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 |
|
A10 F1 I2 R1
|
757 |
38.1 |
1607544 |
96.5% |
1551279 |
117.2 |
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 | 91.2%
| 109.3
/ 3.1
| 34 | coding (127/471 nt) | bcp | peroxiredoxin, thiol peroxidase, thioredoxin‑dependent |
| Reads supporting (aligned to +/- strand): ref base . (1/2); new base C (12/19); total (13/21) |
| 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 |
TTAAGTAATGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑A‑CCCCC‑GGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAACTCTCCCGTTTTGCGGAAAAAG > NC_000913/2600471‑2600730
|
ttAAGTAATGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑A‑ccccc < 2:121875/139‑1 (MQ=255)
ttAAGTAATGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑A‑ccccc < 2:715018/139‑1 (MQ=255)
aGTAATGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑A‑ccccccgg > 2:431949/1‑136 (MQ=255)
tAATGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑A‑ccccccggct < 2:482533/139‑6 (MQ=255)
aTGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGt > 1:755136/1‑139 (MQ=255)
tGAATCCACTGAAAGCCGGTGATATCGCACCGACATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGTGACAGCGTGTTCTGGTTTATTTCTCCCCTAAATCCATG‑A‑CCCCCAGGCTGTa < 1:186380/139‑1 (MQ=255)
tGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTa < 2:133641/139‑1 (MQ=255)
tGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTa < 2:193960/139‑1 (MQ=255)
tGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTa < 2:471149/139‑1 (MQ=255)
tGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTa > 1:471149/1‑139 (MQ=255)
tGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTa < 1:431949/139‑1 (MQ=255)
tGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTa < 1:200511/139‑1 (MQ=255)
tCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTa < 1:453416/135‑1 (MQ=255)
tCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTa > 2:453416/1‑135 (MQ=255)
tCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTACCGt > 2:461137/1‑139 (MQ=255)
ccACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTACCGTa < 1:189767/139‑1 (MQ=255)
cACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTACCGTAc > 2:600616/1‑139 (MQ=255)
cGGTGATATCGCAACGAAATTTAGCTTGCCGGATCAAGACGAAGAACAAGCTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAATGCCATG‑A‑CCCCCATCCTGTACCGTACAGGCCTGCgt > 1:740194/1‑138 (MQ=255)
gTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTACCGTACAGGCCTGCGGCt < 2:755136/139‑1 (MQ=255)
aCCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTACCGTACAGGCCTGCGGCTTACGCGATaa < 1:600616/139‑1 (MQ=255)
ccGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTACCGTACAGGCCTGCGGCTTACGCGATAAc > 2:584573/1‑139 (MQ=255)
tttAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGAt < 2:467425/139‑1 (MQ=255)
ccGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGaaa < 2:182884/139‑1 (MQ=255)
aCGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCg > 2:328972/1‑139 (MQ=255)
aaGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGc < 1:486874/139‑1 (MQ=255)
ccGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCa < 2:244883/139‑1 (MQ=255)
cGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTa > 2:130123/1‑63 (MQ=255)
cGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTa < 1:130123/63‑1 (MQ=255)
ttCCAGGGACAGTGAGTTCAGCATTATTTCTACCCGAAAGCCATGTC‑CCCCC‑GGCTGTTCCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGAt < 1:681866/139‑1 (MQ=255)
cAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTg > 2:300785/1‑48 (MQ=255)
cAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTg < 1:300785/48‑1 (MQ=255)
cGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTg < 2:362615/112‑1 (MQ=255)
cGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑ACCCCCC‑GGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTg > 1:362615/1‑112 (MQ=255)
tttCTACCCGAAAGCTATG‑ACCCCCC‑GGCTGTACCGTACAGGCCTGCGGCTTAcgcg > 1:536901/1‑57 (MQ=255)
tttCTACCCGAAAGCCATG‑ACCCCCC‑GCCTGTACCGTACAGGCCTGCGGCTTAcgcg < 2:536901/57‑1 (MQ=255)
cGAAAGCCATG‑ACCCCCC‑GGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAACTCTCCCGTTTTGCGGAAAAag < 2:460192/139‑1 (MQ=255)
aaaGCCATG‑ACCCCCC‑GGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGAtgtg < 1:236539/85‑1 (MQ=255)
aaaGCCATG‑ACCCCCC‑GGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGAtgtg > 2:236539/1‑85 (MQ=255)
|
TTAAGTAATGAATCCACTGAAAGCCGGTGATATCGCACCGAAATTTAGCTTGCCGGATCAAGACGGAGAACAAGTTAATTTGACCGACTTCCAGGGACAGCGTGTTCTGGTTTATTTCTACCCGAAAGCCATG‑A‑CCCCC‑GGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAACTCTCCCGTTTTGCGGAAAAAG > NC_000913/2600471‑2600730
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
