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 |
1,044,904 |
T→C |
38.7% |
E65E (GAA→GAG) |
etp ← |
phosphotyrosine‑protein phosphatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,044,904 | 0 | T | C | 38.7%
| 53.6
/ 85.0
| 75 | E65E (GAA→GAG) | etp | phosphotyrosine‑protein phosphatase |
| Reads supporting (aligned to +/- strand): ref base T (27/19); new base C (7/22); total (34/41) |
| Fisher's exact test for biased strand distribution p-value = 4.36e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.60e-01 |
CATTGCCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAGGGTGTTTTACCAGAC > W3110S.gb/1044841‑1044971
|
cATTGCCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAaga < 1:2531333/70‑1 (MQ=255)
cATTGCCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCCTCaa > 1:2957315/1‑68 (MQ=255)
cATTGCCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCCTCaa > 1:3656910/1‑68 (MQ=255)
aTTGGCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAgaga < 1:1605462/71‑1 (MQ=255)
aTTGCCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAgaga < 1:501920/71‑1 (MQ=255)
gCCATAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATAc > 1:3191395/1‑71 (MQ=255)
gCCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATAc > 1:3518402/1‑71 (MQ=255)
aaTCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCAt < 1:3610116/71‑1 (MQ=255)
aaTCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCCTCAAGAGATACGCCAt < 1:1047265/71‑1 (MQ=255)
aTCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCa < 1:188785/57‑1 (MQ=255)
aTCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATg < 1:2571319/71‑1 (MQ=255)
tCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATAc < 1:430585/64‑1 (MQ=255)
tCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATAc < 1:2825882/64‑1 (MQ=255)
tCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGa > 1:3974140/1‑71 (MQ=255)
tCAGATCGTAATTTCGTGCCATATCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGa > 1:3707044/1‑71 (MQ=255)
aTCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCCTCAaga < 1:3887621/55‑1 (MQ=255)
aTCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCCTCAaga < 1:3418905/55‑1 (MQ=255)
aTCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCCTCAaga < 1:3599979/55‑1 (MQ=255)
aTCGAAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCCTCAaga < 1:3944976/55‑1 (MQ=39)
tCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACTCCa > 1:3607693/1‑63 (MQ=255)
cGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTa > 1:2686835/1‑68 (MQ=255)
cGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTa > 1:314671/1‑68 (MQ=255)
cGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTa > 1:1805996/1‑68 (MQ=255)
aTTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAaga > 1:798748/1‑49 (MQ=255)
tCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATa > 1:3902506/1‑50 (MQ=255)
tCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATa > 1:727266/1‑50 (MQ=255)
tCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATa > 1:3897092/1‑50 (MQ=255)
tCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACa > 1:3226361/1‑70 (MQ=255)
tCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACAt > 1:2061257/1‑71 (MQ=255)
tCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACAt > 1:741335/1‑71 (MQ=255)
cGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGATTAGCGGCAACAt < 1:178597/70‑1 (MQ=255)
aTCTCAGCAGTGAGCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGATTAGCGGCAAc < 1:1543089/62‑1 (MQ=255)
aTCTCAGCAGTGAGCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGATTAGCGGCAAc < 1:379815/62‑1 (MQ=255)
tctcAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGc < 1:1719948/45‑1 (MQ=255)
tctcAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGc < 1:3766479/45‑1 (MQ=255)
tctcAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCt < 1:1042359/65‑1 (MQ=255)
tctcAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCt < 1:1143785/65‑1 (MQ=255)
tctcAGCAGTGAGCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGAtt < 1:891604/52‑1 (MQ=255)
tctcAGCAGTGAGCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGAtt < 1:1408417/52‑1 (MQ=255)
tctcAGCAGTGAGCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGAtt < 1:2077440/52‑1 (MQ=255)
tctcAGCAGTGAGCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGAtt < 1:162150/52‑1 (MQ=255)
tctcAGCAGTGAGCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGATTAGCGGCAAc < 1:3304665/61‑1 (MQ=255)
tctcAGCAGTGAGCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGATTAGCGGCAAc < 1:826524/61‑1 (MQ=255)
tcAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGc > 1:1016754/1‑65 (MQ=255)
tcAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGc > 1:273944/1‑65 (MQ=255)
tcAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGt > 1:3949883/1‑71 (MQ=255)
cagTGAGCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCa < 1:3489807/71‑1 (MQ=255)
tGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACa < 1:4021385/53‑1 (MQ=255)
tGAGCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGATTAGCGGc < 1:4002799/49‑1 (MQ=255)
tGAGCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGATTAGCGGc < 1:2512493/49‑1 (MQ=255)
tGAGCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGATTAGCGGCAACa < 1:35801/53‑1 (MQ=255)
tGAGCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGATTAGCGGCAACa < 1:866152/53‑1 (MQ=255)
gAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGa > 1:933061/1‑40 (MQ=255)
aGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTg < 1:3419626/70‑1 (MQ=255)
aGCTTAAGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTg > 1:4161/1‑70 (MQ=255)
gCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTg > 1:2445883/1‑69 (MQ=255)
gCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTg > 1:909420/1‑69 (MQ=255)
gCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCa < 1:1180059/71‑1 (MQ=255)
gCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCa < 1:1142206/71‑1 (MQ=255)
tACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTa > 1:2943701/1‑38 (MQ=255)
tACGTCCGGCATGTCCCTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAggg > 1:349281/1‑71 (MQ=255)
tACGTCCGGCATGTCCCTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAggg > 1:531426/1‑71 (MQ=255)
aCGTCCGGCATGTCCTTCAAGAGATACGCCATGATTA‑‑GGCAACATCTGc > 1:982028/1‑49 (MQ=38)
cGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAGGgtg < 1:1364099/71‑1 (MQ=255)
cGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAGGGTGttt > 1:2431066/1‑70 (MQ=255)
cGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAGGGTGttt > 1:2204149/1‑70 (MQ=255)
gCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAGGGTGTTTTAc < 1:334852/71‑1 (MQ=255)
gCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAGGGTGTTTTAc < 1:3273600/71‑1 (MQ=255)
gCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAGGGTGTTTTAc < 1:1880531/71‑1 (MQ=255)
aTGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAGGGTGTTTTACCa < 1:3412099/71‑1 (MQ=255)
aTGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAGGGTGTTTTACCa < 1:1280107/71‑1 (MQ=255)
tCCTTCAAGAGATACGCCATGATTAGCGGCAACAt > 1:818709/1‑35 (MQ=255)
tCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAGGGTGttt > 1:437830/1‑63 (MQ=255)
tCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAGGGTGttt > 1:3399888/1‑63 (MQ=255)
tCCCTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAGGGTGTTTTACCAGAc > 1:2983706/1‑71 (MQ=255)
|
CATTGCCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAGGGTGTTTTACCAGAC > W3110S.gb/1044841‑1044971
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
