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 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,044,904 |
T→C |
20.4% |
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 | 20.4%
| 111.3
/ 25.3
| 54 | E65E (GAA→GAG) | etp | phosphotyrosine‑protein phosphatase |
| Reads supporting (aligned to +/- strand): ref base T (25/18); new base C (5/6); total (30/24) |
| Fisher's exact test for biased strand distribution p-value = 5.10e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.59e-01 |
ACTCCATTGCCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAGGGTGTTTTACCAGAC > W3110S.gb/1044837‑1044971
|
aCTCCATTGCCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCCTCa < 1:2127862/71‑1 (MQ=255)
tCCATTGCCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTc > 1:3095725/1‑68 (MQ=255)
cATTGCCAGAATCAGATCGTAATTTCGTTCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAaga < 1:3126022/70‑1 (MQ=255)
cATTGCCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCaa > 1:1668616/1‑68 (MQ=255)
cATTGCCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCaa > 1:897910/1‑68 (MQ=255)
cATTGCCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAaga < 1:2878714/70‑1 (MQ=255)
cATTGCCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAaga < 1:4042449/70‑1 (MQ=255)
cATTGCCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAaga < 1:313781/70‑1 (MQ=255)
cATTGCCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCCTCaa > 1:2753231/1‑68 (MQ=255)
cATTGCCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCCTCaa > 1:3637037/1‑68 (MQ=255)
gCCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAgaga > 1:112620/1‑68 (MQ=255)
ccAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCCTCaa > 1:1842467/1‑63 (MQ=255)
cAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGc < 1:1948170/71‑1 (MQ=255)
tCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGa > 1:1587109/1‑71 (MQ=255)
aGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGAtt < 1:248725/71‑1 (MQ=255)
cGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGAt > 1:3462035/1‑66 (MQ=255)
cGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGAt > 1:586812/1‑66 (MQ=255)
cGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCg > 1:3222429/1‑71 (MQ=255)
tAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCgg > 1:4115956/1‑70 (MQ=255)
tAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCgg > 1:925600/1‑70 (MQ=255)
tAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGc < 1:1419209/71‑1 (MQ=255)
aaTTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATg < 1:1491643/61‑1 (MQ=255)
ttCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAagag > 1:925808/1‑48 (MQ=255)
tCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAag < 1:4436032/45‑1 (MQ=255)
tCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACAt > 1:2633998/1‑71 (MQ=255)
tCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACAt > 1:3878398/1‑71 (MQ=255)
cGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACAt < 1:748440/70‑1 (MQ=255)
tGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAgaga < 1:3559461/45‑1 (MQ=255)
tGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCCTCAAGAGATACGcc < 1:1219294/51‑1 (MQ=255)
ccATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAaga > 1:4510693/1‑41 (MQ=255)
tctcAGCAGTGAGCTTACGTCCGGCATGTCCTTCaa < 1:4036013/36‑1 (MQ=255)
tctcAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAgaga < 1:3588784/40‑1 (MQ=255)
tctcAGCAGTGAGCTTACGTCCGGCATGTCCCTCAag < 1:402274/37‑1 (MQ=255)
tcAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGAt > 1:342822/1‑39 (MQ=255)
tcAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGcc > 1:4425868/1‑44 (MQ=255)
tcAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGc < 1:4391517/43‑1 (MQ=255)
tcAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCaa > 1:2617282/1‑58 (MQ=255)
cagcagTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTc > 1:1117113/1‑71 (MQ=255)
cagcagTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTc > 1:4165139/1‑71 (MQ=255)
agcagTGAGCTTACGTCCGGCATGTCCTTCAAGTGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCg < 1:1475849/71‑1 (MQ=255)
tGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGc < 1:3335373/36‑1 (MQ=255)
tGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGa < 1:3255343/41‑1 (MQ=255)
tGAGCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGc < 1:503967/67‑1 (MQ=255)
aGCTTACGTCCGGCATGTCCCTCCAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGc < 1:989561/71‑1 (MQ=255)
aGCTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTc > 1:766088/1‑63 (MQ=255)
cTTACGTCCGGCATGTCCCTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGc < 1:3579049/63‑1 (MQ=255)
tACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAggg > 1:1559114/1‑71 (MQ=255)
gTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAGGgtgt < 1:3226314/71‑1 (MQ=255)
gCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATATGCCGCTGTCGCATCTGCAGGGTGTTTTAc > 1:4054492/1‑71 (MQ=255)
tCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTg > 1:1207933/1‑38 (MQ=255)
tCCCTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAGGGTGTTTTACCAGAc > 1:3857216/1‑71 (MQ=255)
cTTCAAGAGATACGCCATGATTAGCGGCAACATCTGc > 1:4485464/1‑37 (MQ=255)
cTTCAAGAGATACGCCATGATTAGCGGCAACATCTGc > 1:2780408/1‑37 (MQ=255)
cTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAGGGTGTTTTa > 1:3021472/1‑63 (MQ=255)
ttCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCt < 1:3170293/40‑1 (MQ=255)
ttCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAGGGTGTTTTACCAGAc < 1:1371369/68‑1 (MQ=255)
|
ACTCCATTGCCAGAATCAGATCGTAATTTCGTGCCATCTCAGCAGTGAGCTTACGTCCGGCATGTCCTTCAAGAGATACGCCATGATTAGCGGCAACATCTGCCGCTGTCGCATCTGCAGGGTGTTTTACCAGAC > W3110S.gb/1044837‑1044971
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
