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 I210 R1
|
226 |
19.6 |
1130256 |
95.4% |
1078264 |
84.4 |
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%
| 81.8
/ NA
| 26 | G75G (GGC→GGG) | kbl | glycine C‑acetyltransferase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base C (15/11); total (15/11) |
CCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATGCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACAA > NZ_CP009273/3785611‑3785771
|
ccAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTgag > 1:97067/1‑90 (MQ=255)
ccAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTgag < 2:303760/90‑1 (MQ=255)
aGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGaa > 2:476658/1‑90 (MQ=255)
aGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCa > 2:512630/1‑90 (MQ=255)
ttGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTgc < 2:501354/90‑1 (MQ=255)
cAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCCCCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGccgccg < 1:21578/90‑1 (MQ=255)
tctTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCCCCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAatc < 1:256696/90‑1 (MQ=255)
tctTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAatc < 1:79243/90‑1 (MQ=255)
tctTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAatc < 2:329423/90‑1 (MQ=255)
aTGGCTGTCCTGAGTGCCGCAAATAAAACGCCCCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAatcagatc < 1:383156/90‑1 (MQ=255)
aTGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAatcagatc < 1:383097/90‑1 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 2:1943/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 2:464236/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 2:443428/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 2:375503/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 1:210312/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 1:555035/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 1:24770/1‑90 (MQ=255)
gAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGGCTTTGCCGCCGCAATCAGATCAGGATGATTCg > 2:479945/1‑90 (MQ=255)
ccGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGc > 2:450065/1‑90 (MQ=255)
ccGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGc < 1:375503/90‑1 (MQ=255)
ccGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGc > 2:545411/1‑90 (MQ=255)
ccGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGc > 2:6026/1‑90 (MQ=255)
gCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGccc < 1:450065/90‑1 (MQ=255)
cACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAgttgtt > 1:452922/1‑90 (MQ=255)
gCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACaa < 2:18437/90‑1 (MQ=255)
|
CCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATGCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACAA > NZ_CP009273/3785611‑3785771
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 24 ≤ 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
ATCGCATCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATGCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACAAAAGTTAATGA > NZ_CP009273/3785595‑3785781
|
ATCGCATCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAAC < SRR3722092.182873/100‑1 (MQ=60)
TCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAG > SRR3722092.98729/1‑100 (MQ=60)
CAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCCCCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATC < SRR3722092.21939/100‑1 (MQ=60)
TCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCCCCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGAT < SRR3722092.260883/100‑1 (MQ=60)
TCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGAT < SRR3722092.80604/100‑1 (MQ=60)
CTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATG > SRR3722092.213774/1‑100 (MQ=60)
CTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATG > SRR3722092.25194/1‑100 (MQ=60)
CTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATG > SRR3722092.566168/1‑100 (MQ=60)
ATGGCTGTCCTGAGTGCCGCAAATAAAACGCCCCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTC < SRR3722092.390439/100‑1 (MQ=60)
ATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTC < SRR3722092.390377/100‑1 (MQ=60)
CCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGT < SRR3722092.382601/100‑1 (MQ=60)
GCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTG < SRR3722092.458931/100‑1 (MQ=60)
AAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTT > SRR3722092.461855/1‑100 (MQ=60)
GCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACAAAAGTTAATGA > SRR3722092.349412/1‑100 (MQ=60)
|
ATCGCATCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATGCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACAAAAGTTAATGA > NZ_CP009273/3785595‑3785781
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
