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 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,059,788 |
C→T |
36.6% |
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 | 36.6%
| 39.8
/ 39.0
| 41 | L95L (CTG→TTG) | yliK | methylmalonyl‑CoA mutase |
| Reads supporting (aligned to +/- strand): ref base C (19/7); new base T (5/10); total (24/17) |
| Fisher's exact test for biased strand distribution p-value = 2.12e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
ACCGTGGACCATCCGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTGGCTACGACTCCGATAA > W3110S.gb/3059718‑3059858
|
aCCGTGGACCATCCGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAAcc < 1:2728618/71‑1 (MQ=255)
aCCGTGGACCATCCGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAAcc < 1:4544559/71‑1 (MQ=255)
cGTGGACCATCCGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACTTg < 1:2643467/71‑1 (MQ=255)
tGGACCATCCGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACTTGgc < 1:4555130/71‑1 (MQ=255)
ggACCATCCGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGgcc > 1:666994/1‑71 (MQ=255)
cATCCGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGccgccg > 1:2517842/1‑71 (MQ=255)
cGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGc > 1:1144583/1‑70 (MQ=255)
tCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACTTGgccgc > 1:3184471/1‑63 (MQ=255)
tCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACTTGgccgc > 1:3107066/1‑63 (MQ=255)
aGTATGCTGGTTTTTCAACAGCAAAAGAGTCCATCGCTTTTTATCGCCGTAACTTGGCCGCCCGGCaaaa < 1:1316133/70‑1 (MQ=255)
aGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACTTGGCCGCCGGGCaaaa < 1:4054377/70‑1 (MQ=255)
gTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACTTGGCCGCCGGGCAAAAAg < 1:309663/71‑1 (MQ=255)
tATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACTTGGCCGCCGGGCAAAAAgg < 1:4513312/71‑1 (MQ=255)
tGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGTCGGGCAAAAAGGTc > 1:534411/1‑71 (MQ=255)
tGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTc > 1:2389174/1‑71 (MQ=255)
gTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACTTGGCCGCCGGGCAAAAAgg > 1:3692119/1‑64 (MQ=255)
gTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACTTGGCCGCCGGGCAAAAAgg > 1:2991765/1‑64 (MQ=255)
ttttCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGt > 1:1009235/1‑71 (MQ=255)
ttttCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGt > 1:1546409/1‑71 (MQ=255)
ttttCAACAGCAAAAGAGTCAAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAg > 1:2357981/1‑61 (MQ=255)
tttCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAg > 1:3065728/1‑60 (MQ=255)
tttCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGtt > 1:1997515/1‑71 (MQ=255)
tCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGc > 1:1107317/1‑71 (MQ=255)
aGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACTTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTg < 1:703037/71‑1 (MQ=255)
aaaaGAGTCCAACGCTTTTTATCGCCGTAACTTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTg < 1:3883154/68‑1 (MQ=255)
aaaGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCt < 1:4327075/71‑1 (MQ=255)
aaGAGTCCAACGCTTTTTATCGCCGTAACTTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCtt < 1:368966/71‑1 (MQ=255)
gTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGcca > 1:4630743/1‑71 (MQ=255)
cAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGccacc > 1:3001662/1‑70 (MQ=255)
aCGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGccacccac > 1:1464316/1‑71 (MQ=255)
aCGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGccaccca < 1:3712085/70‑1 (MQ=255)
gCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCt > 1:2859570/1‑41 (MQ=255)
gCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCt > 1:273329/1‑41 (MQ=255)
cTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGt > 1:3127600/1‑71 (MQ=255)
tttttATCGCCGTAACTTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTg > 1:1791216/1‑71 (MQ=255)
ttttATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCg < 1:814721/43‑1 (MQ=255)
ttttATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTg > 1:4431494/1‑70 (MQ=255)
tCGCCGTAACTTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTGGCTAc < 1:5028458/70‑1 (MQ=255)
aCCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTGGCTACGACTCCGa > 1:3961696/1‑70 (MQ=255)
aCCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTGGCTACGACTCCGAt < 1:3973753/71‑1 (MQ=255)
aCCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTGGCTACGACTCCGAt < 1:3795566/71‑1 (MQ=255)
aCCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTGGCTACGACTCCGAt < 1:3033356/71‑1 (MQ=255)
aCCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTGGCTACGACTCCGAt < 1:2355307/71‑1 (MQ=255)
cTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTGGCTACGACTCCGATaa < 1:3566280/71‑1 (MQ=255)
|
ACCGTGGACCATCCGTCAGTATGCTGGTTTTTCAACAGCAAAAGAGTCCAACGCTTTTTATCGCCGTAACCTGGCCGCCGGGCAAAAAGGTCTTTCCGTTGCGTTTGACCTTGCCACCCACCGTGGCTACGACTCCGATAA > W3110S.gb/3059718‑3059858
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
