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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
863,501 |
C→T |
60.4% |
S150S (AGC→AGT) |
yciO → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 863,501 | 0 | C | T | 60.4%
| 17.4
/ 30.9
| 48 | S150S (AGC→AGT) | yciO | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (14/5); new base T (7/22); total (21/27) |
| Fisher's exact test for biased strand distribution p-value = 1.06e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.97e-01 |
CGTTACTTGAAGCATTGGGCGAACCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGCGAATTTACCGAATCGGACCCGGAAGAAATTAAAGATCGTCTGGAAAAACAGGTAGATTTGATTA > minE/863443‑863565
|
cGTTACTTGAAGCATTGGGCGAACCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGCGAATTTACCg > 1:2100985/1‑69 (MQ=255)
tGAAGCATTGGGCGAACCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGCGAATTTACCGAATCGGa < 1:1712829/69‑1 (MQ=255)
gggCGAACCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGATCCGgaaga > 1:2975685/1‑69 (MQ=255)
gggCGAACCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGATCCGgaaga > 1:2289408/1‑69 (MQ=255)
gggCGAACCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGATCCGgaaga > 1:1858419/1‑69 (MQ=255)
gggCGAACCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGATCCGgaaga > 1:2642613/1‑69 (MQ=255)
gggCGAACCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGATCCGgaaga > 1:2792729/1‑69 (MQ=255)
gggCGAACCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGATCCGgaaga > 1:1451939/1‑69 (MQ=255)
gggCGAACCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGATCCGgaag > 1:1522780/1‑68 (MQ=255)
cGAACCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGCGAATTTACCGAATCGGACCCGGAAGAAAt < 1:2108472/69‑1 (MQ=255)
cGAACCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGCGAATTTACCGAATCGGACCCGGAAGAAAt < 1:1437190/69‑1 (MQ=255)
cGAACCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGCGAATTTACCGAATCGGACCCGGAAGAAAt < 1:1836805/69‑1 (MQ=255)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGTATCCGa < 1:435361/54‑1 (MQ=38)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:116368/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:466335/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:761902/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:742072/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:2377969/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:2526451/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:549036/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:2743101/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:2865530/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:787887/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:3285009/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:1519599/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:1164029/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:120289/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:1256091/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:1389228/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:1496978/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:175715/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:1768986/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:1895606/54‑1 (MQ=39)
aCCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGTGAATTTACCGAATCCGa < 1:1760269/54‑1 (MQ=39)
cGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGCGAATTTACCGAATCGGACCCGGAAGAAATTAAAg < 1:357499/69‑1 (MQ=255)
tCGCTAATGCTGCCAGGCAGCGAATTTACCGAATCGGACCCGGAAGAAATTAAAGATCGTCTGGaaa > 1:3095644/1‑67 (MQ=255)
tCGCTAATGCTGCCAGGCAGCGAATTTACCGAATCGGACCCGGAAGAAATTAAAGATCGTCTGGaaa > 1:3191097/1‑67 (MQ=255)
tCGCTAATGCTGCCAGGCAGCGAATTTACCGAATCGGACCCGGAAGAAATTAAAGATCGTCTGGaaa > 1:1963385/1‑67 (MQ=255)
tCGCTAATGCTGCCAGGCAGCGAATTTACCGAATCGGACCCGGAAGAAATTAAAGATCGTCTGGaaa > 1:1508529/1‑67 (MQ=255)
tCGCTAATGCTGCCAGGCAGCGAATTTACCGAATCGGACCCGGAAGAAATTAAAGATCGTCTGGaaa > 1:509249/1‑67 (MQ=255)
tCGCTAATGCTGCCAGGCAGCGAATTTACCGAATCGGACCCGGAAGAAATTAAAGATCGTCTGGaaa > 1:1769075/1‑67 (MQ=255)
tCGCTAATGCTGCCAGGCAGCGAATTTACCGAATCGGACCCGGAAGAAATTAAAGATCGTCTGGaaa > 1:1784119/1‑67 (MQ=255)
tCGCTAATGCTGCCAGGCAGCGAATTTACCGAATCGGACCCGGAAGAAATTAAAGATCGTCTGGaaa > 1:1826067/1‑67 (MQ=255)
ctgcCAGGCAGCGAATTTACCGAATCGGACCCGGAAGAAATTAAAGATCGTCTGGAAAAACAGGTAGa > 1:1766796/1‑68 (MQ=255)
ctgcCAGGCAGCGAATTTACCGAATCGGACCCGGAAGAAATTAAAGATCGTCTGGAAAAACAGGTAGAt > 1:622808/1‑69 (MQ=255)
ctgcCAGGCAGCGAATTTACCGAATCGGACCCGGAAGAAATTAAAGATCGTCTGGAAAAACAGGTAGAt > 1:297511/1‑69 (MQ=255)
gCAGCGAATTTACCGAATCGGACCCGGAAGAAATTAAAGATCGTCTGGAAAAACAGGTAGATTTGatta > 1:574778/1‑69 (MQ=255)
gCAGCGAATTTACCGAATCGGACCCGGAAGAAATTAAAGATCGTCTGGAAAAACAGGTAGATTTGatt > 1:684366/1‑68 (MQ=255)
|
CGTTACTTGAAGCATTGGGCGAACCGATGCTTTCCACTTCGCTAATGCTGCCAGGCAGCGAATTTACCGAATCGGACCCGGAAGAAATTAAAGATCGTCTGGAAAAACAGGTAGATTTGATTA > minE/863443‑863565
|
| 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
