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 F64 I0 R1
|
334 |
49.4 |
1968632 |
94.1% |
1852482 |
134.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP009273 |
3,877,923 |
A→G |
64.5% |
Q24R (CAG→CGG) |
rnpA → |
protein C5 component of RNase P |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP009273 | 3,877,923 | 0 | A | G | 64.5%
| 30.3
/ 30.5
| 31 | Q24R (CAG→CGG) | rnpA | protein C5 component of RNase P |
| Reads supporting (aligned to +/- strand): ref base A (9/2); new base G (13/7); total (22/9) |
| Fisher's exact test for biased strand distribution p-value = 4.29e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCGTCGTGCTAAAGGCCGCGCTCGTCTGACCGTTTCTAAGTAATAAAGCTAACCCCTGAGTGGTTAAGCTCGCATTTCCCAGGGAGTTACGCTTGTTAACTCCCAGTCAATTCACATTCGTCTTCCAGCAGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACGCAATCGGATTAAACGT > CP009273/3877794‑3878053
|
tcgtcgtGCTAAAGGCCGCGCTCGTCTGACCGTTTCTAAGTAATAAAGCTAACCCCTGAGTGGTTAAGCTCGCATTTCCCAGGGAGTTACGCTTGTTAACTCCCAGTCAATTCACATTCGTCTTCCAGCGGCCACAACgg > 1:868662/1‑140 (MQ=255)
tcgtcgtGCTAAAGGCCGCGCTCGTCTGACCGTTTCTAAGTAATAAAGCTAACCCCTGAGTGGTTAAGCTCGCATTTCCCAGGGAGTTACGCTTGTTAACTCCCAGTCAATTCACATTCGTCTTCCAGCGGCCACAACgg > 1:744278/1‑140 (MQ=255)
tcgtcgtGCTAAAGGCCGCGCTCGTCTGACCGTTTCTAAGTAATAAAGCTAACCCCTGAGTGGTTAAGCTCGCATTTCCCAGGGAGTTACGCTTGTTAACTCCCAGTCAATTCACATTCGTCTTCCAGCGGCCACAACgg > 1:53515/1‑140 (MQ=255)
cgcTCGTCTGACCGTTTCTAAGTAATAAAGCTAACCCCTGAGTGGTTAAGCTCGCATTTCCCAGGGAGTTACGCTTGTTAACTCCCAGTCAATTCACATTCGTCTTCCAGCGGCCACAACGGGCTGGCACGCCGCAAAtt > 2:125929/1‑140 (MQ=255)
aaCCCCTGAGTGGTTAAGCTCGCATTTCCCAGGGAGTTACGCTTGTTAACTCCCAGTCAATTCACATTCGTCTTCCAGCGGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCa > 2:94130/1‑140 (MQ=255)
aaCCCCTGAGTGGTTAAGCTCGCATTTCCCAGGGAGTTACGCTTGTTAACTCCCAGTCAATTCACATTCGTCTTCCAGCGGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCa > 2:922243/1‑140 (MQ=255)
aaCCCCTGAGTGGTTAAGCTCGCATTTCCCAGGGAGTTACGCTTGTTAACTCCCAGTCAATTCACATTCGTCTTCCAGCGGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCa > 2:922302/1‑140 (MQ=255)
gTGGTTAAGCTCGCATTTCCCAGGGAGTTACGCTTGTTAACTCCCAGTCAATTCACATTCGTCTTCCAGCGGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTAt < 2:628206/140‑1 (MQ=255)
gTGGTTAAGCTCGCATTTCCCAGGGAGTTACGCTTGTTAACTCCCAGTCAATTCACATTCGTCTTCCAGCGGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTAt < 2:296112/140‑1 (MQ=255)
cATTTCCCAGGGAGTTACGCTTGTTAACTCCCAGTCAATTCACATTCGTCTTCCAGCGGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTc > 2:658507/1‑140 (MQ=255)
gggAGTTACGCTTGTTAACTCCCAGTCAATTCACATTCGTCTTCCAGCGGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGaaa > 1:611247/1‑140 (MQ=255)
aaCTCCCAGTCAATTCACATTCGTCTTCCAGCGGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGccc > 1:622102/1‑140 (MQ=255)
aaCTCCCAGTCAATTCACATTCGTCTTCCAGCGGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGccc > 1:657467/1‑140 (MQ=255)
aGTCAATTCACATTCGTCTTCCAGCGGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACg < 2:556523/140‑1 (MQ=255)
aaTTCACATTCGTCTTCCAGCGGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACGCAAt < 2:868662/140‑1 (MQ=255)
aaTTCACATTCGTCTTCCAGCGGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACGCAAt < 2:744278/140‑1 (MQ=255)
aaTTCACATTCGTCTTCCAGCGGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACGCAAt < 2:53515/140‑1 (MQ=255)
aaTTCACATTCGTCTTCCAGCGGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACGCAAt < 1:125929/140‑1 (MQ=255)
cacaTTCGTCTTCCAGCGGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACGCAATCGGa > 1:908057/1‑140 (MQ=255)
cacaTTCGTCTTCCAGCGGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACGCAATCGGa > 2:324150/1‑140 (MQ=255)
cacaTTCGTCTTCCAGCAGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACGCAATCGGa > 2:173076/1‑140 (MQ=255)
cacaTTCGTCTTCCAGCAGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACGCAATCGGa > 1:877895/1‑140 (MQ=255)
cacaTTCGTCTTCCAGCAGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACGCAATCGGa > 1:795651/1‑140 (MQ=255)
cacaTTCGTCTTCCAGCAGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACGCAATCGGa > 1:739397/1‑140 (MQ=255)
cacaTTCGTCTTCCAGCAGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACGCAATCGGa > 1:578993/1‑140 (MQ=255)
cacaTTCGTCTTCCAGCAGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACGCAATCGGa > 1:534905/1‑140 (MQ=255)
cacaTTCGTCTTCCAGCAGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACGCAATCGGa > 1:477407/1‑140 (MQ=255)
aTTCGTCTTCCAGCAGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACGCAATCGGATTa < 1:80598/140‑1 (MQ=255)
ttCGTCTTCCAGCAGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACGCAATCGGATTaa < 1:173076/140‑1 (MQ=255)
tCTTCCAGCAGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACGCAATCGGATTAAACGt > 1:961100/1‑140 (MQ=255)
tCTTCCAGCAGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACGCAATCGGATTAAACGt > 1:104246/1‑140 (MQ=255)
|
TCGTCGTGCTAAAGGCCGCGCTCGTCTGACCGTTTCTAAGTAATAAAGCTAACCCCTGAGTGGTTAAGCTCGCATTTCCCAGGGAGTTACGCTTGTTAACTCCCAGTCAATTCACATTCGTCTTCCAGCAGCCACAACGGGCTGGCACGCCGCAAATTACCATTCTCGGCCGCCTGAATTCGCTGGGGCATCCCCGTATCGGTCTTACAGTCGCCAAGAAAAACGTTCGACGCGCCCATGAACGCAATCGGATTAAACGT > CP009273/3877794‑3878053
|
| 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
