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 |
|
A2 F5 I184 R1
|
278 |
29.6 |
1166432 |
97.3% |
1134938 |
124.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
832,557 |
T→C |
S251P (TCC→CCC) |
hcxB → |
hydroxycarboxylate dehydrogenase HcXB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 832,557 | 0 | T | C | 100.0%
| 54.2
/ NA
| 17 | S251P (TCC→CCC) | hcxB | hydroxycarboxylate dehydrogenase HcXB |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (8/9); total (8/9) |
ATTGACGTTAACGGCGTGCCGACGACCAATCCGGCGGTAATGCAGGAGTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTTCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAACCCGGAACTCTTCGGCGCGCCGGATTGTAACGCGCAGACCG > NZ_CP009273/832425‑832680
|
aTTGACGTTAACGGCGTGCCGACGACCAATCCGGCGGTAATGCAGGAGTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCcgg < 2:90022/137‑1 (MQ=255)
gTGCCGACGACCAATCCGGCGGTAATGCAGGAGTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCAt > 1:316130/1‑138 (MQ=255)
tGCCGACGACCAATCCGGCGGTAATGCAGGAGTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCAt > 2:505534/1‑137 (MQ=255)
aaTCCGGCGGTAATGCAGGAGTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTAc < 1:473747/139‑1 (MQ=255)
gTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCAtt < 1:443565/139‑1 (MQ=255)
gCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGAcc < 2:36752/139‑1 (MQ=255)
gCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGAc < 1:439784/138‑1 (MQ=255)
gCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGAc > 1:452805/1‑138 (MQ=255)
gCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGAc < 1:461229/138‑1 (MQ=255)
gCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGAc < 1:505534/138‑1 (MQ=255)
gACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTat < 1:406924/138‑1 (MQ=255)
tGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTatcatcat > 1:509336/1‑138 (MQ=255)
cGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAACCCGGAACTCTTCGgc > 1:425432/1‑139 (MQ=255)
aTGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGc < 2:12720/90‑1 (MQ=255)
aTGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGc > 1:12720/1‑90 (MQ=255)
ttGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAACCCGGAACTCTTCGGCGCGCCGGATTGTAACGCGCAGACCg > 1:459839/1‑138 (MQ=255)
ttGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAACCCGGAACTCTTCGGCGCGCCGGATTGTAACGCGCAGACCg > 2:575185/1‑138 (MQ=255)
|
ATTGACGTTAACGGCGTGCCGACGACCAATCCGGCGGTAATGCAGGAGTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTTCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAACCCGGAACTCTTCGGCGCGCCGGATTGTAACGCGCAGACCG > NZ_CP009273/832425‑832680
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GTGCCGCCAGGTTGCCTGATTGACGTTAACGGCGTGCCGACGACCAATCCGGCGGTAATGCAGGAGTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTTCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAACCCGGAACTCTTCGGCGCGCCGGATTGTAACGCGCAGACCGA > NZ_CP009273/832407‑832681
|
GTGCCGCCAGGTTGCCTGATTGACGTTAACGGCGTGCCGACGACCAATCCGGCGGTAATGCAGGAGTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTC > SRR3722139.37152/1‑151 (MQ=60)
GCCAGGTTGCCTGATTGACGTTAACGGCGTGCCGACGACCAATCCGGCGGTAATGCAGGAGTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGC < SRR3722139.289755/151‑1 (MQ=60)
ACGTTAACGGCGTGCCGACGACCAATCCGGCGGTAATGCAGGAGTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATC > SRR3722139.320037/1‑150 (MQ=60)
CAATCCGGCGGTAATGCAGGAGTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCC < SRR3722139.479260/151‑1 (MQ=60)
AGTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCAT < SRR3722139.448770/151‑1 (MQ=60)
CCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACC > SRR3722139.458099/1‑150 (MQ=60)
CGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCA < SRR3722139.444944/150‑1 (MQ=60)
CGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCA < SRR3722139.466629/150‑1 (MQ=60)
CGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCA < SRR3722139.511364/150‑1 (MQ=60)
CTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATC > SRR3722139.515208/1‑150 (MQ=60)
TGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAACC < SRR3722139.411732/150‑1 (MQ=60)
CATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAACCCGGAACTCTTCGGCG > SRR3722139.430440/1‑151 (MQ=60)
CCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCtgtctcttatacacatctccgagcccacgagaccgtac > SRR3722139.12849/1‑113 (MQ=60)
GTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAACCCGGAACTCTTCGGCGCGCCGGATTGTAACGCGCAGACCGA > SRR3722139.465224/1‑150 (MQ=60)
|
GTGCCGCCAGGTTGCCTGATTGACGTTAACGGCGTGCCGACGACCAATCCGGCGGTAATGCAGGAGTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTTCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAACCCGGAACTCTTCGGCGCGCCGGATTGTAACGCGCAGACCGA > NZ_CP009273/832407‑832681
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
