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 |
|
A6 F31 I1 R1
|
2 |
18.6 |
702272 |
97.0% |
681203 |
135.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
CP009273 |
4,173,025 |
A→T |
Q618L (CAG→CTG) |
rpoB → |
RNA polymerase, beta subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP009273 | 4,173,025 | 0 | A | T | 87.0%
| 71.8
/ 1.2
| 23 | Q618L (CAG→CTG) | rpoB | RNA polymerase, beta subunit |
| Reads supporting (aligned to +/- strand): ref base A (1/2); new base T (15/5); total (16/7) |
| Fisher's exact test for biased strand distribution p-value = 2.09e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCGAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATC > CP009273/4172912‑4173139
|
gACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTGGCGAACTCCAACTTGGATGaagaag > 1:142302/1‑140 (MQ=255)
aCTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTGGCGAACTCGAACTTGGATGAAGAAgg > 2:307326/1‑140 (MQ=255)
aCTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTGGCGAACTCCAACTTGGATGAAGAAgg > 2:46266/1‑140 (MQ=255)
aCTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTGGCGAACTCCAACTTGGATGAAGAAgg > 2:33022/1‑140 (MQ=255)
cTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGc < 2:48814/140‑1 (MQ=255)
aCGGCTTCCTTGAGACTCCGTATCGTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGt < 1:156467/139‑1 (MQ=255)
aCGGCTTCCTTGAGACTCCGTATCGTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGt > 2:156467/1‑139 (MQ=255)
aCTCCGTATCGTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTgg < 1:12500/91‑1 (MQ=255)
aCTCCGTATCGTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTgg > 2:12500/1‑91 (MQ=255)
aCTCCGTATCGTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAAc > 1:98581/1‑140 (MQ=255)
aCTCCGTATCGTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAAc > 2:145894/1‑140 (MQ=255)
aCTCCGTATCGTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAAc > 2:181088/1‑140 (MQ=255)
aCTCCGTATCGTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAAc > 2:21307/1‑140 (MQ=255)
aCTCCGTATCGTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAAc > 2:238350/1‑140 (MQ=255)
aCTCCGTATCGTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAAc < 2:307613/140‑1 (MQ=255)
cGTATCGTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGc > 1:114363/1‑140 (MQ=255)
tgttgtAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCGAATCCAGCt > 1:147665/1‑140 (MQ=255)
tgttgtAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCGAATCCAGCt > 1:147609/1‑140 (MQ=255)
tgtAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCGAATCCAGCTTGt < 2:142302/140‑1 (MQ=255)
gACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCGAATCCAGCTTGTTCAGCcg > 1:275437/1‑140 (MQ=255)
gAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCTGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCGAATCCAGCTTGTTCAGCCGCGa < 1:181088/140‑1 (MQ=255)
aCCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCGAATCCAGCTTGTTCAGCCGCGACCAGGTTGAc > 2:190912/1‑140 (MQ=255)
gaagaaGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCGAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATc < 1:190912/140‑1 (MQ=255)
|
GACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCGAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATC > CP009273/4172912‑4173139
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
