688/1‑100 (MQ=60)
CCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCT > SRR3722109.335884/1‑100 (MQ=60)
GCGGATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAG < SRR3722109.276568/100‑1 (MQ=60)
GATGACGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGT < SRR3722109.14251/100‑1 (MQ=60)
CGCCGTAGCCGGTCACGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTCGCTG > SRR3722109.471211/1‑100 (MQ=60)
CGCGCGACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTCGCTGCGACCTCATCAGAGA < SRR3722109.6692/100‑1 (MQ=60)
ACCCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTCGCTGCGACCTCATCAGAGATTTCAC < SRR3722109.481379/100‑1 (MQ=60)
|
ACGGTAAATCATCCACTTTGGTGCGGATGCATCCGCTACCCAGGTAGGACAGTTGCCTACCTACCTGGCGGATGACGCCGTAGCCGGTCACGCGCGAACCCGGATCAATGCCGAGAATAATAGCCATCACGCGTCTCCGTTTTGCTGTTTAGCAGGCCTCATCAGAGAGTCGCTGCGACCTCATCAGAGATTTCAC > NZ_CP009273/1941507‑1941702
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
