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 |
3,931,448 |
G→T |
L265F (TTG→TTT) |
rbsK → |
ribokinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,931,448 | 0 | G | T | 100.0%
| 103.1
/ NA
| 27 | L265F (TTG→TTT) | rbsK | ribokinase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (15/12); total (15/12) |
GGTCAGCGCGTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTGCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACAA > NZ_CP009273/3931362‑3931529
|
ggTCAGCGCGTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGGGCGTTAATCACGGCATTTCTg > 1:30726/1‑90 (MQ=255)
ccGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCaga > 2:319951/1‑90 (MQ=255)
ccGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCaga > 1:76382/1‑90 (MQ=255)
ccGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTAAATCACGGCATTTCTGGAAGAAAAACCATTGCCaga > 2:566025/1‑90 (MQ=255)
gCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGAt < 1:78457/90‑1 (MQ=255)
cTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGtt < 1:423694/90‑1 (MQ=255)
cTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGtt < 2:285707/90‑1 (MQ=255)
tGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGttt < 2:59454/90‑1 (MQ=255)
ttGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCAtgctg > 1:356704/1‑90 (MQ=255)
tgcCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGc > 1:287222/1‑90 (MQ=255)
ccTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCg > 2:225226/1‑90 (MQ=255)
ttAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTaa < 2:461866/90‑1 (MQ=255)
gTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCGGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTa > 1:72186/1‑90 (MQ=255)
gTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTa > 1:417874/1‑90 (MQ=255)
tGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTaa > 2:363382/1‑83 (MQ=255)
tGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTaa < 1:363382/83‑1 (MQ=255)
tGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTaa > 2:497715/1‑90 (MQ=255)
tGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTaa > 1:580375/1‑90 (MQ=255)
tGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTaa > 1:544079/1‑90 (MQ=255)
tGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTaa > 1:526519/1‑90 (MQ=255)
gCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTaaa < 2:66712/90‑1 (MQ=255)
gCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTaaa < 1:76605/90‑1 (MQ=255)
gCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTaaa < 1:465559/90‑1 (MQ=255)
gCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTaaa > 1:353953/1‑90 (MQ=255)
aCGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACaa < 2:331334/90‑1 (MQ=255)
aCGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACaa < 2:167499/90‑1 (MQ=255)
aCGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACaa < 2:526519/90‑1 (MQ=255)
|
GGTCAGCGCGTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTGCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACAA > NZ_CP009273/3931362‑3931529
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ 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
GTGAATGGTGAAGGTCAGCGCGTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTGCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACAAC > NZ_CP009273/3931350‑3931530
|
GTGAATGGTGAAGGTCAGCGCGTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTC < SRR3722109.433011/100‑1 (MQ=60)
GAATGGTGAAGGTCAGCGCGTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGGGCGTTAATCACGGCATTTCTG > SRR3722109.31097/1‑100 (MQ=60)
TTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGA > SRR3722109.77306/1‑100 (MQ=60)
GCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCC < SRR3722109.79408/100‑1 (MQ=60)
CTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGC < SRR3722109.429929/100‑1 (MQ=60)
GTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTG > SRR3722109.361597/1‑100 (MQ=60)
ATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGC > SRR3722109.290888/1‑100 (MQ=60)
ACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCGGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTA > SRR3722109.73057/1‑100 (MQ=60)
ACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTA > SRR3722109.423993/1‑100 (MQ=60)
CCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAA > SRR3722109.534539/1‑100 (MQ=60)
CCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAA > SRR3722109.552335/1‑100 (MQ=60)
CCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAA > SRR3722109.589163/1‑100 (MQ=60)
CTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAA > SRR3722109.358783/1‑100 (MQ=60)
TTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGG < SRR3722109.368431/100‑1 (MQ=60)
GCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACAAC < SRR3722109.472563/100‑1 (MQ=60)
GCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACAAC < SRR3722109.77532/100‑1 (MQ=60)
|
GTGAATGGTGAAGGTCAGCGCGTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTGCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACAAC > NZ_CP009273/3931350‑3931530
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
