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 I195 R1
|
222 |
27.1 |
1551108 |
96.0% |
1489063 |
86.0 |
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%
| 47.3
/ NA
| 16 | G358G (GGT→GGC) | frvB | PTS fructose‑like transporter subunit IIBC |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (9/7); total (9/7) |
GACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGACCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAG > NZ_CP009273/4084581‑4084731
|
gACCACTATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGggcgg > 1:715583/1‑90 (MQ=255)
gACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGggcgg > 1:29169/1‑90 (MQ=255)
ccACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCa < 2:253266/90‑1 (MQ=255)
ccACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCa < 2:268118/90‑1 (MQ=255)
gCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGACCGCCGCGACGGGCGGCATCAGcgcg > 1:580310/1‑90 (MQ=255)
actGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAAc > 1:20261/1‑90 (MQ=255)
ggCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGcc > 2:462791/1‑90 (MQ=255)
tCCTGTCGGGTAACCAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTAc < 2:375682/90‑1 (MQ=255)
ccTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTAcc < 2:688423/90‑1 (MQ=255)
cTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCa < 2:382777/90‑1 (MQ=255)
cTGGCGGGTAAACAGTTCGGGCCCAATGAACCTCCCAAGGCCCGCCGCGACGGGGGGCATCAGCGCGACAACGCCGACGATGGCGTACCa < 1:91745/90‑1 (MQ=255)
gTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGt > 2:530752/1‑90 (MQ=255)
aaaCAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAAt > 2:14808/1‑90 (MQ=255)
ttGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGtttt > 1:290214/1‑90 (MQ=255)
ggCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTcc < 1:666027/90‑1 (MQ=255)
aaCGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTgag > 1:370534/1‑90 (MQ=255)
|
GACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGACCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAG > NZ_CP009273/4084581‑4084731
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CTGTGGCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGACCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCAGAAGAACCA > NZ_CP009273/4084571‑4084745
|
CTGTGGCACCGACCACTATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGG > SRR3722073.730043/1‑100 (MQ=60)
CTGTGGCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGG > SRR3722073.29914/1‑100 (MQ=60)
ccgctCACAATGGCACTACGGGCGGCCACTTTTTCCGGTCGGGTAAACAGTTAGGGCGCAACGAACGTCGCAGGGCCCGCCGCGACGGGCGGCATCAGCG < SRR3722073.112685/95‑1 (MQ=60)
GACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGACCGCCGCGACGGGCGGCATCAGCGCG > SRR3722073.592423/1‑100 (MQ=60)
CAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAAC > SRR3722073.20772/1‑100 (MQ=60)
CTGGCGGGTAAACAGTTCGGGCCCAATGAACCTCCCAAGGCCCGCCGCGACGGGGGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATG < SRR3722073.93799/100‑1 (MQ=60)
GGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTT > SRR3722073.296348/1‑100 (MQ=60)
GGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAG > SRR3722073.378384/1‑100 (MQ=60)
GGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGA < SRR3722073.679670/100‑1 (MQ=60)
ATGAACGGCGCAATGCTCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATCGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCAGA > SRR3722073.171821/1‑100 (MQ=60)
TCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAGATGTGTTTTTCCAGCAGTGAGAAGCAGAAGAACCA > SRR3722073.754736/1‑100 (MQ=60)
TCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGctgtctcttatacacatctgacgctgccgacg > SRR3722073.504420/1‑68 (MQ=60)
|
CTGTGGCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGACCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCAGAAGAACCA > NZ_CP009273/4084571‑4084745
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
