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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,277,106 |
A→G |
14.6% |
T84A (ACT→GCT) |
sohA → |
predicted regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,277,106 | 0 | A | G | 14.6%
| 112.3
/ 13.3
| 48 | T84A (ACT→GCT) | sohA | predicted regulator |
| Reads supporting (aligned to +/- strand): ref base A (17/24); new base G (2/5); total (19/29) |
| Fisher's exact test for biased strand distribution p-value = 6.87e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.62e-01 |
GGATCATACTATGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACATTGATGATG > W3110S.gb/3277042‑3277172
|
ggaTCATACTATGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTc < 1:3560944/71‑1 (MQ=255)
cTATGAATGCATTTTTGCGTTTTCTGGATGCAGTTATCCAGAACAACCCGCAAAAAGCTCGTCcat > 1:326377/1‑66 (MQ=255)
cTATGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTCcattcaa > 1:1025300/1‑70 (MQ=255)
cTATGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCcattcaa > 1:2564155/1‑70 (MQ=255)
cTATGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCcattcaa > 1:2559439/1‑70 (MQ=255)
cTATGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCcattcaa < 1:3543231/70‑1 (MQ=255)
cTATGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCcattcaa > 1:3906641/1‑70 (MQ=255)
aTGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCcattca < 1:3078121/63‑1 (MQ=255)
tGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCcattcaacattcaa > 1:2936382/1‑70 (MQ=255)
tGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCattcaacattcaac < 1:1491705/71‑1 (MQ=255)
tGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCattcaacattcaac < 1:1546260/71‑1 (MQ=255)
cATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCcattc < 1:2555026/59‑1 (MQ=255)
cATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCattcaacattcaac > 1:3656426/1‑69 (MQ=255)
cATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCattcaacattcaac > 1:1313232/1‑69 (MQ=255)
cATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCAttcaacattcaaca < 1:1593845/70‑1 (MQ=255)
aTTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCcattcaa > 1:1797643/1‑60 (MQ=255)
tttttGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCcattcaacattc < 1:2285253/64‑1 (MQ=255)
tttGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCca > 1:2605657/1‑52 (MQ=255)
tttGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGga > 1:1738025/1‑70 (MQ=255)
ttGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGga > 1:1015364/1‑69 (MQ=255)
cGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGgaaaga < 1:460122/70‑1 (MQ=255)
cGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGgaaaga < 1:1382361/70‑1 (MQ=255)
gTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGgaaagaaa < 1:3385647/71‑1 (MQ=255)
tCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACtt < 1:3101237/70‑1 (MQ=255)
tCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACtt < 1:2404204/70‑1 (MQ=255)
tCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACtt < 1:4024250/70‑1 (MQ=255)
tCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACtt < 1:1431645/70‑1 (MQ=255)
tCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACtt < 1:95768/70‑1 (MQ=255)
aGATATCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTgg < 1:2056142/69‑1 (MQ=255)
tatCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTCGCATg < 1:2532924/70‑1 (MQ=255)
atCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGa > 1:1828905/1‑71 (MQ=255)
tCCAGAACAACCCGCAAAAAACTCGTCcattcaaca > 1:973030/1‑36 (MQ=255)
cAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGgaaagaaa > 1:301122/1‑51 (MQ=255)
cAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGgaaagaaa > 1:2015491/1‑51 (MQ=255)
cAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGgaaagaaa > 1:533367/1‑51 (MQ=255)
gAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTc < 1:1907267/70‑1 (MQ=255)
gAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTc < 1:3322372/70‑1 (MQ=255)
caacaacCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTc < 1:1935027/69‑1 (MQ=255)
aacaacCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCaa < 1:2888824/71‑1 (MQ=255)
aacaacCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCaa < 1:3502786/71‑1 (MQ=255)
caacCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAAc > 1:1023130/1‑70 (MQ=255)
caacCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACa > 1:1655277/1‑71 (MQ=255)
cGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACATtgat < 1:2291607/71‑1 (MQ=255)
cGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACATtgat < 1:1093376/71‑1 (MQ=255)
cGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACATtgat < 1:93997/71‑1 (MQ=255)
cGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACATtgat < 1:3925324/71‑1 (MQ=255)
cAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTc < 1:3244723/45‑1 (MQ=255)
cAAAAAACTCCTCCATTCAACATTCAACAAGGAAAGAAACTTGTc < 1:2836568/45‑1 (MQ=255)
aaaaaCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACATtgatgatg < 1:3448638/71‑1 (MQ=255)
aaaCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACATtgatgat > 1:974110/1‑68 (MQ=255)
aaCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATg < 1:887186/49‑1 (MQ=255)
aaCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATg < 1:964386/49‑1 (MQ=255)
|
GGATCATACTATGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACATTGATGATG > W3110S.gb/3277042‑3277172
|
| 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
