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 I211 R1
|
223 |
18.0 |
1007644 |
96.3% |
970361 |
85.7 |
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%
| 100.5
/ NA
| 26 | L265F (TTG→TTT) | rbsK | ribokinase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (14/12); total (14/12) |
CAGCGCGTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTGCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACAACC > NZ_CP009273/3931365‑3931531
|
cAGCGCGTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGgaa > 1:344786/1‑90 (MQ=255)
cAGCGCGTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGGGCGTTAATCACGGCATTTCTGgaa > 1:155752/1‑90 (MQ=255)
gTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGaaaaa > 2:93441/1‑90 (MQ=255)
gTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGaaaaa > 2:259533/1‑90 (MQ=255)
ttCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAAc > 1:236175/1‑90 (MQ=255)
ccTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCa < 1:291732/90‑1 (MQ=255)
gggTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAgg > 1:2779/1‑90 (MQ=255)
gggTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAgg > 1:333296/1‑90 (MQ=255)
gCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGAt > 1:415256/1‑90 (MQ=255)
tGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGttt < 2:415256/90‑1 (MQ=255)
ttGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCAtgctg > 2:79769/1‑90 (MQ=255)
ttGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCAtgctg > 2:58769/1‑90 (MQ=255)
tACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGc < 1:197822/90‑1 (MQ=255)
tttAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTa > 1:6255/1‑90 (MQ=255)
ttAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTaa < 2:155647/90‑1 (MQ=255)
ttAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTaa < 2:236175/90‑1 (MQ=255)
ttAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTaa < 1:429271/90‑1 (MQ=255)
tAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAac < 1:416424/90‑1 (MQ=255)
gTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTa > 1:101141/1‑90 (MQ=255)
gCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTaaa < 2:439207/90‑1 (MQ=255)
tCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGcac < 2:57930/90‑1 (MQ=255)
aCGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACaa < 2:134311/90‑1 (MQ=255)
cGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACAAc > 2:409476/1‑90 (MQ=255)
cGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACAAc > 1:11209/1‑90 (MQ=255)
ggCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACAAcc < 2:101141/90‑1 (MQ=255)
ggCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACAAcc < 1:375951/90‑1 (MQ=255)
|
CAGCGCGTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTGCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACAACC > NZ_CP009273/3931365‑3931531
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ 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
TGGTGAAGGTCAGCGCGTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTGCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACAACCTTCCGTACCG > NZ_CP009273/3931355‑3931541
|
TGGTGAAGGTCAGCGCGTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGGGCGTTAATCACGGCATTTCTGGAA > SRR3722094.157923/1‑100 (MQ=60)
TGGTGAAGATCAGCGCGTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAA > SRR3722094.350500/1‑100 (MQ=60)
GGTCAGCGCGTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAAC > SRR3722094.239513/1‑100 (MQ=60)
CCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGG > SRR3722094.2819/1‑100 (MQ=60)
CCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGG < SRR3722094.296133/100‑1 (MQ=60)
CCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGG > SRR3722094.338753/1‑100 (MQ=60)
GATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGAT > SRR3722094.422486/1‑100 (MQ=60)
CGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTA > SRR3722094.6353/1‑100 (MQ=60)
TACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGT < SRR3722094.200525/100‑1 (MQ=60)
ACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTA > SRR3722094.102593/1‑100 (MQ=60)
TTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGG < SRR3722094.436763/100‑1 (MQ=60)
TAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGC < SRR3722094.423675/100‑1 (MQ=60)
GCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACAAC > SRR3722094.11386/1‑100 (MQ=60)
GGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACAACCTTCCGTACCG < SRR3722094.382328/100‑1 (MQ=60)
|
TGGTGAAGGTCAGCGCGTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTGCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACAACCTTCCGTACCG > NZ_CP009273/3931355‑3931541
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
