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 |
1,477,935 |
G→A |
81.0% |
E360K (GAA→AAA) |
ydbD → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,477,935 | 0 | G | A | 81.0%
| 127.6
/ 24.9
| 58 | E360K (GAA→AAA) | ydbD | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (4/7); new base A (20/27); total (24/34) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.35e-01 |
GAAATAATGACGCGAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGATCATTCAGG > W3110S.gb/1477872‑1477998
|
gAAATAATGACGCGAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGAAAAt < 1:1762027/69‑1 (MQ=255)
gAAATAATGACGCGAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGAAAAt < 1:3191800/69‑1 (MQ=255)
aataatGACGCGAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAAtct < 1:3570077/69‑1 (MQ=255)
aataatGACGCGAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAAtct < 1:2420346/69‑1 (MQ=255)
taatGACGCGAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGAAAATCTcc < 1:2476202/69‑1 (MQ=255)
aatGACGCGAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTccc > 1:1878561/1‑69 (MQ=255)
aatGACGCGAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTccc > 1:461266/1‑69 (MQ=255)
gACGCGAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAAtctc < 1:1614974/64‑1 (MQ=255)
gACGCGAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAAtctc < 1:1076950/64‑1 (MQ=255)
gACGCGAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAAtctc < 1:79605/64‑1 (MQ=255)
gcgAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGa < 1:2361974/69‑1 (MQ=255)
gAGTCGTCTTCCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGt < 1:3272275/69‑1 (MQ=255)
gAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGt < 1:1510230/69‑1 (MQ=255)
gAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGt < 1:866647/69‑1 (MQ=255)
gAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGt < 1:539943/69‑1 (MQ=255)
aGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGt < 1:818351/68‑1 (MQ=255)
cTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGAAAATCTCCCTCTGGATATCGTCATGAct > 1:3435013/1‑69 (MQ=255)
tACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGActc > 1:943153/1‑69 (MQ=255)
tACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGActc > 1:3163868/1‑69 (MQ=255)
tACCTGATGGAGTCGGTCCGTTGAATCTTGAGCTACGTAAAAATCTcc > 1:3191609/1‑48 (MQ=255)
gATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGAAAATCTCCCTCTGGATATCGTCATGACTCTGGc > 1:862468/1‑68 (MQ=255)
ggTGTCGGTCCGTTGAATCTTGCGCTACGTGAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGaa < 1:872428/68‑1 (MQ=255)
gtCGGTCCGTTGAATCTTGCGCTACGTGAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAaga < 1:2236358/69‑1 (MQ=255)
gtCGGTCCGTTGAATCTTGCGCTACGTGAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAaga < 1:1671198/69‑1 (MQ=255)
ggTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTg < 1:3199862/39‑1 (MQ=255)
ggTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTg < 1:19342/39‑1 (MQ=255)
ggTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGa < 1:694678/41‑1 (MQ=255)
ggTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGa < 1:2632521/41‑1 (MQ=255)
ggTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGa < 1:2800758/41‑1 (MQ=255)
ggTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTg < 1:1406667/57‑1 (MQ=255)
ggTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGAt > 1:620541/1‑69 (MQ=255)
ggTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGAt > 1:3674372/1‑69 (MQ=255)
ccGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTgg < 1:790287/69‑1 (MQ=255)
ccGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTgg < 1:199986/69‑1 (MQ=255)
ccGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATAGTCATGACTCTGGCGAAAAGAGATTgg < 1:1994545/69‑1 (MQ=255)
cGTTGAATCTTGCGCTACGTGAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTgg > 1:2988066/1‑68 (MQ=255)
gAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGaa > 1:598800/1‑54 (MQ=255)
gAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGaa > 1:3114900/1‑54 (MQ=255)
gAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGaa > 1:199788/1‑54 (MQ=255)
gAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGa > 1:2983689/1‑53 (MQ=255)
gAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGatat > 1:2910399/1‑69 (MQ=255)
gAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGatat > 1:2068331/1‑69 (MQ=255)
gAATCTTGCGCTACGTAAAAATCTCCCTCTCGATATCGTCATGACTCTGGCGAAAAgaga > 1:817198/1‑60 (MQ=255)
ttGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGaa < 1:3612403/49‑1 (MQ=255)
ttGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGaa < 1:3100576/49‑1 (MQ=255)
ttGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGaa < 1:1531244/49‑1 (MQ=255)
ttGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGATATTGGGa < 1:3728783/61‑1 (MQ=255)
ttGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGa < 1:3133421/61‑1 (MQ=255)
ttGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGa < 1:2978500/61‑1 (MQ=255)
ttGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGa > 1:2553280/1‑61 (MQ=255)
ttGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGa > 1:2166053/1‑61 (MQ=255)
ttGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGa > 1:2076416/1‑61 (MQ=255)
tGCGCTACGTGAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGATCa > 1:3290/1‑68 (MQ=255)
tGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGaa < 1:3593442/48‑1 (MQ=255)
tGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGATCa > 1:852935/1‑68 (MQ=255)
tGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGATCa > 1:569486/1‑68 (MQ=255)
tGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGATCa > 1:1347309/1‑68 (MQ=255)
tACGTGAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGATCATTCAgg < 1:1473973/69‑1 (MQ=255)
|
GAAATAATGACGCGAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGATCATTCAGG > W3110S.gb/1477872‑1477998
|
| 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
