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 |
|
A13 F1 I2 R1
|
762 |
35.5 |
1545288 |
95.5% |
1475750 |
117.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
379,606 |
C→T |
*92* (TAG→TAA) |
frmR ← |
regulator protein that represses frmRAB operon |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 379,606 | 0 | C | T | 96.0%
| 71.2
/ ‑6.4
| 25 | *92* (TAG→TAA) | frmR | regulator protein that represses frmRAB operon |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base T (14/10); total (15/10) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CACTTCACCTTTTTTCGGTGGTGCAACGTCAATTTCAACGATTTCCAGCGGTTTACCGGGAGCAAATGCAACGGCAGCACGTGATTTCATCTCTCGCTCTTCCTCAATATGGTAATAGATTCAGCTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGATTGGCTGACTTCGCGGCTGTAGCAGTCATTTCGGTCAAACGTTTCCCGGATATGGCTTTCAAGCACTTCTGCCATCAGCCCATTAGC > NC_000913/379482‑379737
|
cACTTCACCTTTTTTCGGTGGTGCAACGTCAATTTCAACGATTTCCAGCGGTTTACCGGGAGCAAATGCAACGGCAGCACGTGATTTCATCTCTCGCTCTTCCTCAATATGGTAATAGATTCAGTTATTTAAGATAGGc > 1:721577/1‑139 (MQ=255)
aCCTTTTTTCGGTGGTGCAACGTCAATTTCAACGATTTCCAGCGGTTTACCGGGAGCAAATGCAACGGCAGCACGTGATTTCATCTCTCGCTCTTCCTCAATATGGTAATAGATTCAGTTATTTAAGATAGGCACGAAc < 1:669362/139‑1 (MQ=255)
aCCTTTTTTCGGTGGTGCAACGTCAATTTCAACGATTTCCAGCGGTTTACCGGGAGCAAATGCAACGGCAGCACGTGATTTCATCTCTCGCTCTTCCTCAATATGGTAATAGATTCAGTTATTTAAGATAGGCACGAAc < 1:358569/139‑1 (MQ=255)
aaTTTCAACGATTTCCAGCGGTTTACCGGGAGCAAATGCAACGGCAGCACGTGATTTCATCTCTCGCTCTTCCTCAATATGGTAATAGATTCAGTTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGa < 2:659289/139‑1 (MQ=255)
aaTTTCAACGATTTCCAGCGGTTTACCGGGAGCAAATGCAACGGCAGCACGTGATTTCATCTCTCGCTCTTCCTCAATATGGTAATAGATTCAGTTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGa > 1:633268/1‑139 (MQ=255)
aCGATTTCCAGCGGTTTACCGGGAGCAAATGCAACGGCAGCACGTGATTTCATCTCTCGCTCTTCCTCAATATGGTAATAGATTCAGTTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGATTGGCTg > 2:331283/1‑139 (MQ=255)
gTTTACCGGGAGCAAATGCAACGGCAGCACGTGATTTCATCTCTCGCTCTTCCTCAATATGGTAATAGATTCAGTTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGATTGGCTGACTTCGCGGCTGt < 1:239921/139‑1 (MQ=255)
tACCGGGAGCAAATGCAACGGCAGCACGTGATTTCATCTCTCGCTCTTCCTCAATATGGTAATAGATTCAGTTAtt > 1:281757/1‑76 (MQ=255)
tACCGGGAGCAAATGCAACGGCAGCACGTGATTTCATCTCTCGCTCTTCCTCAATATGGTAATAGATTCAGTTAtt < 2:281757/76‑1 (MQ=255)
aCGGCAGCACGTGATTTCATCTCTCGCTCTTCCTCAATATGGTAATAGATTCAGTTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGATTGGCTGACTTCGCGGCTGTAGCAGTCATTTCGGTCAAAc < 1:18481/139‑1 (MQ=255)
gcagcaCGTGATTTCATCTCTCGCTCTTCCTCAATATGGTAATAGATTCAGTTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGATTGGCTGACTTCGCGGCTGTAGCAGTCATTTCGGTCAAACGtt > 2:39011/1‑139 (MQ=255)
