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 I209 R1
|
216 |
14.4 |
815930 |
96.1% |
784108 |
85.2 |
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%
| 33.7
/ NA
| 10 | L265F (TTG→TTT) | rbsK | ribokinase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (5/5); total (5/5) |
GCGCGTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTGCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACAA > NZ_CP009273/3931367‑3931529
|
gcgcGTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGgaaga > 2:106110/1‑90 (MQ=255)
tgcCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGc < 1:403918/90‑1 (MQ=255)
gaTACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGAtt < 2:19149/90‑1 (MQ=255)
aTACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTg > 1:148991/1‑90 (MQ=255)
ttAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTaa < 2:92387/90‑1 (MQ=255)
gTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGTCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTa > 2:53321/1‑90 (MQ=255)
gTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTa > 2:166379/1‑90 (MQ=255)
tGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTaa > 1:238799/1‑90 (MQ=255)
aCGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACaa < 2:18044/90‑1 (MQ=255)
aCGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACaa < 2:274583/90‑1 (MQ=255)
|
GCGCGTTCCTGGATTCCGGGTGCAGGCTGTCGATACCATTGCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTGCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAAAGGCGCACAA > NZ_CP009273/3931367‑3931529
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ 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
GCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTGCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAA > NZ_CP009273/3931407‑3931519
|
GCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTG > SRR3722091.151189/1‑100 (MQ=60)
TGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCC < SRR3722091.411002/100‑1 (MQ=60)
CCTTTAACGGTGCGTTAATCACGGCATTTCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAA > SRR3722091.242475/1‑100 (MQ=60)
|
GCTGCCGGAGATACCTTTAACGGTGCGTTAATCACGGCATTGCTGGAAGAAAAACCATTGCCAGAGGCGATTCGTTTTGCCCATGCTGCCGCTGCGATTGCCGTAACACGTAA > NZ_CP009273/3931407‑3931519
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
