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 |
|
A2 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,475,665 |
A→T |
20.7% |
T244S (ACC→TCC) |
nrdB → |
ribonucleoside diphosphate reductase 1, beta subunit, ferritin‑like |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,475,665 | 0 | A | T | 20.7%
| 46.7
/ 7.3
| 24 | T244S (ACC→TCC) | nrdB | ribonucleoside diphosphate reductase 1, beta subunit, ferritin‑like |
| Reads supporting (aligned to +/- strand): ref base A (10/9); new base T (2/3); 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 = 9.99e-01 |
AGAACGCGAATTGATGGAAGGCAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGATGGCGGAAATT > minE/1475595‑1475730
|
aGAACGCGAATTGATGGAAGGCAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGa > 1:227064/1‑71 (MQ=255)
gATGGAAGGCAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAg > 1:1376360/1‑70 (MQ=255)
aTGGAAGGCAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCa < 1:1460842/71‑1 (MQ=255)
tGGAAGGCAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCat < 1:46787/71‑1 (MQ=255)
gAAGGCAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCata < 1:37548/70‑1 (MQ=255)
aaGGCAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGTCCGGCACCCAGCATATg < 1:253029/71‑1 (MQ=255)
ggCAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGTCCGGCACCCAGCATATGc < 1:1811072/70‑1 (MQ=255)
aCGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCt > 1:1743559/1‑67 (MQ=255)
attattCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGTCCGGCACCCAGCATATGCTGAATCtgctgct > 1:1987174/1‑70 (MQ=255)
ttattCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCAc > 1:559007/1‑46 (MQ=255)
ttattCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTgcg > 1:198807/1‑70 (MQ=255)
tattCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTgcg > 1:1199465/1‑69 (MQ=255)
attCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCAccc > 1:416072/1‑46 (MQ=255)
ttCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAg < 1:570890/70‑1 (MQ=255)
ttCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAg < 1:896178/70‑1 (MQ=255)
ttGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATctg < 1:1732539/53‑1 (MQ=255)
ttGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATctg < 1:906883/53‑1 (MQ=255)
cccGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACg < 1:114863/69‑1 (MQ=255)
cgaAGCCCTGCACCTGTCCGGCACCCAGCATATGc < 1:936692/35‑1 (MQ=255)
gaAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGAt > 1:1534977/1‑71 (MQ=255)
gaAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGAt > 1:742168/1‑71 (MQ=255)
gCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGATGGCGGaaa > 1:52975/1‑71 (MQ=255)
aCCTGTCCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGATGGCGGAAAtt > 1:1222518/1‑71 (MQ=255)
ccTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGATGGCGGaa < 1:358460/67‑1 (MQ=255)
gACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTgaga > 1:2162547/1‑56 (MQ=255)
|
AGAACGCGAATTGATGGAAGGCAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGATGGCGGAAATT > minE/1475595‑1475730
|
| 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
