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 I206 R1
|
206 |
23.7 |
1314362 |
96.8% |
1272302 |
86.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,888,711 |
A→G |
V143A (GTC→GCC) |
ygcQ ← |
electron transfer flavoprotein subunit alpha/FixB family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,888,711 | 0 | A | G | 100.0%
| 55.1
/ NA
| 18 | V143A (GTC→GCC) | ygcQ | electron transfer flavoprotein subunit alpha/FixB family protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (10/8); total (10/8) |
GCACCCGTCTGGCCTCAGCTAATGGGTCGCGGGTAACATTTTTCAGATCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGACAATGTTCAGTTGTTGCATTCCAGAGGGCAACGTGGCGTTTTTCGCTGCTCCCGCCTGACGCGCCAGGGAAAGGCATAGCG > NZ_CP009273/2888625‑2888792
|
gCACCCGTCTGGCCTCAGCTAATGGGTCGCGGGTAACATTTTTCAGATCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGGCaa < 1:43330/90‑1 (MQ=255)
gCACCCGTCTGGCCTCAGCTAATGGGTCGCGGGTAACATTTTTCAGATCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGGCaa < 2:267225/90‑1 (MQ=255)
cGTCTGGCCTCAGCTAATGGGTCGCGGGTAACATTTTTCAGATCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGGCAATGTTc > 2:239536/1‑90 (MQ=255)
cAGCTAATGGGTCGCGGGTAACATTTTTCAGATCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGGCAATGTTCAGTTGTTGCa > 1:157469/1‑90 (MQ=255)
aGCTAATGGGTCGCGGGTAACATTTTTTAGATCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGGCAATGTTCAGTTGTTGCAt < 2:480924/90‑1 (MQ=255)
aaTGGGTCGCGGGTAACATTTTTCAGATCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGGCAATGTTCAGTTGTTGCATTCCa > 2:268343/1‑90 (MQ=255)
gTCGCGGGTAACATTTTTCAGATCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGGCAATGTTc > 1:2804/1‑70 (MQ=255)
gTCGCGGGTAACATTTTTCAGATCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGGCAATGTTc < 2:2804/70‑1 (MQ=255)
gTCGCGGGTAACATTTTTCAGATCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGGCAATGTTCAGTTGTTGCATTCCAGAggg > 1:360008/1‑90 (MQ=255)
gATCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGGCAATGTTCAGTTGTTGCATTCCAGAGGGCAACGTGGCGTTTTTCgctg > 2:50950/1‑90 (MQ=255)
aTCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGGCAATGTTCAGTTGTTGCATTCCAGAGGGCAACGTGGCGTTTTTCgctgc > 1:550343/1‑90 (MQ=255)
agccagTCCGGAAGCGCACCCGGGGCAATGTTCAGTTGTTGCATTCCAGAGGGCAACGTGGCGTTTTTCGCTGCTCCCGCCTGACGCGcc < 2:550343/90‑1 (MQ=255)
gccagTCCGGAAGCGCACCCGGGGCAATGTTCAGTTGTTGCATTCCAGAGGGCAACGTGGCGTTTTTCGCTGCTCCCGCCTGACGCGCCa > 2:264949/1‑90 (MQ=255)
gTCCGGAAGCGCACCCGGGGCAATGTTCAGTTGTTGCAt < 1:96418/39‑1 (MQ=39)
gTCCGGAAGCGCACCCGGGGCAATGTTCAGTTGTTGCAt > 2:96418/1‑39 (MQ=39)
