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 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,587,198 |
C→T |
100% |
E840K (GAA→AAA) |
polA ← |
fused DNA polymerase I 5'‑>3' exonuclease, 3'‑>5' polymerase and 3'‑>5' exonuclease |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,587,198 | 0 | C | T | 94.3%
| 94.5
/ ‑1.2
| 35 | E840K (GAA→AAA) | polA | fused DNA polymerase I 5'‑>3' exonuclease, 3'‑>5' polymerase and 3'‑>5' exonuclease |
| Reads supporting (aligned to +/- strand): ref base C (0/2); new base T (9/24); total (9/26) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.46e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GCAATCATCGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACAGACGGCGTCCGTCC > W3110S.gb/3587131‑3587262
|
gCAATCATCGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGc < 1:1419511/71‑1 (MQ=255)
atcGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTg < 1:987543/70‑1 (MQ=255)
atcGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTg > 1:3612331/1‑70 (MQ=255)
atcGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTg > 1:194660/1‑70 (MQ=255)
atcGCCAGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTg > 1:1323511/1‑70 (MQ=255)
tttGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCAcgacga > 1:274302/1‑70 (MQ=255)
tttGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAg > 1:3259340/1‑71 (MQ=255)
tttGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAg > 1:3238037/1‑71 (MQ=255)
tGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCAtt < 1:3413126/70‑1 (MQ=255)
ggcggcggTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTgg < 1:1910400/71‑1 (MQ=255)
gcggTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAttt < 1:204286/71‑1 (MQ=255)
gcggTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGAttt < 1:701851/71‑1 (MQ=255)
cggTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAttt < 1:2710792/70‑1 (MQ=255)
ggTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGa > 1:1314363/1‑71 (MQ=255)
gTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGa < 1:1806869/70‑1 (MQ=255)
gTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGa < 1:1376925/70‑1 (MQ=255)
gTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGa < 1:2742050/70‑1 (MQ=255)
gCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCa > 1:3679510/1‑50 (MQ=255)
ttGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAttt < 1:3107562/58‑1 (MQ=255)
ttGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAttt < 1:1701710/58‑1 (MQ=255)
ttGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAttt < 1:884894/58‑1 (MQ=255)
ttGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAttt < 1:2360861/58‑1 (MQ=255)
ttGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAttt < 1:3586903/58‑1 (MQ=255)
ttGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAttt < 1:677945/58‑1 (MQ=255)
ttGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGa < 1:3141645/71‑1 (MQ=255)
ttGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGa < 1:2874805/71‑1 (MQ=255)
ttGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGa < 1:854633/71‑1 (MQ=255)
ttGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGa < 1:803635/71‑1 (MQ=255)
cTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACAGACGGcgtccg < 1:2048098/71‑1 (MQ=255)
tGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGa < 1:3495827/44‑1 (MQ=255)
cACGTTTAGCCGCTGCACGACTAGCACCATTGCTGGATTTGATATCCGGCAGATACAGACGGCgtccgtcc < 1:3006798/71‑1 (MQ=255)
cACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACAGACGGcgtccgtc > 1:558494/1‑70 (MQ=255)
cACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACAGACGGCgtccgtcc < 1:3642916/71‑1 (MQ=255)
cACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACAGACGGCgtccgtcc < 1:3321155/71‑1 (MQ=255)
cACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACAGACGGCgtccgtcc < 1:2637076/71‑1 (MQ=255)
|
GCAATCATCGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACAGACGGCGTCCGTCC > W3110S.gb/3587131‑3587262
|
| 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
