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 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
RA |
W3110S.gb |
3,587,198 |
C→T |
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 | 95.8%
| 67.3
/ ‑3.6
| 24 | 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 (1/0); new base T (11/12); total (12/12) |
Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01 |
CGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACAGACGGCGTCCG > W3110S.gb/3587139‑3587259
|
cGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCac > 1:1087466/1‑71 (MQ=255)
cGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCac > 1:1743911/1‑71 (MQ=255)
ccGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCacgac > 1:824245/1‑71 (MQ=255)
ccGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCacgac > 1:3775124/1‑71 (MQ=255)
ccGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCacgac > 1:1886529/1‑71 (MQ=255)
ccGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCacga > 1:865131/1‑70 (MQ=255)
ccGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCacga > 1:4025966/1‑70 (MQ=255)
ccGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCacga > 1:3039663/1‑70 (MQ=255)
aaTGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCacgac > 1:174103/1‑62 (MQ=255)
aaTGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCacgac > 1:3510950/1‑62 (MQ=255)
tCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCt > 1:644331/1‑71 (MQ=255)
gTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAt < 1:22494/66‑1 (MQ=255)
gTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAt < 1:3841912/66‑1 (MQ=255)
gTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAt < 1:1343189/66‑1 (MQ=255)
gTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAt < 1:350048/66‑1 (MQ=255)
gTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAt < 1:3405371/66‑1 (MQ=255)
gTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAt < 1:3054044/66‑1 (MQ=255)
gTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAt < 1:2868489/66‑1 (MQ=255)
gTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAt < 1:2518940/66‑1 (MQ=255)
gTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAt < 1:2344411/66‑1 (MQ=255)
gTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGat < 1:617390/71‑1 (MQ=255)
ttCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGata < 1:89034/71‑1 (MQ=255)
tGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACAGACGGcgtccg > 1:1116835/1‑70 (MQ=255)
cGTTTAGCCGCTGCACGACGAGCACCATT‑CTGGAt < 1:2467269/35‑1 (MQ=25)
|
CGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACAGACGGCGTCCG > W3110S.gb/3587139‑3587259
|
Alignment Legend |
---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A