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 |
|
A1 F1 I1 R1
|
690 |
31.8 |
1836723 |
97.1% |
1783458 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,595,767 |
C→A |
A213S (GCG→TCG) |
livH ← |
branched chain amino acid/phenylalanine ABC transporter membrane subunit LivH |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,595,767 | 0 | C | A | 98.0%
| 171.5
/ NA
| 49 | A213S (GCG→TCG) | livH | branched chain amino acid/phenylalanine ABC transporter membrane subunit LivH |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base A (24/24); total (25/24) |
| 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 |
GGCCATAAAGCCGATGTAGGGGTTAATGACGCCGTAGAACTGACCGAGCAGCACACCCGCCACCGCCGCCATCGCCGCGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAGACTCGCCATTTTCAGATCTTCCGC > NC_000913/3595690‑3595842
|
ggCCATAAAGCCGATGTAGGGGTTAATGACGCCGTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGcc < 1:628182/81‑1 (MQ=255)
cATAAAGCCGATGTAGGGGTTAATGACGCCGTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAAt > 1:628231/1‑81 (MQ=255)
aTAAAGCCGATGTAGGGGTTAATGACGCCGTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATc < 2:628182/81‑1 (MQ=255)
aaaGCCGATGTAGGGGTTAATGACGCCGTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATca > 2:628229/1‑80 (MQ=255)
aTGTAGGGGTTAATGACGCCGTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTc < 2:628183/81‑1 (MQ=255)
tAGGGGTTAATGACGCCGTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAgc > 1:628237/1‑81 (MQ=255)
ggggTTAATGACGCCGTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAgcgc < 2:628185/81‑1 (MQ=255)
ggggTTAATGACGCCGTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAgcgc < 2:628184/81‑1 (MQ=255)
gTTGATGACGCCGTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAAt > 2:628237/1‑81 (MQ=255)
gTTAATGACGCCGTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAAt > 1:628235/1‑81 (MQ=255)
ttAATGACGCCGTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAAt > 1:628242/1‑80 (MQ=255)
ttAATGACGCCGTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATc < 1:628187/81‑1 (MQ=255)
tAATGACGCCGTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCa > 2:628256/1‑81 (MQ=255)
gACGCCGTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCcg > 1:628256/1‑81 (MQ=255)
cGCCGTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCcggt > 2:628253/1‑81 (MQ=255)
gCCGTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCcggtc > 1:628250/1‑81 (MQ=255)
ccGTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCcggtcg < 2:628187/81‑1 (MQ=255)
cGTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCcggtcgg > 1:628243/1‑81 (MQ=255)
cGTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCcggtcgg > 1:628239/1‑81 (MQ=255)
gTAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCcggtcggt > 1:628234/1‑81 (MQ=255)
tAGAACTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGTGCAATCACCCGGTCGgtg < 1:628189/81‑1 (MQ=255)
aaCTGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTa < 2:628189/81‑1 (MQ=255)
tGACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATg > 1:628240/1‑81 (MQ=255)
gACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGc > 2:628250/1‑81 (MQ=255)
gACCGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGc > 2:628240/1‑81 (MQ=255)
ccGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCa < 1:628191/81‑1 (MQ=255)
cGATCAGCACACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCaa < 1:628192/81‑1 (MQ=255)
gatcagcaCACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAg > 1:628266/4‑81 (MQ=255)
atcagcaCACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAg > 1:628262/3‑80 (MQ=255)
tcagcaCACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCa < 2:628192/80‑1 (MQ=255)
cagcaCACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAg > 1:628247/1‑78 (MQ=255)
agcaCACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAg < 1:628195/80‑1 (MQ=255)
agcaCACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAg < 2:628193/80‑1 (MQ=255)
agcaCACCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAGa > 1:628264/1‑81 (MQ=255)
cacaCCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAGACt < 2:628196/81‑1 (MQ=255)
cacaCCCCCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAGACt < 2:628195/81‑1 (MQ=255)
cacCCGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAGACTCg > 2:628258/1‑81 (MQ=255)
cccGCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAGACTCGcc < 1:628198/81‑1 (MQ=255)
gCCACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAGACTCGCCAtt < 1:628199/81‑1 (MQ=255)
ccACCGCCGCCATCGCCGCGCCAATCACACAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAGACTCGCCAttt > 2:628257/1‑81 (MQ=255)
cACCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAGACTCGCCAtttt > 2:628247/1‑81 (MQ=255)
aCCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAGACTCGCCATTTTc < 2:628201/81‑1 (MQ=255)
aCCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAGACTCGCCATTTTc < 2:628200/81‑1 (MQ=255)
aCCGCCGCCATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAGACTCGCCATTTTc < 1:628200/81‑1 (MQ=255)
ccgccATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAGACTCGCCATTTTCAGAt < 1:628203/81‑1 (MQ=255)
cgccATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAGACTCGCCATTTTCAGATc > 2:628270/1‑81 (MQ=255)
ccATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAGACTCGCCATTTTCAGATCtt < 2:628203/81‑1 (MQ=255)
cATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAGACTCGCCATTTTCAGATCTTc > 2:628259/1‑81 (MQ=255)
cATCGCCGAGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAGACTCGCCATTTTCAGATCTTc < 1:628205/81‑1 (MQ=255)
gccgaGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAGACTCGCCATTTTCAGATCTTCcgc < 2:628205/80‑1 (MQ=255)
|
GGCCATAAAGCCGATGTAGGGGTTAATGACGCCGTAGAACTGACCGAGCAGCACACCCGCCACCGCCGCCATCGCCGCGCCAATCACAAAGGTCAGCGCAATCACCCGGTCGGTGTTAATGCCAAGCAGACTCGCCATTTTCAGATCTTCCGC > NC_000913/3595690‑3595842
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
