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 |
|
A12 F1 I2 R1
|
766 |
55.6 |
2631458 |
94.7% |
2491990 |
109.9 |
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 | 94.4%
| 122.3
/ ‑0.7
| 36 | coding (127/471 nt) | bcp | peroxiredoxin, thiol peroxidase, thioredoxin‑dependent |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base C (18/16); total (19/17) |
| 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 |
TGGAGTTAAGTAATGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑A‑CCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAACTCTCCCGTTTTGCGGAAAAAGAGCTGC > NC_000913/2600466‑2600736
|
tGGAGTTAAGTAATGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑a > 1:1143312/1‑139 (MQ=255)
aGTTAAGTAATGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑A‑ccc < 2:597672/139‑1 (MQ=255)
gTTAAGTAATGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑A‑cccc < 1:422178/139‑1 (MQ=255)
aGTAATGAATCCACTGAAAGCCGGTGATATCGCACCGACATTTAGCTTGCCGGGTCAAGACGGAGAACAAGTTAATATGACCGACTTCCAGCGACAGCGCGTTCTGGTTTATTTCTACCCGAAAGCCATG‑A‑cccc‑ccgg > 2:939511/1‑136 (MQ=255)
aGTAATGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑A‑cccc‑ccgg > 1:494344/1‑136 (MQ=255)
aGTAATGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑A‑cccc‑ccgg < 2:495477/139‑4 (MQ=255)
aGTAATGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑A‑cccc‑ccgg < 2:582469/139‑4 (MQ=255)
aaTGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTg < 1:252764/139‑1 (MQ=255)
tGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCAGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTa < 1:124984/139‑1 (MQ=255)
gTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCt < 2:1143312/139‑1 (MQ=255)
tGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCtt < 2:669897/139‑1 (MQ=255)
tGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCtt > 1:669897/1‑139 (MQ=255)
cGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGa < 2:33958/139‑1 (MQ=255)
cACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTa > 1:358895/1‑112 (MQ=255)
cACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTa < 2:358895/112‑1 (MQ=255)
aCCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGa < 2:913439/136‑1 (MQ=255)
aCCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGa > 1:913439/1‑136 (MQ=255)
tGCCGGATCAAGACGGATAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTATACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGa > 1:821147/1‑139 (MQ=255)
gCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGa > 2:1122746/1‑121 (MQ=255)
gCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGa < 1:1122746/121‑1 (MQ=255)
aTCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAg > 2:49006/1‑139 (MQ=255)
aCGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCg < 2:427743/139‑1 (MQ=255)
gaACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGac < 2:821147/139‑2 (MQ=255)
aaGTTAATTTGACCGACTTCCAGGGGCAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGc > 1:573784/1‑139 (MQ=255)
aaGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑A‑CCCCACGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGc < 1:939511/139‑1 (MQ=255)
gTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGa < 1:750922/99‑1 (MQ=255)
gTTAATTTGACCGACTTACAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGa > 2:750922/1‑99 (MQ=255)
ctgatttCCAGTGAAAGCGTGTTCGGGTTTATTCCTACCCGCAAGCTATGAA‑TCCC‑CTGCTGAACCGTACACGGATGCGGCTTACGCCATAATATGGATGACTTTCATAAAGCGGGCCTTGATGTGCTGGGTATCAGCa > 2:136029/6‑139 (MQ=255)
cAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGa < 2:538459/84‑1 (MQ=255)
cAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGa > 1:538459/1‑84 (MQ=255)
cGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGc < 1:1016078/110‑1 (MQ=255)
cGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGc > 2:1016078/1‑110 (MQ=255)
cGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGaaaaa > 1:551234/1‑139 (MQ=255)
cGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGaaaaa > 1:1170104/1‑139 (MQ=255)
ttCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTg > 2:539992/1‑100 (MQ=255)
ttCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTg < 1:539992/100‑1 (MQ=255)
gTTTATTTCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAACTCTCCCGt > 2:650417/1‑139 (MQ=255)
tttCTACCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAACTCTCCCGTTTTGc > 2:783217/1‑139 (MQ=255)
aCCCGAAAGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAACTCTCCCGTTTTGCGGaaa > 2:423349/1‑139 (MQ=255)
aaaGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAACTCTCCCGTTTTGCGGAAAAagag < 2:1170104/139‑1 (MQ=255)
aaaGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAACTCTCCCGTTTTGCGGAAAAagag > 2:700406/1‑139 (MQ=255)
aaGCCATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGCTAAAAAAAGCGGGCGTTGATGTGCTGGGTACCAGCACCGATAAACCCGAAAAACTCTCCCGTTTTGCGGAAAAAGAgc > 1:1168546/1‑139 (MQ=255)
ccATG‑ACCCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAATATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAACTCTCCCGTTTTGCGGAAAAAGAgctgc < 1:783217/139‑1 (MQ=255)
|
TGGAGTTAAGTAATGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑A‑CCCC‑CGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAACTCTCCCGTTTTGCGGAAAAAGAGCTGC > NC_000913/2600466‑2600736
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ 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
