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 |
1,565,671 |
G→T |
45.2% |
V125V (GTC→GTA) |
glk ← |
glucokinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,565,671 | 0 | G | T | 45.2%
| 26.8
/ 46.1
| 55 | V125V (GTC→GTA) | glk | glucokinase |
| Reads supporting (aligned to +/- strand): ref base G (23/7); new base T (13/12); total (36/19) |
| Fisher's exact test for biased strand distribution p-value = 8.72e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GACCAGATGCGCAACCCCAAGCCCCGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCTTTTTTCAGCATCGGGATCGCCATC > minE/1565611‑1565731
|
gACCAGATGCGCAACCCCAAGCCCCGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCGACCTGTTc > 1:518060/1‑69 (MQ=255)
gACCAGATGCGCAACCCCAAGCCCCGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCGACCGGtt > 1:2896575/1‑68 (MQ=255)
gACCAGATGCGCAACCCCAAGCCCCGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCGACCGGTTc > 1:328179/1‑69 (MQ=255)
gcgcAACCCCAAGCCCTGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCTAcc > 1:3195015/1‑56 (MQ=255)
gcgcAACCCCAAGCCCTGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCTAcc > 1:21665/1‑56 (MQ=255)
gcgcAACCCCAAGCCCTGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCTAcc > 1:2352263/1‑56 (MQ=255)
gcgcAACCCCAAGCCCTGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCTAcc > 1:2407332/1‑56 (MQ=255)
gcgcAACCCCAAGCCCTGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCTAcc > 1:196746/1‑56 (MQ=255)
gcgcAACCCCAAGCCCTGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCTAcc > 1:2463883/1‑56 (MQ=255)
gcgcAACCCCAAGCCCTGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCTAcc > 1:1796469/1‑56 (MQ=255)
gcgcAACCCCAAGCCCTGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCTAcc > 1:619540/1‑56 (MQ=255)
gcgcAACCCCAAGCCCTGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCTAcc > 1:292950/1‑56 (MQ=255)
gcgcAACCCCAAGCCCTGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCTAcc > 1:1382287/1‑56 (MQ=255)
gcgcAACCCCAAGCCCTGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCTAcc > 1:1271615/1‑56 (MQ=255)
gcgcAACCCCAAGCCCTGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCTAcc > 1:3271471/1‑56 (MQ=255)
gcgcAACCCCAAGCCCTGTTCCGGCACCGTAAACCGCAATAGGCTTAACTTCTAcc > 1:2905941/1‑56 (MQ=255)
cGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCATATg < 1:3059752/69‑1 (MQ=255)
cGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATg < 1:1621031/69‑1 (MQ=255)
cGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATg < 1:1504294/69‑1 (MQ=255)
cGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATg < 1:1866578/69‑1 (MQ=255)
cGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATg < 1:2345259/69‑1 (MQ=255)
cGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATg < 1:23268/69‑1 (MQ=255)
cGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCGACCGGTGCTGCGCCACCAAACTGAATCAGATg < 1:1263423/69‑1 (MQ=255)
gTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCGCCCGGTTCTGCGCCACCAAACTGAATCAGATGc > 1:2181488/1‑69 (MQ=255)
gTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGc > 1:2507147/1‑69 (MQ=255)
gTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGc > 1:2127235/1‑69 (MQ=255)
gTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGc > 1:1241503/1‑69 (MQ=255)
gTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGc > 1:1167929/1‑69 (MQ=255)
ccGGCACCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGcca > 1:2305095/1‑48 (MQ=255)
ccGGCACCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGctct > 1:145453/1‑69 (MQ=255)
ccGGCACCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGctct > 1:3017696/1‑69 (MQ=255)
aCCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCtttt > 1:1892998/1‑67 (MQ=255)
aCCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCtttt > 1:648223/1‑67 (MQ=255)
aCCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCtttt > 1:771282/1‑67 (MQ=255)
aCCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCttt > 1:369734/1‑66 (MQ=255)
aCCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCttt > 1:393124/1‑66 (MQ=255)
aTAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCTTTTTTCAGCATCGGGATc > 1:2339798/1‑69 (MQ=255)
aTAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCTTTTTTCAGCATCGGGATc > 1:1657158/1‑69 (MQ=255)
aTAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCTTTTTTCAGCATCGGGATc > 1:355376/1‑69 (MQ=255)
ggCTTACCTTCTACCGGTTCTGCGCCACCAAACTGAATCAGATTCTCTTTTTTCAGCATCGGGATCGcc < 1:1240620/69‑1 (MQ=255)
ggCTTACCTTCTACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCTTTTTTCAGCATCGGGATCGcc < 1:1096667/69‑1 (MQ=255)
ggCTTACCTTCTACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCTTTTTTCAGCATCGGGATCGcc < 1:55990/69‑1 (MQ=255)
ggCTTACCTTCTACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCTTTTTTCAGCATCGGGATCGcc < 1:3010712/69‑1 (MQ=255)
ggCTTACCTTCTACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCTTTTTTCAGCATCGGGATCGcc < 1:2954451/69‑1 (MQ=255)
ggCTTACCTTCTACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCTTTTTTCAGCATCGGGATCGcc < 1:2380365/69‑1 (MQ=255)
ggCTTACCTTCTACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCTTTTTTCAGCATCGGGATCGcc < 1:1977758/69‑1 (MQ=255)
ggCTTACCTTCTACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCTTTTTTCAGCATCGGGATCGcc < 1:1742523/69‑1 (MQ=255)
ggCTTACCTTCTACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCTTTTTTCAGCATCGGGATCGcc < 1:1681521/69‑1 (MQ=255)
ggCTTACCTTCTACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCTTTTTTCAGCATCGGGATCGcc < 1:1432048/69‑1 (MQ=255)
ggCTTACCTTCTACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCTTTTTTCAGCATCGGGATCGcc < 1:102836/69‑1 (MQ=255)
ggCTTACCTTCTACCGGTTCTGCGCCACCAAACAGAATCAGATGCTCTTTTTTCAGCATCGGGATCGcc < 1:3322835/69‑1 (MQ=255)
ttACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCTTTTTTCAGCATCGGGATCGCCAt > 1:1702603/1‑68 (MQ=255)
ttACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCTTTTTTCAGCATCGGGATCGCCATc > 1:3008437/1‑69 (MQ=255)
ttACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCTTTTTTCAGCATCGGGATCGCCATc > 1:532373/1‑69 (MQ=255)
ttACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCTTTTTTCAGCATCGGGATCGCCATc > 1:88690/1‑69 (MQ=255)
|
GACCAGATGCGCAACCCCAAGCCCCGTTCCGGCACCGTAAACCGCAATAGGCTTACCTTCGACCGGTTCTGCGCCACCAAACTGAATCAGATGCTCTTTTTTCAGCATCGGGATCGCCATC > minE/1565611‑1565731
|
| 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
