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 I225 R1
|
227 |
21.4 |
1179702 |
97.1% |
1145490 |
86.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
3,505,986 |
T→C |
intergenic (‑283/+7) |
BW25113_RS17530 ← / ← trpS |
GntR family transcriptional regulator YhfZ/tryptophan‑‑tRNA ligase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,505,986 | 0 | T | C | 100.0%
| 71.0
/ NA
| 23 | intergenic (‑283/+7) | BW25113_RS17530/trpS | GntR family transcriptional regulator YhfZ/tryptophan‑‑tRNA ligase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (15/8); total (15/8) |
ATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGCTTTTTCCGCGC > NZ_CP009273/3505899‑3506072
|
aTTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAg < 1:550915/90‑1 (MQ=255)
aTTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCcac > 2:530547/1‑90 (MQ=255)
tACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACaa < 1:107786/90‑1 (MQ=255)
tACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACaa > 2:107786/1‑90 (MQ=255)
aCTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACaaa > 1:462313/1‑90 (MQ=255)
cTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACaaaa > 2:287536/1‑90 (MQ=255)
ttGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAAcc > 2:479656/1‑90 (MQ=255)
ttGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAAcc > 2:209128/1‑90 (MQ=255)
gTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCaa > 2:387503/1‑90 (MQ=255)
ggCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCg > 1:553857/1‑90 (MQ=255)
ccGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCt > 1:274160/1‑90 (MQ=255)
cGGATAGGGGGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCtt < 1:437368/90‑1 (MQ=25)
gATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCg > 2:260979/1‑90 (MQ=255)
ttCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCt > 2:81096/1‑90 (MQ=255)
ccgcATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGc < 1:23598/90‑1 (MQ=255)
ggCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGa < 1:260979/90‑1 (MQ=255)
gAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCg > 2:317779/1‑57 (MQ=255)
gAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCg < 1:317779/57‑1 (MQ=255)
gAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGt > 1:519831/1‑90 (MQ=255)
cAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGc > 2:417767/1‑90 (MQ=255)
cAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGc > 1:257652/1‑90 (MQ=255)
aGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGCTTTTTCcgc < 1:329004/90‑1 (MQ=255)
cAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGCTTTTTCCgcgc < 2:519831/90‑1 (MQ=255)
|
ATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGCTTTTTCCGCGC > NZ_CP009273/3505899‑3506072
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 33 ≤ 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
TCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGCTTTTTCCGCGCCATCTTTC > NZ_CP009273/3505889‑3506080
|
TCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAG < SRR3722109.120765/100‑1 (MQ=60)
ATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGG < SRR3722109.559290/100‑1 (MQ=60)
TATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAA > SRR3722109.469253/1‑100 (MQ=60)
TTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCG > SRR3722109.562272/1‑100 (MQ=60)
TACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGC < SRR3722109.109132/100‑1 (MQ=60)
ACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCT > SRR3722109.277600/1‑100 (MQ=60)
cgtcagatgtgtataagagacaGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACAC < SRR3722109.321966/78‑1 (MQ=60)
CGGATAGGGGGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGC < SRR3722109.443837/100‑1 (MQ=60)
CCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAG < SRR3722109.23903/100‑1 (MQ=60)
CATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGT > SRR3722109.527746/1‑100 (MQ=60)
GGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCG < SRR3722109.264159/100‑1 (MQ=60)
GAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGC > SRR3722109.260762/1‑100 (MQ=60)
GCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGCTTTTTCCGCGCCATCT > SRR3722109.13539/1‑100 (MQ=60)
AGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGCTTTTTCCGCGCCATCTTTC < SRR3722109.333354/100‑1 (MQ=60)
|
TCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGCTTTTTCCGCGCCATCTTTC > NZ_CP009273/3505889‑3506080
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
