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 |
2,938,519 |
A→G |
56.3% |
I166V (ATC→GTC) |
fucR → |
DNA‑binding transcriptional activator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,938,519 | 0 | A | G | 56.3%
| 30.6
/ 90.6
| 71 | I166V (ATC→GTC) | fucR | DNA‑binding transcriptional activator |
| Reads supporting (aligned to +/- strand): ref base A (9/22); new base G (27/13); total (36/35) |
| Fisher's exact test for biased strand distribution p-value = 1.83e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.16e-01 |
CTTGAGCGCAAATATGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCACTGTGGGACTCCA > W3110S.gb/2938456‑2938579
|
cTTGAGCGCAAATATGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGAt > 1:3512731/1‑69 (MQ=255)
ttGAGCGCAAATATGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATc > 1:444901/1‑69 (MQ=255)
tGAGCGCAAATATGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATc > 1:673518/1‑68 (MQ=255)
tGAGCGCAAATATGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATc > 1:3162249/1‑68 (MQ=255)
tGAGCGCAAATATGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATc > 1:2329568/1‑68 (MQ=255)
tGAGCGCAAATATGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATc > 1:1598580/1‑68 (MQ=255)
gAGCGCAAATATGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGa < 1:1674337/65‑1 (MQ=255)
atatGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTAtttt < 1:1005505/69‑1 (MQ=255)
atatGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTAtttt < 1:2759651/69‑1 (MQ=255)
atatGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTAtttt < 1:1001216/69‑1 (MQ=255)
gCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGa < 1:244582/52‑1 (MQ=255)
tGTTAAGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTG‑TTATTTTTTCTtgtg < 1:1239265/69‑1 (MQ=255)
gTTACGTTAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTtgtg < 1:2523290/69‑1 (MQ=255)
gTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTtgtg < 1:1391275/69‑1 (MQ=255)
gTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTtgtg < 1:3354327/69‑1 (MQ=255)
aCGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGaa > 1:2489011/1‑68 (MQ=255)
aCGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGaa > 1:2981021/1‑68 (MQ=255)
aCGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGaa > 1:3263068/1‑68 (MQ=255)
aCGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGa > 1:802670/1‑67 (MQ=255)
aCGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCg < 1:3699424/45‑1 (MQ=255)
aCGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCg < 1:2336285/45‑1 (MQ=255)
aCGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCt < 1:2282208/62‑1 (MQ=255)
aCGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCt < 1:2348262/62‑1 (MQ=255)
cGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAgg > 1:1151290/1‑69 (MQ=255)
tCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGa > 1:3049054/1‑69 (MQ=255)
aaTCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATc < 1:2917173/69‑1 (MQ=255)
aaTCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATc < 1:2442537/69‑1 (MQ=255)
aaTCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAg > 1:2381401/1‑64 (MQ=255)
aaTCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATc < 1:2567662/69‑1 (MQ=255)
aaTCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATc > 1:1216987/1‑69 (MQ=255)
aaTCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATc < 1:1644996/69‑1 (MQ=255)
tCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCg < 1:2655486/68‑1 (MQ=255)
cccTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGAt < 1:1333951/69‑1 (MQ=255)
cccTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGAt < 1:469355/69‑1 (MQ=255)
ccTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGAt > 1:447727/1‑68 (MQ=255)
ccTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGAt > 1:2462818/1‑68 (MQ=255)
ccTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTc > 1:503839/1‑52 (MQ=255)
ccTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATc < 1:458503/65‑1 (MQ=255)
ccTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATc > 1:1534792/1‑65 (MQ=255)
tCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATagc < 1:1589239/69‑1 (MQ=255)
gCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTtgtg < 1:162278/53‑1 (MQ=255)
gCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTtgtg > 1:673295/1‑53 (MQ=255)
gCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATagcag > 1:1652269/1‑69 (MQ=255)
gCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATagcag > 1:2340991/1‑69 (MQ=255)
ttCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATagc < 1:2857073/61‑1 (MQ=255)
ttCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATagc < 1:172774/61‑1 (MQ=255)
tCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATc > 1:3046229/1‑54 (MQ=255)
tCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATc > 1:2002363/1‑54 (MQ=255)
tCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATc > 1:2596209/1‑54 (MQ=255)
tCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCa < 1:128093/69‑1 (MQ=255)
tCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCa < 1:3118582/69‑1 (MQ=255)
aaCTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCACtgt > 1:1380851/1‑69 (MQ=255)
aaCTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCACtg > 1:3153993/1‑68 (MQ=255)
cTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGa > 1:2012330/1‑50 (MQ=255)
cTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGa < 1:877940/50‑1 (MQ=255)
cTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGa < 1:2049395/50‑1 (MQ=255)
cTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGa < 1:2225359/50‑1 (MQ=255)
cTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGa > 1:273148/1‑50 (MQ=255)
ttAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCACTGTggg > 1:1834263/1‑69 (MQ=255)
tAAATCGCTGGAAGTCGATCTGTTTATTTTTTATTGTGAAGGGATCGATAGCAGCGGCGCACTGTGGGa > 1:3133074/1‑69 (MQ=255)
tAAATCGCTGCAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCACTGTGGGa > 1:483309/1‑69 (MQ=255)
tAAATCGCAGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATa > 1:2113033/1‑50 (MQ=39)
aaaTCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATc < 1:3507319/45‑1 (MQ=255)
aaaTCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGAt > 1:1915826/1‑48 (MQ=255)
aaaTCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGAt > 1:1701791/1‑48 (MQ=255)
aaaTCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGAt > 1:2913760/1‑48 (MQ=255)
tCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCACTGTGGGACTcc < 1:908778/69‑1 (MQ=255)
cGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATGGCAGCGGCGCACTGTGGGACTCCa > 1:684269/1‑69 (MQ=255)
gAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCACTGTgg < 1:126567/57‑1 (MQ=255)
gAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCACTGTgg < 1:1698956/57‑1 (MQ=255)
gAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCACTGTgg < 1:1279055/57‑1 (MQ=255)
|
CTTGAGCGCAAATATGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCACTGTGGGACTCCA > W3110S.gb/2938456‑2938579
|
| 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
