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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,891,894 |
C→T |
28.4% |
I183I (ATC→ATT) |
ytfQ → |
predicted sugar transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,891,894 | 0 | C | T | 28.4%
| 65.4
/ 24.0
| 63 | I183I (ATC→ATT) | ytfQ | predicted sugar transporter subunit |
| Reads supporting (aligned to +/- strand): ref base C (12/33); new base T (13/5); total (25/38) |
| Fisher's exact test for biased strand distribution p-value = 1.44e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATTGACCGTAAGAAAGGCTTTGCCGAAGCCATTAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGACTTCACCCGCAGTAAAGGCAAAGAAGTCATGGAGAGCTTTAT > minE/2891838‑2891956
|
aTTGACCGTAAGAAAGGCTTTGCCGAAGCCATTAGGAATGCGCCAAATATCAAAATTATCCGCTCGCa > 1:1770097/1‑68 (MQ=255)
aTTGACCGTAAGAAAGGCTTTGCCGAAGCCATTAGGAATGCGCCAAATATCAAAATTATCCGCTCGCa > 1:2349398/1‑68 (MQ=255)
aTTGACCGTAAGAAAGGCTTTGCCGAAGCCATTAGGAATGCGCCAAATATCAAAATTATCCGCTCGCa > 1:1323833/1‑68 (MQ=255)
aTTGACCGTAAGAAAGGCTTTGCCGAAGCCATTAGGAATGCGCCAAATATCAAAATTATCCGATCGc > 1:2898350/1‑67 (MQ=255)
gACCGTAAGAAAGGCTTTGCCGAAGCCATTAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCa > 1:3396185/1‑69 (MQ=255)
gACCGTAAGAAAGGCTTTGCCGAAGCCATTAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCa > 1:2450515/1‑69 (MQ=255)
gACCGTAAGAAAGGCTTTGCCGAAGCCATTAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCa > 1:2432093/1‑69 (MQ=255)
gACCGTAAGAAAGGCTTTGCCGAAGCCATTAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCa > 1:2337347/1‑69 (MQ=255)
gACCGTAAGAAAGGCTTTGCCGAAGCCATTAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCa > 1:1465997/1‑69 (MQ=255)
cGTAAGAAAGGCTTTGCCGAAGCCATTAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGt < 1:2616307/69‑1 (MQ=255)
tAAGAAAGGCTTTGCCGAAGCCATTAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGa < 1:3398385/69‑1 (MQ=255)
aGGCTTTGCCGAAGCCATTAGGAATGCGCCAAATATCAAAATTATCCGCTCGCAGTCAGGTGACTTCAc < 1:685410/69‑1 (MQ=255)
aGGCTTTGCCGAAGCCATTAGGAATGCGCCAAATATCAAAATTATCCGCTCGCAGTCAGGTGACTTCAc < 1:577298/69‑1 (MQ=255)
aGGCTTTGCCGAAGCCATTAGGAATGCGCCAAATATCAAAATTATCCGCTCGCAGTCAGGTGACTTCAc < 1:573285/69‑1 (MQ=255)
aGGCTTTGCCGAAGCCATTAGGAATGCGCCAAATATCAAAATTATCCGCTCGCAGTCAGGTGACTTCAc < 1:798402/69‑1 (MQ=255)
aGGCTTTGCCGAAGCCATTAGGAATGCGCCAAATATCAAAATTATCCGCTCGCAGTCAGGTGACTTCAc < 1:1113854/69‑1 (MQ=255)
cGAAGCCATTAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGACTTCACCCGCAGTa < 1:2298986/68‑1 (MQ=255)
cGAAGCCATTAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGACTTCACCCGCAGTa < 1:3185207/68‑1 (MQ=255)
cGAAGCCATTAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGACTTCACCCGCAGTa < 1:1875025/68‑1 (MQ=255)
cGAAGCCATTAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGACTTCACCCGCAGTa < 1:1165089/68‑1 (MQ=255)
cGAAGCCATTAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGACTTCACCCGCAGTa < 1:1636678/68‑1 (MQ=255)
cGAAGCCATTAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGACTTCACCCGCAGTa < 1:160421/68‑1 (MQ=255)
cGAAGCCATTAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGACTTCACCCGCAGTa < 1:845200/68‑1 (MQ=255)
cGAAGCCATTAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTAAGGTGACTTCACCCGCAGTa < 1:2653808/68‑1 (MQ=255)
gAAGCCATTAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGACTTCACCCGCAGTa < 1:923442/67‑1 (MQ=255)
tAAGAATGCGGCAAATATCAAAATCATCCGCTCGCAGTCAGGTg < 1:2060538/44‑1 (MQ=255)
tAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTg < 1:412719/44‑1 (MQ=255)
tAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTg < 1:2028731/44‑1 (MQ=255)
tAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTg < 1:3310053/44‑1 (MQ=255)
tAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTg < 1:2167538/44‑1 (MQ=255)
tAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTg < 1:2260485/44‑1 (MQ=255)
tAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTg < 1:1441728/44‑1 (MQ=255)
tAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTg < 1:2380919/44‑1 (MQ=255)
aaGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGt < 1:1070011/42‑1 (MQ=255)
aaGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGt < 1:515854/42‑1 (MQ=255)
aaGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGt < 1:481001/42‑1 (MQ=255)
aaGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGt < 1:923519/42‑1 (MQ=255)
aaGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGt < 1:226106/42‑1 (MQ=255)
aaGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGt < 1:180724/42‑1 (MQ=255)
aaGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGt < 1:1879387/42‑1 (MQ=255)
aaGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGt < 1:2586266/42‑1 (MQ=255)
aaGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGACTTc > 1:878378/1‑48 (MQ=255)
aaGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGACTTCACCCGCAGTAAAGGCAaagaa > 1:111336/1‑69 (MQ=255)
aaGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGACTTCACCCGCAGTAAAGGCAaagaa > 1:3155294/1‑69 (MQ=255)
aaGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGACTTCACCCGCAGTAAAGGCAaagaa > 1:3298294/1‑69 (MQ=255)
aaGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGACTTCACCCGCAGTAAAGGCAaagaa > 1:1290446/1‑69 (MQ=255)
aaGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGACTTCACCCGCAGTAAAGGCAaagaa > 1:1473188/1‑69 (MQ=255)
aaGAATGCGCCAAATATCAAAATCAACCGCTCGCAGTCAGGt < 1:1222836/42‑1 (MQ=255)
aGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGt < 1:3067879/41‑1 (MQ=255)
aGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGt < 1:1264527/41‑1 (MQ=255)
gAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGACTTCACCCGCAGTAAAGGCAaagaag < 1:3108327/68‑1 (MQ=255)
gAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGACTTCACCCGCAGTAAAGGCAaagaag < 1:57324/68‑1 (MQ=255)
tGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGACTTCACCCGCAGTAAAGGCAAAGAAGTCa > 1:2091628/1‑68 (MQ=255)
atCAAAATCATCCGCTCGCAGTCAGGTGACTTCACCCGCAGTAAAGGCAAAGAAGTCATGGAGAGCttt < 1:222743/69‑1 (MQ=255)
aaaaTTATCCGCTCGCAGTCAGGTGACTTCACCCGCAGCAAAGGCAAAGAAGTGATGGAGAGCTTTAt > 1:1613239/1‑68 (MQ=255)
aaaaTTATCCGCTCGCAGTCAGGTGACTTCACCCGCAGCAAAGGCAAAGAAGTGATGGAGAGCTTTAt > 1:1596006/1‑68 (MQ=255)
aaaaTTATCCGCTCGCAGTCAGGTGACTTCACCCGCAGCAAAGGCAAAGAAGTGATGGAGAGCTTTAt > 1:1588495/1‑68 (MQ=255)
aaaaTTATCCGCTCGCAGTCAGGTGACTTCACCCGCAGCAAAGGCAAAGAAGTGATGGAGAGCTTTAt > 1:1878319/1‑68 (MQ=255)
aaaaTTATCCGCTCGCAGTCAGGTGACTTCACCCGCAGCAAAGGCAAAGAAGTGATGGAGAGCTTTAt > 1:2671622/1‑68 (MQ=255)
aaaaTTATCCGCTCGCAGTCAGGTGACTTCACCCGCAGCAAAGGCAAAGAAGTGATGGAGAGCTTTAt > 1:1921028/1‑68 (MQ=255)
aaaaTTATCCGCTCGCAGTCAGGTGACTTCACCCGCAGCAAAGGCAAAGAAGTGATGGAGAGCTTTAt > 1:3326470/1‑68 (MQ=255)
aaaaTTATCCGCTCGCAGTCAGGTGACTTCACCCGCAGCAAAGGCAAAGAAGTGATGGAGAGCTTTAt > 1:2175424/1‑68 (MQ=255)
aaaaTTATCCGCTCGCAGTCAGGTGACTTCACCCGCAGCAAAGGCAAAGAAGTGATGGAGAGCTTTAt > 1:2675329/1‑68 (MQ=255)
|
ATTGACCGTAAGAAAGGCTTTGCCGAAGCCATTAAGAATGCGCCAAATATCAAAATCATCCGCTCGCAGTCAGGTGACTTCACCCGCAGTAAAGGCAAAGAAGTCATGGAGAGCTTTAT > minE/2891838‑2891956
|
| 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
