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 I231 R1
|
218 |
12.8 |
703680 |
97.2% |
683976 |
86.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,840,928 |
T→C |
E97G (GAA→GGA) |
topB ← |
DNA topoisomerase III |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,840,928 | 0 | T | C | 100.0%
| 18.7
/ NA
| 7 | E97G (GAA→GGA) | topB | DNA topoisomerase III |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (3/4); total (3/4) |
CTTTTCCGGTGCCAGTTGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTTCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTC > NZ_CP009273/1840843‑1840975
|
cTTTTCCGGTGCCAGTTGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCt < 2:117437/90‑1 (MQ=255)
ttttCCGGTGCCAGTTGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTg < 1:183781/90‑1 (MQ=255)
gTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTtgat > 1:123184/1‑90 (MQ=255)
aCTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTa < 1:77783/90‑1 (MQ=255)
tCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAgt > 1:91932/1‑90 (MQ=255)
tCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAgt > 1:95720/1‑90 (MQ=255)
aGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTc < 2:146177/90‑1 (MQ=255)
|
CTTTTCCGGTGCCAGTTGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTTCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTC > NZ_CP009273/1840843‑1840975
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 32 ≤ 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
TTTTCCGGTGCCAGTTGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTTCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGG > NZ_CP009273/1840844‑1840973
|
TTTTCCGGTGCCAGTTGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCA < SRR3722116.186048/100‑1 (MQ=60)
GTTGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGAT > SRR3722116.124660/1‑100 (MQ=60)
GTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGT > SRR3722116.93069/1‑100 (MQ=60)
GTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGT > SRR3722116.96893/1‑100 (MQ=60)
ACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGG < SRR3722116.78763/100‑1 (MQ=60)
|
TTTTCCGGTGCCAGTTGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTTCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGG > NZ_CP009273/1840844‑1840973
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
