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 |
4,084,653 |
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%
| 49.1
/ 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 (4/13); total (4/13) |
GGCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGACCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCAGA > NZ_CP009273/4084575‑4084738
|
ggCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGAc < 2:148410/90‑1 (MQ=255)
ccGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGggc < 1:247479/90‑1 (MQ=255)
gACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGggcgg > 1:10/1‑90 (MQ=255)
acaATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATc < 1:99833/90‑1 (MQ=255)
aTGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAgc < 2:175240/90‑1 (MQ=255)
ctctTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGAt < 1:11752/90‑1 (MQ=255)
ctctTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGAt < 1:126994/90‑1 (MQ=255)
ccTGTCGGGTAAACAGTTTGGGCGCAATGACCGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTAcc < 2:383956/90‑1 (MQ=255)
gTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGtt > 2:70915/1‑90 (MQ=255)
ttGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCa > 1:212056/1‑74 (MQ=255)
ttGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCa < 2:212056/74‑1 (MQ=255)
ggCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTcc < 1:70915/90‑1 (MQ=255)
gcAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCcagc > 1:87200/1‑90 (MQ=255)
cGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGaa < 1:305144/90‑1 (MQ=255)
cGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGaa < 1:162384/90‑1 (MQ=255)
gTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAg < 1:127265/90‑1 (MQ=255)
cAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCaga < 2:5325/90‑1 (MQ=255)
|
GGCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGACCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCAGA > NZ_CP009273/4084575‑4084738
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CTGTGGCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGACCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCAGAAGAACC > NZ_CP009273/4084571‑4084744
|
CTGTGGCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGG > SRR3722235.10/1‑100 (MQ=60)
CCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCG < SRR3722235.250657/100‑1 (MQ=60)
ACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAA < SRR3722235.101007/100‑1 (MQ=60)
ANTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATG > SRR3722235.255963/1‑100 (MQ=60)
ctcttgtctcgtgggctcggagatgtgtataagagacagGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTAC < SRR3722235.217648/61‑1 (MQ=60)
CTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAG < SRR3722235.11883/100‑1 (MQ=60)
CTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAG < SRR3722235.128459/100‑1 (MQ=60)
GGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGctgtct > SRR3722235.214681/1‑94 (MQ=60)
CAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGC > SRR3722235.88217/1‑100 (MQ=60)
GGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGA < SRR3722235.71724/100‑1 (MQ=60)
GAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCAGAAG > SRR3722235.99318/1‑100 (MQ=60)
CGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCAGAAGAAC < SRR3722235.164256/100‑1 (MQ=60)
CGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCAGAAGAAC < SRR3722235.309430/100‑1 (MQ=60)
GTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCAGAAGAACC < SRR3722235.128735/100‑1 (MQ=60)
|
CTGTGGCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGACCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCAGAAGAACC > NZ_CP009273/4084571‑4084744
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
