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 I194 R1
|
197 |
32.2 |
1845014 |
95.2% |
1756453 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,122,677 |
A→G |
F152S (TTC→TCC) |
wcaE ← |
colanic acid biosynthesis glycosyltransferase WcaE |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,122,677 | 0 | A | G | 100.0%
| 95.9
/ NA
| 28 | F152S (TTC→TCC) | wcaE | colanic acid biosynthesis glycosyltransferase WcaE |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (12/16); total (12/16) |
TATACATTTTGGCTGCCAGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGAAAAATATCGCCTGATGACTGGCGGGCAGGCTGTGATAAATATACCAGCCCGGTTTGGCGCTACGTTTAATTTTATGCCCGTCGCC > NZ_CP009273/2122594‑2122762
|
tataCATTTTGGCTGCCAGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAata > 2:757802/1‑90 (MQ=255)
taCATTTTGGCTGCCAGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATc < 2:281757/90‑1 (MQ=255)
aTTTTGGCTGCCAGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGcc < 1:757802/90‑1 (MQ=255)
ttttGGCTGCCAGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCt > 1:135547/1‑90 (MQ=255)
ttttGGCTGCCAGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCt > 2:89529/1‑90 (MQ=255)
ttttGGCTGCCAGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCt > 1:239774/1‑90 (MQ=255)
ttttGGCTGCCAGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCt > 1:340799/1‑90 (MQ=255)
ggCTGCCAGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCtgatg < 1:95695/90‑1 (MQ=255)
cAGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGc > 1:138785/1‑90 (MQ=255)
gcgTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGc < 2:784036/90‑1 (MQ=255)
aGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGc < 1:214890/90‑1 (MQ=255)
aGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGc < 1:689878/90‑1 (MQ=255)
aGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGc < 1:281649/90‑1 (MQ=255)
aGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGc < 2:135547/90‑1 (MQ=255)
tCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGCtg < 2:892708/90‑1 (MQ=255)
cGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGCtgt > 1:561091/1‑90 (MQ=255)
gaagaaACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGCTGTGa < 1:477215/90‑1 (MQ=255)
gaagaaACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGCTGTGa < 1:882998/90‑1 (MQ=255)
gaagaaACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGCTGTGa < 2:428704/90‑1 (MQ=255)
aCTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGGAGGCTTGGATAAata > 1:265237/1‑90 (MQ=255)
ttCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGc < 2:252266/67‑1 (MQ=255)
ttCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGc > 1:252266/1‑67 (MQ=255)
tCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGCTGTGATAAATATACCAGccc < 2:576710/90‑1 (MQ=255)
cAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCCGGGTGTGGTAAATATACCAGCCCgg > 1:685713/1‑90 (MQ=255)
cAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGCTGTGATAAATATACCAGCCCgg > 2:664621/1‑90 (MQ=255)
ggTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGCTGTGATAAATATAACAGCCCGGtt > 1:755028/1‑90 (MQ=255)
cGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGCTGTGATAAATATACCAGCCCGGTTTGGCGCTa < 2:213869/90‑1 (MQ=255)
aGGGGAAAATATCGCCTGATGACTGGCGGGCAGGCTGTGATAAATATACCAGCCCGGTTTGGCGCTACGTTTAATTTTATGCCCGTCGcc < 2:392863/90‑1 (MQ=255)
|
TATACATTTTGGCTGCCAGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGAAAAATATCGCCTGATGACTGGCGGGCAGGCTGTGATAAATATACCAGCCCGGTTTGGCGCTACGTTTAATTTTATGCCCGTCGCC > NZ_CP009273/2122594‑2122762
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 31 ≤ 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
GCTTTATACATTTTGGCTGCCAGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGAAAAATATCGCCTGATGACTGGCGGGCAGGCTGTGATAAATATACCAGCCCGGTTTGGCGCTACGTTTAATTTTATGCCCGTCGCCAAAATCCAGCAGC > NZ_CP009273/2122590‑2122775
|
GCTTTATACATTTTGGCTGCCAGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCT > SRR3722072.137970/1‑100 (MQ=60)
GCTTTATACATTTTGGCTGCCAGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCT > SRR3722072.243792/1‑100 (MQ=60)
GCTTTATACATTTTGGCTGCCAGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCT > SRR3722072.346805/1‑100 (MQ=60)
ATTTTGGCTGCCAGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGG < SRR3722072.771168/100‑1 (MQ=60)
TTTTGGCTGCCAGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGC > SRR3722072.141255/1‑100 (MQ=60)
GGCTGCCAGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGC < SRR3722072.97466/100‑1 (MQ=60)
AGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGCTGT > SRR3722072.571156/1‑100 (MQ=60)
AGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGCTGTGATAAAT < SRR3722072.286469/100‑1 (MQ=60)
AGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGCTGTGATAAAT < SRR3722072.702216/100‑1 (MQ=60)
AGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGCTGTGATAAAT < SRR3722072.218534/100‑1 (MQ=60)
GTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGGAGGCTTGGATAAATA > SRR3722072.269753/1‑100 (MQ=60)
GAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGCTGTGATAAATATACC < SRR3722072.485895/100‑1 (MQ=60)
GAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGCTGTGATAAATATACC < SRR3722072.898201/100‑1 (MQ=60)
AAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCgggcggtgatctgcctcttttac > SRR3722072.256537/1‑77 (MQ=60)
CTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCCGGGTGTGGTAAATATACCAGCCCGG > SRR3722072.697985/1‑100 (MQ=60)
TTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGGAAAATATCGCCTGATGACTGGCGGGCAGGCTGTGATAAATATAACAGCCCGGTT > SRR3722072.768355/1‑100 (MQ=60)
GGGAAAATATCGCCTGATGACTGGCGGGCAGGCTGTGATAAATATACCAGCCCGGTTTGGCGCTACGTTTAATTTTATGCCCGTCGCCAAAATCCAGCAG < SRR3722072.676505/100‑1 (MQ=60)
GGAAAATATCGCCTGATGACTGGCGGGCACGCTGTGCTAAATAGACCAGCCCGGGTTGATCCTACGTTTTATTTTATGCCCGTCGCCAAAAACCAGCAGC > SRR3722072.458916/1‑100 (MQ=59)
|
GCTTTATACATTTTGGCTGCCAGCGCGTAGTCGGAAGAAACTTTATATTCCAGGTCATAACGCCATTTTTTCAAGCCGGATACAGGGAAAAATATCGCCTGATGACTGGCGGGCAGGCTGTGATAAATATACCAGCCCGGTTTGGCGCTACGTTTAATTTTATGCCCGTCGCCAAAATCCAGCAGC > NZ_CP009273/2122590‑2122775
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
