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 I229 R1
|
214 |
17.4 |
943020 |
97.5% |
919444 |
87.1 |
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%
| 34.0
/ NA
| 14 | G358G (GGT→GGC) | frvB | PTS fructose‑like transporter subunit IIBC |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (9/5); total (9/5) |
GGCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGACCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCA > NZ_CP009273/4084575‑4084736
|
ggCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGAc < 1:200094/90‑1 (MQ=255)
gACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGggcgg > 2:204587/1‑90 (MQ=255)
ccACAATGGCACTACTGGCACCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCa < 2:332056/90‑1 (MQ=255)
gCACTACTGGCAGCCTCTTTTTCCTGTCGGGGAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGcgcg > 1:13329/1‑90 (MQ=255)
actactGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGAc > 2:471136/1‑90 (MQ=255)
actGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAAc > 1:72942/1‑90 (MQ=255)
ggCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGcc > 1:161052/1‑90 (MQ=255)
cAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCcga > 1:176603/1‑90 (MQ=255)
cAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAAtgtg < 1:422887/90‑1 (MQ=255)
gTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGtt > 1:339010/1‑90 (MQ=255)
ttGGGCGCAATGAACGTCGCAAGGCCGGCCGCGACGGGCGGCAGCAGCGCGACAACGCCGACGAGGGCGTCCCAGGCATAAAGGTGtttt > 2:446478/1‑90 (MQ=255)
ggCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTcc < 1:198881/90‑1 (MQ=255)
cGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGaa < 1:126962/90‑1 (MQ=255)
cGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCa > 2:129981/1‑90 (MQ=255)
|
GGCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGACCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCA > NZ_CP009273/4084575‑4084736
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TCGGTTGCGACTGTGGCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGACCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCAGAAGAAC > NZ_CP009273/4084561‑4084743
|
TCGGTTGCGACTGTGGCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCG < SRR3722113.289417/100‑1 (MQ=60)
GGCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATC < SRR3722113.201640/100‑1 (MQ=60)
GACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGGAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCG > SRR3722113.13452/1‑100 (MQ=60)
CAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAAC > SRR3722113.73579/1‑100 (MQ=60)
TGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCC > SRR3722113.162373/1‑100 (MQ=60)
GCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGA > SRR3722113.178007/1‑100 (MQ=60)
CGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTT > SRR3722113.342471/1‑100 (MQ=60)
CAGTTTGGGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCACC < SRR3722113.427353/100‑1 (MQ=60)
GGCGCAATGAACGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGA < SRR3722113.200423/100‑1 (MQ=60)
CGTCGCAAGGCCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCAGAAGAAC < SRR3722113.128036/100‑1 (MQ=60)
|
TCGGTTGCGACTGTGGCACCGACCACAATGGCACTACTGGCAGCCTCTTTTTCCTGTCGGGTAAACAGTTTGGGCGCAATGAACGTCGCAAGACCCGCCGCGACGGGCGGCATCAGCGCGACAACGCCGACGATGGCGTACCAGTCATAAATGTGTTTTTCCAGCAGTGAGAAGCAGAAGAAC > NZ_CP009273/4084561‑4084743
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
