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 F3 I95 R1
|
196 |
14.2 |
808436 |
96.0% |
776098 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
4,165,187 |
(A)5→4 |
intergenic (‑233/‑129) |
coaA ← / → BW25113_RS20630 |
type I pantothenate kinase/tRNA‑Thr |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,165,183 | 0 | A | . | 100.0%
| 46.3
/ NA
| 12 | intergenic (‑229/‑133) | coaA/BW25113_RS20630 | type I pantothenate kinase/tRNA‑Thr |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (11/1); total (11/1) |
TATCGTTGAAAAGCAATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTGAAAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGCAA > NZ_CP009273/4165095‑4165264
|
tATCGTTGAAAAGCAATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTGaa > 2:181953/1‑90 (MQ=255)
aTCGTTGAAAAGCAATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTGaaa < 2:44633/90‑1 (MQ=255)
cGTTGAAAAGCAATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTGaaaag < 2:61824/90‑2 (MQ=255)
aaaaGCAATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGc < 2:300802/90‑1 (MQ=255)
aTGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTg > 2:369331/1‑90 (MQ=255)
gATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGt > 1:2844/1‑90 (MQ=255)
gATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCAGCCCTCCGt > 2:312404/1‑90 (MQ=255)
atTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCg > 1:349899/1‑90 (MQ=255)
ttCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCgg > 1:358051/1‑90 (MQ=255)
aTCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGt > 2:329880/1‑90 (MQ=255)
aTCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGt > 2:7794/1‑90 (MQ=255)
ttAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATaaaa > 1:53154/1‑90 (MQ=255)
atgatgTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGCaa > 1:149254/1‑90 (MQ=255)
atgatgTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGCaa > 1:4295/1‑90 (MQ=255)
atgatgTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGCaa > 2:113029/1‑90 (MQ=255)
|
TATCGTTGAAAAGCAATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTGAAAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGCAA > NZ_CP009273/4165095‑4165264
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CAATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTGAAAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGCAATTTTTTAGTTGCATG > NZ_CP009273/4165108‑4165279
|
CAATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGT > SRR3722235.2870/1‑100 (MQ=60)
TGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCG > SRR3722235.354944/1‑100 (MQ=60)
GTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGG > SRR3722235.363196/1‑100 (MQ=60)
GAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAA > SRR3722235.53737/1‑100 (MQ=60)
GTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGCAA > SRR3722235.150961/1‑100 (MQ=60)
GTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGCAA > SRR3722235.4335/1‑100 (MQ=60)
CAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGCAATTTTTTAG > SRR3722235.294854/1‑100 (MQ=60)
GATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGCAATTTTTTAGTTGC > SRR3722235.202904/1‑100 (MQ=60)
GTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGCAATTTTTTAGTTGCATG > SRR3722235.146106/1‑100 (MQ=60)
|
CAATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTGAAAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGCAATTTTTTAGTTGCATG > NZ_CP009273/4165108‑4165279
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
