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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,827,216 |
G→T |
67.8% |
G153G (GGG→GGT) |
mutS → |
methyl‑directed mismatch repair protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,827,216 | 0 | G | T | 67.8%
| 63.2
/ 60.1
| 81 | G153G (GGG→GGT) | mutS | methyl‑directed mismatch repair protein |
| Reads supporting (aligned to +/- strand): ref base G (17/9); new base T (18/37); total (35/46) |
| Fisher's exact test for biased strand distribution p-value = 8.09e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.20e-01 |
TGCTGGCGGCTATCTGGCAGGACAGCAAAGGTTTCGGCTACGCGACGCTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGAACCGGCTGACCGCGAAACGATGGCGGCAGAACTGCAACGCACTAATC > minE/1827152‑1827280
|
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:1373527/69‑1 (MQ=255)
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:2326274/69‑1 (MQ=255)
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:1974369/69‑1 (MQ=255)
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:1851477/69‑1 (MQ=255)
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:2693474/69‑1 (MQ=255)
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:2724242/69‑1 (MQ=255)
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:2922468/69‑1 (MQ=255)
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:3098516/69‑1 (MQ=255)
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:1580649/69‑1 (MQ=255)
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:3427345/69‑1 (MQ=255)
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:1252291/69‑1 (MQ=255)
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:1000161/69‑1 (MQ=255)
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:1073089/69‑1 (MQ=255)
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:966504/69‑1 (MQ=255)
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:116890/69‑1 (MQ=255)
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:919721/69‑1 (MQ=255)
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:775961/69‑1 (MQ=255)
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:1268693/69‑1 (MQ=255)
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:1272456/69‑1 (MQ=255)
tgctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:878201/69‑1 (MQ=255)
gctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:1780706/68‑1 (MQ=255)
gctgGCGGCTATCTGGCAGGACAGTAAAGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:2673495/68‑1 (MQ=255)
tgtcAGGACAGCAAAGGTTTCGGCTACGCGACGCTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGaa > 1:1621223/4‑69 (MQ=255)
tGGCAGGACAGCAAAGGTTTCGGCTACGCGACGCTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGaa > 1:3307423/1‑69 (MQ=255)
tGGCAGGACAGCAAAGGTTTCGGCTACGCGACGCTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGaa > 1:1024623/1‑69 (MQ=255)
tGGCAGGACAGCAAAGGTTTCGGCTACGCGACGCTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGaa > 1:2598105/1‑69 (MQ=255)
tGGCAGGACAGCAAAGGTTTCGGCTACGCGACGCTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGaa > 1:419198/1‑69 (MQ=255)
tGGCAGGACAGCAAAGGTTTCGGCTACGCGACGCTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGaa > 1:1693313/1‑69 (MQ=255)
aCAGCAAAGGTTTCGGCTACGCGACGCTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGAACCGGCTg > 1:2267202/1‑69 (MQ=255)
aCAGCAAAGGTTTCGGCTACGCGACGCTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGAACCGGCTg > 1:132312/1‑69 (MQ=255)
aCAGCAAAGGTTTCGGCTACGCGACGCTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGAACCGGCTg > 1:192207/1‑69 (MQ=255)
aaaGGTTTCGGCTACGCAACGCTGGATATCAGTTCCGGTCGtt < 1:3058490/43‑1 (MQ=38)
ggCTACGCGACGCTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGAACCGGCTGACCGCGAAACGAt < 1:2056583/68‑1 (MQ=255)
ggCTACGCGACGCTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGAACCGGCTGACCGCGAAACGAt < 1:2093320/68‑1 (MQ=255)
ggCTACGCGACGCTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGAACCGGCTGACCGCGAAACGAt < 1:128779/68‑1 (MQ=255)
ggCTACGCGACGCTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGAACCGGCTGACCGCGAAACGAt < 1:2219390/68‑1 (MQ=255)
tACGCGACGCTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGAACCGGCTGACCGCGAAACGATggc > 1:16355/1‑68 (MQ=255)
tACGCGACGCTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGAACCGGCTGACCGCGAAACGATggc > 1:2706250/1‑68 (MQ=255)
tACGCGACGCTGCATATCAGTTCCGGGCGTTTTCCCCTGAGCGAAc > 1:2614531/1‑46 (MQ=39)
cgACGCTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGAACCGGCTGACCGCGAAACGATGGCGGCAg < 1:2022611/69‑1 (MQ=255)
cgACGCTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGAACCGGCTGACCGCGAAACGATGGCGGCAg < 1:2764869/69‑1 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGCGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa > 1:1318287/2‑69 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGCACCGGCGGACCGCGaa > 1:429991/2‑55 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGGGAAACGATGGCGGCAGa > 1:3154256/2‑69 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAg > 1:840002/2‑68 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa > 1:910358/2‑69 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa < 1:1625169/68‑1 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa < 1:1579637/68‑1 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa < 1:3324490/68‑1 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa < 1:1197305/68‑1 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa > 1:3359621/2‑69 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa > 1:3397973/2‑69 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa < 1:826976/68‑1 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa > 1:618943/2‑69 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa < 1:1102612/68‑1 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa > 1:808233/2‑69 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa < 1:75983/68‑1 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa < 1:2647188/68‑1 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa > 1:2115066/2‑69 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa > 1:2159713/2‑69 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa > 1:2174639/2‑69 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa > 1:2313989/2‑69 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa < 1:252880/68‑1 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa > 1:2585861/2‑69 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa < 1:308852/68‑1 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa < 1:1728403/68‑1 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa > 1:2700958/2‑69 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa < 1:2739237/68‑1 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa < 1:3018624/68‑1 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa > 1:3033091/2‑69 (MQ=255)
aaCGCTGGATATCAGTTCCGGTCGTTTTCGCATGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa > 1:3009112/2‑69 (MQ=255)
aaCGCTGGATATCACTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGAAACGATGGCGGCAGa < 1:3267556/68‑1 (MQ=255)
aaCGCTCGATATCAGTTCCGGTCGTTTTCGCCTGAGCGAACCGGCGGACCGCGaaa > 1:438637/2‑56 (MQ=255)
cTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGAACCGGCTGACCGCGAAACGATGGCGGCAGAACt > 1:1370106/1‑68 (MQ=255)
cTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGAACCGGCTGACCGCGAAACGATGGCGGCAGAACt > 1:2312400/1‑68 (MQ=255)
cTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGAACCGGCTGACCGCGAAACGATGGCGGCAGAACt > 1:2164915/1‑68 (MQ=255)
cTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGAACCGGCTGACCGCGAAACGATGGCGGCAGAACt > 1:930819/1‑68 (MQ=255)
ttCCGGGCGTTTTCGCCTGAGCGAACCGGCTGACCGCGAAACGATGGCGGCAGAACTGCAACGCACTaa < 1:412604/69‑1 (MQ=255)
ttCCGGGCGTTTTCGCCTGAGCGAACCGGCTGACCGCGAAACGATGGCGGCAGAACTGCAACGCACTaa < 1:1908359/69‑1 (MQ=255)
ttCCGGGCGTTTTCGCCTGAGCGAACCGGCTGACCGCGAAACGATGGCGGCAGAACTGCAACGCACTaa < 1:658397/69‑1 (MQ=255)
ccGGGCGTTTTCGCCTGAGCGAACCGGCTGACCGCGAAACGATGGCGGCAGAACTGCAACGCACTAATc > 1:1991866/1‑69 (MQ=255)
|
TGCTGGCGGCTATCTGGCAGGACAGCAAAGGTTTCGGCTACGCGACGCTGGATATCAGTTCCGGGCGTTTTCGCCTGAGCGAACCGGCTGACCGCGAAACGATGGCGGCAGAACTGCAACGCACTAATC > minE/1827152‑1827280
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