aaGCGCACCCGGGGCAATGTTCAGTTGTTGCATTCCAGAGGGCAACGTGGCGTTTTTCGCTGCTCCCGCCTGACGCGCCAGGGAAAGGCa < 2:586902/90‑1 (MQ=255)
gcACCCGGGGCAATGTTCAGTTGTTGCATTCCAGAGGGCAACGTGGCGTTTTTCGCTGCTCCCGCCTGACGCGCCAGGGAAAGGCATAGc > 1:591068/1‑90 (MQ=255)
cACCCGGGGCAATGTTCAGTTGTTGCATTCCAGAGGGCAACGTGGCGTTTTTCGCTGCTCCCGCCTGACGCGCCAGGGAAAGGCATAGCg < 1:537843/90‑1 (MQ=255)
|
GCACCCGTCTGGCCTCAGCTAATGGGTCGCGGGTAACATTTTTCAGATCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGACAATGTTCAGTTGTTGCATTCCAGAGGGCAACGTGGCGTTTTTCGCTGCTCCCGCCTGACGCGCCAGGGAAAGGCATAGCG > NZ_CP009273/2888625‑2888792
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ 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
GCACCCGTCTGGCCTCAGCTAATGGGTCGCGGGTAACATTTTTCAGATCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGACAATGTTCAGTTGTTGCATTCCAGAGGGCAACGTGGCGTTTTTCGCTGCTCCCGCCTGACGCGCCAGGGAAAGGCATAGCGGGCGTTTTTCTGTTTG > NZ_CP009273/2888625‑2888808
|
GCACCCGTCTGGCCTCAGCTAATGGGTCGCGGGTAACATTTTTCAGATCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGGCAATGTTCAGTTG < SRR3722088.43772/100‑1 (MQ=60)
CGTCTGGCCTCAGCTAATGGGTCGCGGGTAACATTTTTCAGATCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGGCAATGTTCAGTTGTTGCA > SRR3722088.159048/1‑100 (MQ=60)
CAGCTAATGGGTCGCGGGTAACATTTTTCAGATCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGGCAATGTTCAGTTGTTGCActgtctctta > SRR3722088.2837/1‑90 (MQ=60)
CAGCTAATGGGTCGCGGGTAACATTTTTCAGATCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGGCAATGTTCAGTTGTTGCATTCCAGAGGG > SRR3722088.363821/1‑100 (MQ=60)
tagtacggtctcgtgggctcggagatgtgtataagagacagTAACCAGCCAGTCCGGAAGCGCACCCGGGGCAATGTTCAGTTGTTGCATTCCAGAGGGC < SRR3722088.97407/59‑1 (MQ=60)
CATTTTTCAGATCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGGCAATGTTCAGTTGTTGCATTCCAGAGGGCAACGTGGCGTTTTTCGCTGC > SRR3722088.557072/1‑100 (MQ=60)
GTCCGGAAGCGCACCCGGGGCAATGTTCAGTTGTTGCATTCCAGAGGGCAACGTGGCGTTTTTCGCTGCTCCCGCCTGACGCGCCAGGGAAAGGCATAGC > SRR3722088.598326/1‑100 (MQ=60)
CACCCGGGGCAATGTTCAGTTGTTGCATTCCAGAGGGCAACGTGGCGTTTTTCGCTGCTCCCGCCTGACGCGCCAGGGAAAGGCATAGCGGGCGTTTTTC < SRR3722088.544389/100‑1 (MQ=60)
CCCGGGGCAATGTTCAGTTGTTGCATTCCAGAGGGCAACGTGGCGTTTTTCGCTGCTCCCGCCTGACGCGCCAGGGAAAGGCATAGCGGGCGTTTTTCTG > SRR3722088.216673/1‑100 (MQ=60)
GGGCAATGTTCAGTTGTTGCATTCCAGAGGGCAACGTGGCGTTTTTCGCTGCTCCCGCCTGACGCGCCAGGGAAAGGCATAGCGGGCGTTTTTCTGTTTG > SRR3722088.239192/1‑100 (MQ=60)
|
GCACCCGTCTGGCCTCAGCTAATGGGTCGCGGGTAACATTTTTCAGATCCTCTGTGCTAACCAGCCAGTCCGGAAGCGCACCCGGGACAATGTTCAGTTGTTGCATTCCAGAGGGCAACGTGGCGTTTTTCGCTGCTCCCGCCTGACGCGCCAGGGAAAGGCATAGCGGGCGTTTTTCTGTTTG > NZ_CP009273/2888625‑2888808
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
