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 F61 I0 R1
|
274 |
47.1 |
1889746 |
95.1% |
1797148 |
135.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP009273 |
3,210,552 |
C→T |
23.5% |
R139C (CGC→TGC) |
yqjI → |
PadR family putative transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP009273 | 3,210,552 | 0 | C | T | 23.5%
| 62.8
/ 19.2
| 34 | R139C (CGC→TGC) | yqjI | PadR family putative transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base C (15/11); new base T (4/4); total (19/15) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.50e-01 |
AACGCTGGATTTTCTGCAGGAGCAGTCGCTGATTACCATCCGCGAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCAGAG > CP009273/3210443‑3210682
|
aaCGCTGGATTTTCTGCAGGAGCAGTCGCTGATTACCATCCGCGAAGAGGACGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCa > 2:527413/1‑140 (MQ=255)
aaCGCTGGATTTTCTGCAGGAGCAGTCGCTGATTACCATCCGCGAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCa > 2:652169/1‑140 (MQ=255)
aaCGCTGGATTTTCTGCAGGAGCAGTCGCTGATTACCATCCGCGAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCa > 2:582064/1‑140 (MQ=255)
aaCGCTGGATTTTCTGCAGGAGCAGTCGCTGATTACCATCCGCGAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCa > 2:296018/1‑140 (MQ=255)
aaCGCTGGATTTTCTGCAGGAGCAGTCGCTGATTACCATCCGCGAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCa > 2:170255/1‑140 (MQ=255)
aaCGCTGGATTTTCTGCAGGAGAAGTCGCTGATTACCATCCGCGAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACACGGCGCGCCGTGGCTGGAAGAAAACCGCGAACATGTGGATATGAGTGACGAACGCa > 2:796790/1‑140 (MQ=255)
cGCTGGATTTTCTGCAGGAGCAGTCGCTGATTACCATCCGCGAAGAGGAATGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTTGCTGGAAGAAAACCGCGAACAGGTTGAGATGATTgaagaa < 1:183808/134‑1 (MQ=255)
cGCTGGATTTTCTGCAGGAGCAGTCGCTGATTACCATCCGCGAAGAGGAATGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTgaagaa > 2:183808/1‑134 (MQ=255)
cGCTGGATTTTCTGCAGGAGCAGTCGCTGATTACCATCCGCGAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATc > 1:188331/1‑140 (MQ=255)
cGCTGGATTTTCTGCAGGAGCAGTCGCTGATTACCATCCGCGAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATc > 1:188341/1‑140 (MQ=255)
ggATTTTCTGCAGGAGCAGTCGCTGATTACCATCCGCGAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAg < 1:258495/140‑1 (MQ=255)
aGGAGCAGTCGCTGATTACCATCCGCGAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCgcgttgcgtt > 2:747808/1‑140 (MQ=255)
agaagCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTg > 2:777687/1‑140 (MQ=255)
agaagCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTg > 2:653133/1‑140 (MQ=255)
agaagCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTg > 2:637804/1‑140 (MQ=255)
agaagCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTg > 2:187343/1‑140 (MQ=255)
gATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGATGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAAtt > 2:118733/1‑140 (MQ=255)
gcTGACCGAACAAGGCGCGCAGTGGCTGGAAGAACACCGAGAACAGGTGGAGTTGTTTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGGTGCGCCAGAACCCGCTAATGAAGCGGGCGCTGGATAATTTTAAAg < 1:796790/140‑1 (MQ=255)
gcTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAg < 1:170255/140‑1 (MQ=255)
gcTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAg < 1:296018/140‑1 (MQ=255)
gcTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAg < 1:652169/140‑1 (MQ=255)
gcTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAg < 1:582064/140‑1 (MQ=255)
gcTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAg < 1:527413/140‑1 (MQ=255)
aCCGAACAAGGCGCGCAGTGGCTGGAAGAAAACTGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGt > 1:45416/1‑140 (MQ=255)
aCCGAACAAGGCGCGCAGTGGCTGGAAGAAAACTGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGt > 1:69358/1‑140 (MQ=255)
aCCGAACAAGGCGCGCAGTGGCTGGAAGAAAACTGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGt > 1:69088/1‑140 (MQ=255)
aCCGAACAAGGCGCGCAGTGGCTGGAAGAAAACTGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGt > 1:45643/1‑140 (MQ=255)
gatgaaAACCGCGAAGAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCagag < 1:918073/137‑1 (MQ=255)
gaagaaAACTGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCagag < 2:45416/140‑1 (MQ=255)
gaagaaAACTGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCagag < 2:45643/140‑1 (MQ=255)
gaagaaAACTGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCagag < 2:69088/140‑1 (MQ=255)
gaagaaAACTGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCagag < 2:69358/140‑1 (MQ=255)
gaagaaAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCagag < 1:727714/140‑1 (MQ=255)
gaagaaAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCagag < 1:608024/140‑1 (MQ=255)
|
AACGCTGGATTTTCTGCAGGAGCAGTCGCTGATTACCATCCGCGAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCAGAG > CP009273/3210443‑3210682
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