tcGCTCTTCCTCAATATGGTAATAGATTCAGTTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGATTGGCTGACTTCGCGGCTGTAGCAGTCATTTCGGTCAAACGTTTCCCGGATATGGCTTTCAAg < 2:406094/139‑1 (MQ=255)
tatGGTAATAGATTCAGTTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGATTGGCt > 1:179494/1‑68 (MQ=255)
tatGGTAATAGATTCAGTTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGATTGGCt < 2:179494/68‑1 (MQ=255)
tatGGTAATAGATTCAGTTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGATTGGCTGACTTCGCGGCTGTAGCAGTCATTTCGGTCAAACGTTTCCCGGATATGGCTTTCAAGCACTTCTGCCATCa > 1:733889/1‑139 (MQ=255)
tGGTAATAGATTCAGTTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGATTGGCTGACTTCGCGGCTGTAGCAGTCATTTCGGTCAAACGTTTCCCGGATATGGCTTTCAAGCACTTCTGCCATCAGc > 1:105464/1‑139 (MQ=255)
tAGATTCAGTTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGATTGGCTGACTTCGCGGCTGTAGCAGTCATTTCGGTCAAACGTTTCCCGGATATgg < 2:705878/109‑1 (MQ=255)
tAGATTCAGTTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGATTGGCTGACTTCGCGGCTGTAGCAGTCATTTCGGTCAAACGTTTCCCGGATATgg > 1:705878/1‑109 (MQ=255)
tAGATTCAGTTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGATTGGCTGACTTCGCGGCTGTAGCAGTCATTTCGGTCAAACGTTTCCCGGATATGGCTTTCAAGCACTTCTGCCATCAGCCCATTa > 2:767322/1‑139 (MQ=255)
tAGATTCAGTTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGATTGGCTGACTTCGCGGCTGTAGCAGTCATTTCGGTCAAACGTTTCCCGGATATGGCTTTCAAGCACTTCTGCCATCAGCCCATTa > 1:688321/1‑139 (MQ=255)
tAGATTCAGCTATTTAAGATAGGCACGAACCATTTCAATAGTGTCGTCAACGGATTGGATGACTTCGCGGCTGTAGCAGTCATTTCGGTCAAACGTGTCCCGGATATGGCTTTCAAGCACTTCTGCCATCAGCCCATTa > 2:46664/1‑139 (MQ=255)
gATTCAGTTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGATTGGCTGACTTCGCGGCTGTAGCAGTCATTTCGGTCAAACGTTTCCCGGatat > 2:169362/1‑105 (MQ=255)
gATTCAGTTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGATTGGCTGACTTCGCGGCTGTAGCAGTCATTTCGGTCAAACGTTTCCCGGatat < 1:169362/105‑1 (MQ=255)
gATTCAGTTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGATTGGCTGACTTCGCGGCTGTAGCAGTCATTTCGGTCAAACGTTTCCCGGATATGGCTTTCAAGCACTTCTGCCATCAGCCCATTAGc > 2:308783/1‑139 (MQ=255)
gATTCAGTTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGATTGGCTGACTTCGCGGCTGTAGCAGTCATTTCGGTCAAACGTTTCCCGGATATGGCTTTCAAGCACTTCTGCCATCAGCCCATTAGc > 1:424451/1‑139 (MQ=255)
|
CACTTCACCTTTTTTCGGTGGTGCAACGTCAATTTCAACGATTTCCAGCGGTTTACCGGGAGCAAATGCAACGGCAGCACGTGATTTCATCTCTCGCTCTTCCTCAATATGGTAATAGATTCAGCTATTTAAGATAGGCACGAACCAGTTCAATAGTGTCGTCAACGGATTGGCTGACTTCGCGGCTGTAGCAGTCATTTCGGTCAAACGTTTCCCGGATATGGCTTTCAAGCACTTCTGCCATCAGCCCATTAGC > NC_000913/379482‑379737
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
