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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,564,887 |
C→T |
63.9% |
intergenic (‑99/+193) |
yfdE ← / ← glk |
predicted CoA‑transferase, NAD(P)‑binding/glucokinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,564,887 | 0 | C | T | 63.9%
| 50.2
/ 55.5
| 61 | intergenic (‑99/+193) | yfdE/glk | predicted CoA‑transferase, NAD(P)‑binding/glucokinase |
| Reads supporting (aligned to +/- strand): ref base C (14/8); new base T (14/25); total (28/33) |
| Fisher's exact test for biased strand distribution p-value = 6.03e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
GGCATTTATGTAAAATCAATAACATGATTAACGTTAATTCCTCGTTCAGTGATAGTCGACGAGTGAAATTATGAACGTGCAGAACAAATCGCCGTTACCAGACAAATAATGCATTTACTG > minE/1564831‑1564950
|
ggCATTTATGTAAAATCAATAACATGATTAACGTTAATTCCTCGTTCAGTGATAGTCGACGAGTGAAATTa > 1:831183/1‑71 (MQ=255)
ggCATTTATGTAAAATCAATAACATGATTAACGTTAATTCCTCGTTCAGTGATAGTCGACGAGTGAAATTa > 1:370087/1‑71 (MQ=255)
cATTTATGTAAAATCAATAACATGATTAACGTTAATTCCTCGTTCAGTGATAGTCGACGAGTGAAAt < 1:1946752/67‑1 (MQ=255)
tATGTAAAATCAATAACATGATTAACGTTAATTCATCGTTCAGTGATAGTCGACGAGTGAAATTATGa > 1:3969693/1‑68 (MQ=255)
aTGTAAAATCAATAACATGATTAACGTTAATTCCTCGTTCAGTGATAGCCGACGAGTGAAATTATGAACg < 1:5423354/70‑1 (MQ=255)
tGTAAAATCAATAACATGATTAACGTTAATTCCTCGTTCAGTGATAGTCGACGAGTGAAATTATGAACg < 1:5243747/69‑1 (MQ=255)
tGTAAAATCAATAACATGATTAACGTTAATTCCTCGTTCAGTGATAGTCGACGAGTGAAATTATGAACg < 1:3051495/69‑1 (MQ=255)
aTAACATGATTAACGTTAATTCCTCGTTCAGTGATAGTCGACGAGTGAAATTATGAACGTGCAGAACa < 1:1394095/68‑1 (MQ=255)
aaCATGATTAACGTTAATTCCTCGTTCAGTGATAGTCGACGAGTGAAATTATGAACGTGCAGAACaaa > 1:1090873/1‑68 (MQ=255)
aCATGATTAACGTTAATTCCTCGTTCAGTGATAGTCGACGAGTGAAAt > 1:3716286/1‑48 (MQ=255)
cATGATTAACGTTAATTCCTCGTTCAGTGATAGTCGACGAGTGAAATTATGAACGTGCAGAACAAATCGcc > 1:3983791/1‑71 (MQ=255)
tGATTAACGTTAATTCCTCGTTCAGTGATAGTCGACGAGTGAAATTATGAACGTGCAGAACAAATCg > 1:1351107/1‑67 (MQ=255)
tAACGTTAATTCCTCGTTCAGTGATAGTCGACGAGTGAAATTAt > 1:5340105/1‑44 (MQ=255)
tAACGTTAATTCCTCGTTCAGTGATAGTCGACGAGTGAAATTAt > 1:4620577/1‑44 (MQ=255)
tAACGTTAATTCCTCGTTCAGTGATAGTCGACGAGTGAAATTAt > 1:3882854/1‑44 (MQ=255)
atcGTTAATTCCTCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTAc > 1:13374/3‑69 (MQ=255)
atcGTTAATTCCTCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTAc > 1:5665730/3‑69 (MQ=255)
cGTTAATTCCTCGTTCAGTGATAGTTGACGAGTGAAATTATGaa > 1:3674909/1‑44 (MQ=255)
gTTAAATCCTCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAAt > 1:989525/1‑57 (MQ=255)
ttAATTCCTCGTTCAGTGATAGTTGACGAGTGAAATTa < 1:89866/38‑1 (MQ=255)
ttAATTCCTCGTTCAGTGATAGTTGACGAGTGAAATTa < 1:2742161/38‑1 (MQ=255)
ttAATTCCTCGTTCAGTGATAGTTGACGAGTGAAATTa < 1:2246871/38‑1 (MQ=255)
ttAATTCCTCGTTCAGTGATAGTTGACGAGTGAAATTa < 1:75740/38‑1 (MQ=255)
ttAATTCCTCGTTCAGTGATAGTTGACGAGTGAAATTa < 1:1281568/38‑1 (MQ=255)
ttAATTCCTCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGc < 1:1555840/47‑1 (MQ=255)
ttAATTCCTCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGc < 1:1549224/47‑1 (MQ=255)
ttAATTCCTCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTa < 1:4799263/64‑1 (MQ=255)
ttAATTCCTCGTTCAGTGATAGTCGACGAGTGAAATTATGAAc < 1:3607175/43‑1 (MQ=255)
