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 I122 R1
|
193 |
20.9 |
1228102 |
94.7% |
1163012 |
84.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
4,084,653 |
A→G |
G358G (GGT→GGC) |
frvB ← |
PTS fructose‑like transporter subunit IIBC |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,084,653 | 0 | A | G | 100.0%
| 47.5
/ NA
| 17 | G358G (GGT→GGC) | frvB | PTS fructose‑like transporter subunit IIBC |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (7/10); total (7/10) |
GGCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGACCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGA > NZ_CP009273/4084575‑4084732
|
ggCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGAc < 1:514809/90‑1 (MQ=255)
ccGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGggc < 2:291047/90‑1 (MQ=255)
actactGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGAc < 2:220027/90‑1 (MQ=255)
gCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCcg > 2:145617/1‑90 (MQ=255)
ccTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACaa < 1:148908/81‑1 (MQ=255)
ccTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACaa > 2:148908/1‑81 (MQ=255)
ccTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCcgacga > 2:579179/1‑90 (MQ=255)
cttttttcCCTGTCGGGTAAACAGTTTGGGCTCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGAt < 1:9584/87‑1 (MQ=255)
ctctTTTTCCTGTCGGGTAAACAGTTGGGGCGCAAAGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGAt < 1:390991/90‑1 (MQ=255)
cTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCa < 2:583205/90‑1 (MQ=255)
cTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCa < 2:415262/90‑1 (MQ=255)
cTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCa < 1:201114/90‑1 (MQ=255)
ggCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTcc < 1:579179/90‑1 (MQ=255)
cgcAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCcag > 1:174304/1‑90 (MQ=255)
aaCGTTGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTgag > 1:3130/1‑90 (MQ=255)
aaCGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTgag > 1:308051/1‑90 (MQ=255)
aCGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTgaga > 2:269575/1‑90 (MQ=255)
|
GGCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGACCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGA > NZ_CP009273/4084575‑4084732
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GGCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGACCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCAGAAGAACCAGGCGGT > NZ_CP009273/4084575‑4084751
|
GGCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATC < SRR3721989.525796/100‑1 (MQ=60)
TACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGAT < SRR3721989.151609/100‑1 (MQ=60)
CTTTTTTCCCTGTCGGGTAAACAGTTTGGGCTCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAG < SRR3721989.9757/100‑1 (MQ=60)
CTCTTTTTCCTGTCGGGTAAACAGTTGGGGCGCAAAGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAG < SRR3721989.398891/100‑1 (MQ=60)
CTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATG < SRR3721989.204780/100‑1 (MQ=60)
ACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAG > SRR3721989.177500/1‑100 (MQ=60)
GGGCGCAATGAACGTTGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAG > SRR3721989.3188/1‑100 (MQ=60)
GGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAG > SRR3721989.313875/1‑100 (MQ=60)
GGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGA < SRR3721989.591758/100‑1 (MQ=60)
TCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCAGAAGAACCA > SRR3721989.40514/1‑100 (MQ=60)
GGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCAGAAGAACCAGGCGGT > SRR3721989.199801/1‑100 (MQ=60)
|
GGCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGACCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCAGAAGAACCAGGCGGT > NZ_CP009273/4084575‑4084751
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
