Locus 7792

Sequence ID	X_DroMel_CAF1
Location	19,412,226 – 19,412,377
Length	151
Max. P	0.995651

overview

Window 4

Location	19,412,226 – 19,412,324
Length	98
Sequences	3
Columns	102
Reading direction	reverse
Mean pairwise identity	89.14
Mean single sequence MFE	-37.50
Consensus MFE	-29.34
Energy contribution	-29.23
Covariance contribution	-0.10
Combinations/Pair	1.14
Mean z-score	-3.14
Structure conservation index	0.78
SVM decision value	1.06
SVM RNA-class probability	0.908566
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19412226 98 - 22224390
AGACGCCCGCAAAACGCCUCCGCAUGCACAGACAUGCAUACUCCAAUGUAUGCAU--GUG--UGUGUGUGUAUUUGGAUUCGCAACGGCGAUAAAUGCACCC
........(((.....((...(((((((((.((((((((((......))))))))--)).--)))))))))....))..((((....))))....))).... ( -38.90)
>DroSec_CAF1 12065 100 - 1
AGACGCCCGCAAAACGCCUCCGCAUGCACAGACAUGCACACUCCGAUGUAUGCGUCUGUG--UGUGUGUGUAUGUGGAUUCGCAACGGCGAUAAAUGCACCC
........(((.......((((((((((((.(((((((......((((....))))))))--))).)))))))))))).((((....))))....))).... ( -38.00)
>DroYak_CAF1 12148 102 - 1
AGACGCCCGCAAAACGCCUCCGCAUGCACACACAUGCACACUCCGAUAUAUAUGUGUGUGUGUGUAUGAGUGUGUGGAUUCGCAACGGCGACAAAUGCACCC
........(((.......(((((((((.(((((((((((((............))))))))))))..).))))))))).((((....))))....))).... ( -35.60)
>consensus
AGACGCCCGCAAAACGCCUCCGCAUGCACAGACAUGCACACUCCGAUGUAUGCGU_UGUG__UGUGUGUGUAUGUGGAUUCGCAACGGCGAUAAAUGCACCC
........(((.......((((((((((((.(((..((((.....(((....))).))))..))).)))))))))))).((((....))))....))).... (-29.34 = -29.23 +  -0.10)

alignment

secondary structure

dotplot

Window 5

Location	19,412,255 – 19,412,364
Length	109
Sequences	3
Columns	113
Reading direction	reverse
Mean pairwise identity	90.21
Mean single sequence MFE	-48.49
Consensus MFE	-35.04
Energy contribution	-34.94
Covariance contribution	-0.10
Combinations/Pair	1.12
Mean z-score	-3.95
Structure conservation index	0.72
SVM decision value	0.84
SVM RNA-class probability	0.863027
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19412255 109 - 22224390
CGGGGGCCAAAAUCCGCGUCUUUAGCCGGCGGAUAUCCGCAGACGCCCGCAAAACGCCUCCGCAUGCACAGACAUGCAUACUCCAAUGUAUGCAU--GUG--UGUGUGUGUAU
.((((((........((((((.......((((....)))))))))).........))))))(((((((((.((((((((((......))))))))--)).--))))))))).. ( -54.74)
>DroSec_CAF1 12094 111 - 1
CGGGGGCCAAAAUCCGCGUCUUUAGCCGGCGAAUAUCCGCAGACGCCCGCAAAACGCCUCCGCAUGCACAGACAUGCACACUCCGAUGUAUGCGUCUGUG--UGUGUGUGUAU
.((((((........((((((.......(((......))))))))).........))))))((((((((((((..(((.((......)).))))))))))--)))))...... ( -42.94)
>DroYak_CAF1 12177 113 - 1
CGGGGGCCAAAAUUCGCGUCUUUAGCCGGCGGAUAUCCGCAGACGCCCGCAAAACGCCUCCGCAUGCACACACAUGCACACUCCGAUAUAUAUGUGUGUGUGUGUAUGAGUGU
(((((((........((((((.......((((....)))))))))).........)))))))((((((((((((((((..............))))))))))))))))..... ( -47.78)
>consensus
CGGGGGCCAAAAUCCGCGUCUUUAGCCGGCGGAUAUCCGCAGACGCCCGCAAAACGCCUCCGCAUGCACAGACAUGCACACUCCGAUGUAUGCGU_UGUG__UGUGUGUGUAU
(((((((........((((((.......((((....)))))))))).........))))))).(((((((.(((..((((.....(((....))).))))..))).))))))) (-35.04 = -34.94 +  -0.10)

alignment

secondary structure

dotplot

Window 6

Location	19,412,284 – 19,412,377
Length	93
Sequences	4
Columns	93
Reading direction	reverse
Mean pairwise identity	91.58
Mean single sequence MFE	-37.54
Consensus MFE	-35.87
Energy contribution	-36.74
Covariance contribution	0.87
Combinations/Pair	1.04
Mean z-score	-2.57
Structure conservation index	0.96
SVM decision value	2.60
SVM RNA-class probability	0.995651
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19412284 93 - 22224390
GCCGGAGCUCCGACGGGGGCCAAAAUCCGCGUCUUUAGCCGGCGGAUAUCCGCAGACGCCCGCAAAACGCCUCCGCAUGCACAGACAUGCAUA
..(((....)))..((((((........((((((.......((((....)))))))))).........))))))(((((......)))))... ( -35.04)
>DroSec_CAF1 12125 93 - 1
GCCGGAGCUCCGGCGGGGGCCAAAAUCCGCGUCUUUAGCCGGCGAAUAUCCGCAGACGCCCGCAAAACGCCUCCGCAUGCACAGACAUGCACA
(((((....)))))((((((........((((((.......(((......))))))))).........))))))(((((......)))))... ( -38.34)
>DroEre_CAF1 12019 84 - 1
GCCGGAGCUCCAGCGGAGGCCAAAAUCCGCGUCUUUAGCCGGCGGAUAUCCGCAGACGCCCGCAAAACGCCUCCGCAU---------UGCACA
((.((....)).((((((((........((((((.......((((....)))))))))).........))))))))..---------.))... ( -34.74)
>DroYak_CAF1 12210 93 - 1
GCCGGAGCUCCGGCGGGGGCCAAAAUUCGCGUCUUUAGCCGGCGGAUAUCCGCAGACGCCCGCAAAACGCCUCCGCAUGCACACACAUGCACA
(((((....)))))((((((........((((((.......((((....)))))))))).........))))))(((((......)))))... ( -42.04)
>consensus
GCCGGAGCUCCGGCGGGGGCCAAAAUCCGCGUCUUUAGCCGGCGGAUAUCCGCAGACGCCCGCAAAACGCCUCCGCAUGCACAGACAUGCACA
(((((....)))))((((((........((((((.......((((....)))))))))).........))))))(((((......)))))... (-35.87 = -36.74 +   0.87)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:40 2006