ttAATTCCTCGTTCAGTGATAGTCGACGAGTGAAATTATGAACGTGCAGAACAAATCGc > 1:2518740/1‑59 (MQ=255)
aaTTCCTCGTTCAGTGATAGTTGACGAGTGAAAtt > 1:5277583/1‑35 (MQ=255)
aaTTCCTCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCAGACaaa > 1:745230/1‑71 (MQ=255)
aaTTCCTCGTTCAGTGATAGTCGACGAGTGAAATTATGAACGTGCAGAACAAATCGCCGTTACCAGACaaa > 1:1866222/1‑71 (MQ=255)
aTTCCTCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCAGACAaat < 1:620533/71‑1 (MQ=255)
aTTCCTCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCAGACAaat < 1:3780505/71‑1 (MQ=255)
aTTCCTCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCAGACAaat < 1:4329885/71‑1 (MQ=255)
aTTCCTCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCAGACAaat < 1:3513230/71‑1 (MQ=255)
ccTCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTa > 1:3833993/1‑58 (MQ=255)
ccTCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCAGACaa < 1:5404833/66‑1 (MQ=255)
ccTCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCAGACAaataat > 1:3860437/1‑71 (MQ=255)
ccTCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCAGACAaataat > 1:1453044/1‑71 (MQ=255)
ccTCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCAGACAaataa > 1:3845153/1‑70 (MQ=255)
ccTCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCAGACAaataa < 1:4794704/70‑1 (MQ=255)
ccTCGTTCAGTGATAGTCGACGAGTGAAATTATGAACGTGCAGAACAAATCGCCGTTACCAGACAaataat > 1:5530491/1‑71 (MQ=255)
tCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCaa < 1:1514477/41‑2 (MQ=255)
tCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCa < 1:1181267/59‑1 (MQ=255)
tCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCa < 1:453067/59‑1 (MQ=255)
tCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCa < 1:1866768/59‑1 (MQ=255)
tCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCa < 1:3649770/59‑1 (MQ=255)
tCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCa < 1:3466279/59‑1 (MQ=255)
tCGTTCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCAGACAAATAATg > 1:1232916/1‑70 (MQ=255)
ttCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCAGACAAATAATGCAtt < 1:5621617/71‑1 (MQ=255)
ttCAGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCAGACAAATAATGCAtt < 1:2494953/71‑1 (MQ=255)
ttCAGTGATAGTCGACGAGTGAAATTATGAACGTGCAGAACAAATCGCCGTTACCAGACAAATAATGCAtt < 1:433230/71‑1 (MQ=255)
aGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCAGACAAATAATGCATTTa < 1:2541359/70‑1 (MQ=255)
gTGATAGTCGACGAGTGAAATTATGAACGTGCAGAACAAATCGCCGTTACCAGACAAATAATGCATTTACt < 1:4275528/71‑1 (MQ=255)
tGATAGTTGACGAGTGAAATTATGAACGTGCAAAACaaa < 1:2050402/39‑1 (MQ=38)
tGATAGTTGACGAGTGAAATTATGAACGTGCAAAACaaa < 1:2188321/39‑1 (MQ=38)
gATAGTCGACGAGTGAAATTATGAACGTGCAGAACAAATCGCCGTTACCAGACAAATAATGCATTTACTg > 1:4525058/1‑70 (MQ=255)
aTAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGt > 1:4576650/1‑44 (MQ=38)
aTAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCAGACAaataa > 1:1927597/1‑58 (MQ=255)
aTAGTTGACGAGTGAAATTATGAACGTGCAAAACAAATCGCCGTTACCAGACAAATAATGCATTTACTg > 1:1972136/1‑69 (MQ=255)
|
GGCATTTATGTAAAATCAATAACATGATTAACGTTAATTCCTCGTTCAGTGATAGTCGACGAGTGAAATTATGAACGTGCAGAACAAATCGCCGTTACCAGACAAATAATGCATTTACTG > minE/1564831‑1564950
|
| 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
