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 I230 R1
|
226 |
18.8 |
1048726 |
96.7% |
1014118 |
86.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
3,785,687 |
G→C |
G75G (GGC→GGG) |
kbl ← |
glycine C‑acetyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,785,687 | 0 | G | C | 100.0%
| 71.8
/ NA
| 23 | G75G (GGC→GGG) | kbl | glycine C‑acetyltransferase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base C (17/6); total (17/6) |
CCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATGCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCAC > NZ_CP009273/3785609‑3785769
|
ccccAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTg > 2:334869/1‑90 (MQ=255)
aGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGGGAGaa > 1:512386/1‑90 (MQ=255)
aaGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATcc > 2:45269/1‑90 (MQ=255)
cgccAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTcc < 2:360890/90‑1 (MQ=255)
tGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgat > 2:358967/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 1:345284/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 2:374844/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 2:274099/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 2:206353/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 1:380508/1‑90 (MQ=255)
gAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCg > 1:508120/1‑90 (MQ=255)
gAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCg > 2:89248/1‑90 (MQ=255)
gTGCCGCAAATAAACCGCCCCGAAGCCTTCCCGAACCCGTGAGAACCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGcc < 2:254640/90‑1 (MQ=255)
gTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGcc < 2:101915/90‑1 (MQ=255)
gCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAg > 2:402668/1‑90 (MQ=255)
ccGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAatc > 1:465728/1‑69 (MQ=255)
ccGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAatc < 2:465728/69‑1 (MQ=255)
ccGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGc > 2:240152/1‑90 (MQ=255)
ccGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGc > 2:342755/1‑90 (MQ=255)
ccGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGc > 2:457083/1‑90 (MQ=255)
gCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGccc < 1:457083/90‑1 (MQ=255)
gCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGccc > 1:266412/1‑90 (MQ=255)
aacccATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGcac < 2:520905/87‑1 (MQ=255)
|
CCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATGCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCAC > NZ_CP009273/3785609‑3785769
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 29 ≤ 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
GTAGAGAATCGCATCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATGCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTG > NZ_CP009273/3785588‑3785762
|
GTAGAGAATCGCATCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATC > SRR3722114.26004/1‑100 (MQ=60)
ATCGCATCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAAC < SRR3722114.346986/100‑1 (MQ=60)
TTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGGGAGAA > SRR3722114.518812/1‑100 (MQ=60)
CTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATG > SRR3722114.349221/1‑100 (MQ=60)
CTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATG > SRR3722114.385103/1‑100 (MQ=60)
TGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCG > SRR3722114.514490/1‑100 (MQ=60)
GTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATctgtctcttat > SRR3722114.471549/1‑89 (MQ=60)
CCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCC > SRR3722114.269139/1‑100 (MQ=60)
GCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTG < SRR3722114.462788/100‑1 (MQ=60)
|
GTAGAGAATCGCATCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATGCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTG > NZ_CP009273/3785588‑3785762
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
