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 |
|
A1 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,835,870 |
C→T |
22.9% |
A14V (GCT→GTT) |
ydjY → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,835,870 | 0 | C | T | 22.9%
| 77.2
/ 19.6
| 40 | A14V (GCT→GTT) | ydjY | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (20/10); new base T (2/7); total (23/17) |
| Fisher's exact test for biased strand distribution p-value = 2.62e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.71e-01 |
CCAAAAAATGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGAATGCGGC > W3110S.gb/1835808‑1835930
|
ccAAAAAATGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCAct > 1:563441/1‑69 (MQ=255)
ccAAAAAATGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCAct > 1:1759821/1‑69 (MQ=255)
ccAAAAAATGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCAct > 1:50475/1‑69 (MQ=255)
aaaaaTGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGTTGCACTCTg < 1:3460044/69‑1 (MQ=255)
aaaaaTGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGTTGCACTCTg < 1:617609/69‑1 (MQ=255)
aaaTGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGTTGCACTCTGtt < 1:2846243/69‑1 (MQ=255)
aaaTGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGtt < 1:2089916/69‑1 (MQ=255)
aaaTGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGtt < 1:1655772/69‑1 (MQ=255)
aaaTGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGtt < 1:2085487/69‑1 (MQ=255)
aaGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTg > 1:1907957/1‑69 (MQ=255)
aaGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTg > 1:2446962/1‑69 (MQ=255)
aGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGTTGCACTCTGTTTACTGGCTGtt < 1:793801/69‑1 (MQ=255)
aGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGt < 1:1762221/68‑1 (MQ=255)
gAACGATGTTGGAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGttt > 1:2280197/1‑58 (MQ=255)
gAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGTTTGCACTCTGt < 1:760134/56‑1 (MQ=255)
gAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGTTGCACTCTGt > 1:891974/1‑56 (MQ=255)
gAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTg < 1:1371672/69‑1 (MQ=255)
gAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTg < 1:3716015/69‑1 (MQ=255)
gAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTg > 1:3437560/1‑69 (MQ=255)
gAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTg < 1:2289362/69‑1 (MQ=255)
gAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGATGCACTCTGt > 1:2494184/1‑56 (MQ=255)
gTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGTTGCACTCTGTTTACTGGCTGTTGCTGGGCt < 1:2142694/69‑1 (MQ=255)
gCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAg > 1:741927/1‑69 (MQ=255)
cAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTa < 1:1125312/67‑1 (MQ=255)
cATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCtt > 1:2958065/1‑63 (MQ=255)
cATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCtt > 1:305971/1‑63 (MQ=255)
ttattCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTg > 1:2289246/1‑56 (MQ=255)
ttCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCg > 1:1006046/1‑68 (MQ=255)
cAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATc < 1:3183810/69‑1 (MQ=255)
cAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATc < 1:1501078/69‑1 (MQ=255)
tCATGGAAAAAAGGACTGGTTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATcaacaa < 1:2143309/69‑1 (MQ=255)
tCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATcaac > 1:867100/1‑67 (MQ=255)
aTGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAag > 1:468074/1‑68 (MQ=255)
aTGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAag > 1:152692/1‑68 (MQ=255)
gAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATcaacaa > 1:195735/1‑64 (MQ=255)
gAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGaa > 1:2616100/1‑69 (MQ=255)
aaaGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAg > 1:1085718/1‑44 (MQ=255)
aaaGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTTCGATCAACAAGAGAATgcg > 1:353675/1‑69 (MQ=255)
aaaGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGAATgcg > 1:2800203/1‑69 (MQ=255)
aGGACTGGTTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGAATgcggc > 1:1259033/1‑69 (MQ=255)
|
CCAAAAAATGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGAATGCGGC > W3110S.gb/1835808‑1835930
|
| 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
