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 |
|
A3 F1 I1 R1
|
781 |
46.9 |
2231650 |
93.5% |
2086592 |
109.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,600,609 |
(C)5→6 |
coding (132/471 nt) |
bcp → |
peroxiredoxin, thiol peroxidase, thioredoxin‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,600,604 | 1 | . | C | 97.0%
| 110.7
/ ‑3.0
| 33 | coding (127/471 nt) | bcp | peroxiredoxin, thiol peroxidase, thioredoxin‑dependent |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base C (10/22); total (10/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.34e-01 |
TGGAGTTAAGTAATGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGA‑CCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAACTCTCCCGTTTTGCGGAAAAAGAG > NC_000913/2600466‑2600732
|
tGGAGTTAAGTAATGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGa > 1:265164/1‑139 (MQ=255)
aGTAATGAATCCACTGAAAGCCGGTGATATCGCGCCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGA‑ccc‑cccgg > 1:54694/1‑136 (MQ=255)
aGTAATGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGA‑ccc‑cccgg < 1:53430/139‑4 (MQ=255)
tGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTa < 1:200909/139‑1 (MQ=255)
aCTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACa > 1:770341/1‑139 (MQ=255)
cTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGA‑ccc‑cccgg > 2:77095/1‑123 (MQ=255)
cTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGA‑ccc‑cccgg < 1:77095/126‑4 (MQ=255)
gTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCt < 1:39231/139‑1 (MQ=255)
gTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCt < 1:773742/139‑1 (MQ=255)
tGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCtt > 1:778581/1‑139 (MQ=255)
gATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTa < 2:578114/139‑1 (MQ=255)
gATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTa < 1:798351/139‑1 (MQ=255)
cGCACCGAAATTTAGCTTGCTGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCATGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGa < 2:99823/139‑1 (MQ=255)
cGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGa < 2:265164/139‑1 (MQ=255)
aaaTTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATg > 2:530982/1‑139 (MQ=255)
aaTTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATgg < 1:673825/139‑1 (MQ=255)
tttAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGA‑CCCTCCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGAt < 2:785301/139‑1 (MQ=255)
aGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCggg < 1:530982/139‑1 (MQ=255)
gagaACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTg < 2:54694/139‑1 (MQ=255)
agaATAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGTAAGCCATGA‑ccc‑cccgg < 2:636520/76‑4 (MQ=255)
agaACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGA‑ccc‑cccgg > 1:636520/1‑73 (MQ=255)
gaACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGAt < 2:928107/139‑1 (MQ=255)
aaCAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGAtg < 1:910880/139‑1 (MQ=255)
aaCAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGAtg < 2:952257/139‑1 (MQ=255)
gTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTg < 2:440805/139‑1 (MQ=255)
tttGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTAt < 1:996003/139‑1 (MQ=255)
gACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAg < 2:778581/139‑1 (MQ=255)
gACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAg > 1:928450/1‑139 (MQ=255)
cGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTg > 1:247434/1‑120 (MQ=255)
cGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTg < 2:247434/120‑1 (MQ=255)
ccAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATaa < 1:941770/139‑1 (MQ=255)
cGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTa > 2:107241/1‑47 (MQ=255)
cGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTa < 1:107241/47‑1 (MQ=255)
cGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGAtg > 2:289520/1‑107 (MQ=255)
cGTGTTCTGGTTTATTTCTACCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGAtg < 1:289520/107‑1 (MQ=255)
actcGAAAGCCATGACCCC‑CCGTCTGTACCTTACAGGCCTGGGGCTTACGCGATAACATGGATGAGTTGAACAAAGCGGGCGTTGCTGTGGTGGGTATCAGCACCGATAAACCCGAAAAACTCTCCCGTTTTGCGGaaa > 2:1069936/4‑139 (MQ=255)
aCCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAACTCTCCCGTTTTGCGGaaa > 2:133111/1‑139 (MQ=255)
aCCCGAAAGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAACTCTCCCGTTTTGCGGaaa > 1:574992/1‑139 (MQ=255)
aaaGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAACTCTCCCGTTTTGCGGAAAAagag < 2:917747/139‑1 (MQ=255)
aaaGCCATGACCCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAACTCTCCCGTTTTGCGGAAAAagag < 1:133111/139‑1 (MQ=255)
|
TGGAGTTAAGTAATGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATGA‑CCC‑CCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAACTCTCCCGTTTTGCGGAAAAAGAG > NC_000913/2600466‑2600732
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
