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 |
|
A5 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,059,788 |
C→T |
12.0% |
L95L (CTG→TTG) |
yliK → |
methylmalonyl‑CoA mutase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,059,788 | 0 | C | T | 12.0%
| 144.0
/ 9.4
| 50 | L95L (CTG→TTG) | yliK | methylmalonyl‑CoA mutase |
| Reads supporting (aligned to +/- strand): ref base C (24/20); new base T (2/4); total (26/24) |
| Fisher's exact test for biased strand distribution p-value = 4.09e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.16e-01 |
ACCGTGGACCATCCGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTGGCTACGACTCC > W3110S.gb/3059718‑3059853
|
aCCGTGGACCATCCGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAAcc < 1:658625/71‑1 (MQ=255)
tGGACCATCCGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGgc < 1:1031952/71‑1 (MQ=255)
aCCATCCGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACTTGgccgc < 1:483093/71‑1 (MQ=255)
ccATCCGTCAGTATGCTGGTTTTTCATCAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACTTGgccgcc < 1:4530961/71‑1 (MQ=255)
ccATCCGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGgccgcc < 1:4173976/71‑1 (MQ=255)
ccATCCGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGgccgcc < 1:3837033/71‑1 (MQ=255)
cATCCGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCt < 1:3411495/63‑1 (MQ=255)
cATCCGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGTccgccg < 1:6001/71‑1 (MQ=255)
cATCCGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGccgccg > 1:2072593/1‑71 (MQ=255)
cATCCGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGacgccg > 1:2591897/1‑71 (MQ=255)
cGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCggg > 1:2555749/1‑69 (MQ=255)
aGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCCTAACCTGGCCGCCGGGCaaaa < 1:2123936/70‑1 (MQ=255)
tATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCCTAACCTGGCCGCCGGGCAAAAAgg < 1:510507/71‑1 (MQ=255)
tGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCTTAACCTGGCCGCCGGGCAAAAAGGTc > 1:1886333/1‑71 (MQ=255)
tGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACTTGGCCGCCGGGCAAAAAGGt > 1:2457804/1‑70 (MQ=255)
tGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCaaa < 1:2843388/65‑1 (MQ=255)
gCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCaaa < 1:4479431/64‑1 (MQ=255)
gTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTcc < 1:3291023/71‑1 (MQ=255)
gTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTcc > 1:3850091/1‑71 (MQ=255)
tttttCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAg < 1:1866375/62‑1 (MQ=255)
tttttCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCg > 1:2963606/1‑71 (MQ=255)
ttttCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGgccgcc < 1:3992715/51‑1 (MQ=255)
tttCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGtt > 1:1119798/1‑71 (MQ=255)
tttCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGt < 1:4306104/70‑1 (MQ=255)
aaCAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTg > 1:1329373/1‑40 (MQ=255)
aaCAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGt < 1:4452924/71‑1 (MQ=255)
aaaaGAGTCCAACGCTTTTTATCGCCGTAACTTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGAcc < 1:1503837/71‑1 (MQ=255)
aaaaGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGAc > 1:3849642/1‑70 (MQ=255)
aaaGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCt < 1:2826122/71‑1 (MQ=255)
agagTCCAACGCTTTTTATCGCCGTAACTTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGAccat < 1:3653955/70‑3 (MQ=255)
ccAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGccacc > 1:1573793/1‑71 (MQ=255)
cAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGccacc > 1:833095/1‑70 (MQ=255)
aCGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGccacccac < 1:4379625/71‑1 (MQ=255)
aCGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGccacccac > 1:90179/1‑71 (MQ=255)
cGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCcacccacc > 1:2695766/1‑71 (MQ=255)
cGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCcacccacc > 1:1479848/1‑71 (MQ=255)
cGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCcacccacc > 1:697123/1‑71 (MQ=255)
cGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCcacccacc > 1:3527856/1‑71 (MQ=255)
cGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCcacccacc > 1:405548/1‑71 (MQ=255)
gCTTTTTATCGCCGTAACTTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGAcacccacca > 1:3555339/1‑70 (MQ=255)
gCTTTTTATCGCCGTAACCTGGCCGCCGGGCaaaaa > 1:367670/1‑36 (MQ=255)
gCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCg < 1:3973057/71‑1 (MQ=255)
tttttATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCcacccacc > 1:1720167/1‑68 (MQ=255)
tttttATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTg > 1:4286621/1‑71 (MQ=255)
tCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTGGCTAc < 1:3608101/70‑1 (MQ=255)
tCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTGGCTAc < 1:1830813/70‑1 (MQ=255)
gCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTGGCTACGAc > 1:2960245/1‑71 (MQ=255)
ccGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTGGCTACGACt < 1:591621/71‑1 (MQ=255)
gTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTGGCTACGACTcc > 1:2610214/1‑71 (MQ=255)
tAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGa > 1:2192192/1‑42 (MQ=255)
tAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTGGCTACGACTcc > 1:2870536/1‑70 (MQ=255)
cTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGttt > 1:649751/1‑36 (MQ=255)
|
ACCGTGGACCATCCGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTGGCTACGACTCC > W3110S.gb/3059718‑3059853
|
| 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
