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 |
1,827,932 |
C→T |
34.1% |
A392V (GCG→GTG) |
mutS → |
methyl‑directed mismatch repair protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,827,932 | 0 | C | T | 34.1%
| 55.0
/ 34.0
| 44 | A392V (GCG→GTG) | mutS | methyl‑directed mismatch repair protein |
| Reads supporting (aligned to +/- strand): ref base C (7/22); new base T (6/9); total (13/31) |
| Fisher's exact test for biased strand distribution p-value = 3.13e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGCCACGCTTTCCAGCAACTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAATCATCGACACAC > minE/1827862‑1828000
|
cgcCACGCTTTCCAGCAACTGCCGGAGCTGCGTGCGCAG‑TAGAAACTGTCGATAGTGCACCGGTACAGgc > 1:973004/1‑70 (MQ=255)
ccACGCTTTCCAGCAACTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGgcgc < 1:1243710/71‑1 (MQ=255)
tCCAGCAACTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGTGCTACGt > 1:1182078/1‑68 (MQ=255)
aCTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGagaa < 1:2018227/66‑1 (MQ=255)
gCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGc > 1:468670/1‑70 (MQ=255)
gCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGc > 1:236606/1‑70 (MQ=255)
gCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGc > 1:1564642/1‑70 (MQ=255)
aGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGttt < 1:65188/71‑1 (MQ=255)
gCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGtt < 1:1890282/69‑1 (MQ=255)
gtgcgCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAg < 1:1895208/71‑1 (MQ=255)
tgcgCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGagaa < 1:982244/51‑1 (MQ=255)
tgcgCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGagaa < 1:405504/51‑1 (MQ=255)
tgcgCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGagaa < 1:2023933/51‑1 (MQ=255)
tgcgCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGagaa < 1:1874658/51‑1 (MQ=255)
tgcgCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAg < 1:1216474/70‑1 (MQ=255)
ttAGAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGc < 1:762782/51‑1 (MQ=255)
ttAGAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGc < 1:208997/51‑1 (MQ=255)
ttAGAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGa < 1:903191/71‑1 (MQ=255)
ttAGAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGa < 1:1844260/71‑1 (MQ=255)
ttAGAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGa < 1:899334/71‑1 (MQ=255)
tAGAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGa < 1:1281861/70‑1 (MQ=255)
aGAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGcc > 1:1572571/1‑58 (MQ=255)
aGAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATc > 1:567845/1‑71 (MQ=255)
aGAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATc > 1:1285113/1‑71 (MQ=255)
aaaCTGTCGATAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGttt < 1:605073/53‑1 (MQ=255)
aaaCTGTCGATAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGttt < 1:1981482/53‑1 (MQ=255)
aaaCTGTCGATAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGttt < 1:1984084/53‑1 (MQ=255)
aaaCTGTCGATAGTGCACCGGTACAGGCGATACGTGAGAAGATGGGCGAGttt < 1:1883308/53‑1 (MQ=255)
gTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGa < 1:1500058/44‑1 (MQ=255)
aTAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGcgcg < 1:1499537/57‑1 (MQ=255)
aTAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGgagcga < 1:1921347/71‑1 (MQ=255)
tAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGgagcgag < 1:2111588/71‑1 (MQ=255)
tAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGgagcgag < 1:527631/71‑1 (MQ=255)
aGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGgagcgag > 1:19658/1‑70 (MQ=255)
tGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCaa < 1:1184355/71‑1 (MQ=255)
cACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAatc < 1:104347/71‑1 (MQ=255)
cACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAat < 1:1413474/70‑1 (MQ=255)
cACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAat < 1:1470820/70‑1 (MQ=255)
cGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAatcat > 1:939503/1‑70 (MQ=255)
gTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAATCATCGa < 1:1394823/71‑1 (MQ=255)
tACAGGCGCTACGTGAGAAGTTGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAATCATCGac < 1:1814259/71‑1 (MQ=255)
tACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAATCATCGa > 1:1414088/1‑70 (MQ=255)
aGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAat > 1:1233684/1‑61 (MQ=255)
aGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAat > 1:878204/1‑61 (MQ=255)
ggCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAatcatc < 1:380357/64‑1 (MQ=255)
ggCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAATCATCGacacac > 1:1996649/1‑71 (MQ=255)
gcgcTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAATCATCGaca > 1:1218949/1‑67 (MQ=255)
|
CGCCACGCTTTCCAGCAACTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAATCATCGACACAC > minE/1827862‑1828000
|
| 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
