Locus 2626

Sequence ID	X_DroMel_CAF1
Location	7,006,966 – 7,007,101
Length	135
Max. P	0.984459

overview

Window 1

Location	7,006,966 – 7,007,082
Length	116
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	98.31
Mean single sequence MFE	-41.30
Consensus MFE	-36.85
Energy contribution	-36.85
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.14
Structure conservation index	0.89
SVM decision value	0.37
SVM RNA-class probability	0.707041
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7006966 116 - 22224390
GUGGUGGCGGUCGACUGGUCACACGGGCCAGUGGUGGGUUUGUUAUUCAUUUCGCAAACCACCCUUUCCGCCCC-CUG--CUGAAAUCGCCAGGAUAACC-CUGGAUACCUUACUUUCUU
((((.(((((...(((((((.....)))))))(((((.(((((.(......).))))))))))....))))).)-).)--)........(((((.....)-))))............... ( -41.20)
>DroSec_CAF1 8199 116 - 1
GUGGUGGCGGUCGACUGGUCACACGGGCCAGUGGUGGGUUUGUUAUUCAUUUCGCAAACCACCCUUUCCGCCCC-CUG--CUGAAAUCGCCAGGAUAACC-CUGGAUACCUUACUUUCUU
((((.(((((...(((((((.....)))))))(((((.(((((.(......).))))))))))....))))).)-).)--)........(((((.....)-))))............... ( -41.20)
>DroEre_CAF1 14062 116 - 1
GUGGUGGCGGUCGACUGGUCACACGGGCCAGUGGUGGGUUUGUUAUUCAUUUCGCAAACCACCCUUUCCGCCCC-CUG--CUGAAAUCGCCAGGAUAACC-CUGGAUACCUUACUUUCUU
((((.(((((...(((((((.....)))))))(((((.(((((.(......).))))))))))....))))).)-).)--)........(((((.....)-))))............... ( -41.20)
>DroYak_CAF1 22505 120 - 1
GUGGUGGCGGUCGACUGGUCACACGGGCCAGUGGUGGGUUUGUUAUUCAUUUCGCAAACCACCCUUUCCGCCCCUCUGCUCUGAAAUCGCCAGGAUAACCCCUGGAUACCUUACUUUCUU
(.((.(((((...(((((((.....)))))))(((((.(((((.(......).))))))))))....))))))).).............(((((......)))))............... ( -41.60)
>consensus
GUGGUGGCGGUCGACUGGUCACACGGGCCAGUGGUGGGUUUGUUAUUCAUUUCGCAAACCACCCUUUCCGCCCC_CUG__CUGAAAUCGCCAGGAUAACC_CUGGAUACCUUACUUUCUU
..((((((((...(((((((.....)))))))(((((.(((((.(......).))))))))))....))))).................((((........))))..))).......... (-36.85 = -36.85 +   0.00)

alignment

secondary structure

dotplot

Window 2

Location	7,007,005 – 7,007,101
Length	96
Sequences	3
Columns	96
Reading direction	forward
Mean pairwise identity	98.61
Mean single sequence MFE	-36.03
Consensus MFE	-36.03
Energy contribution	-36.03
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.70
Structure conservation index	1.00
SVM decision value	1.97
SVM RNA-class probability	0.984459
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7007005 96 + 22224390
CAGGGGGCGGAAAGGGUGGUUUGCGAAAUGAAUAACAAACCCACCACUGGCCCGUGUGACCAGUCGACCGCCACCACCCAAAAGGGACACCCAACC
..((((((((....(((((((((............)))).)))))((((((......).)))))...)))))....(((....)))...))).... ( -34.80)
>DroSec_CAF1 8238 96 + 1
CAGGGGGCGGAAAGGGUGGUUUGCGAAAUGAAUAACAAACCCACCACUGGCCCGUGUGACCAGUCGACCGCCACCACCCGAAAGGGACACCCACCC
..((((((((....(((((((((............)))).)))))((((((......).)))))...)))))....(((....)))...))).... ( -38.50)
>DroEre_CAF1 14101 96 + 1
CAGGGGGCGGAAAGGGUGGUUUGCGAAAUGAAUAACAAACCCACCACUGGCCCGUGUGACCAGUCGACCGCCACCACCCAAAAGGGACACCCACCC
..((((((((....(((((((((............)))).)))))((((((......).)))))...)))))....(((....)))...))).... ( -34.80)
>consensus
CAGGGGGCGGAAAGGGUGGUUUGCGAAAUGAAUAACAAACCCACCACUGGCCCGUGUGACCAGUCGACCGCCACCACCCAAAAGGGACACCCACCC
..((((((((....(((((((((............)))).)))))((((((......).)))))...)))))....(((....)))...))).... (-36.03 = -36.03 +   0.00)

alignment

secondary structure

dotplot

Window 3

Location	7,007,005 – 7,007,101
Length	96
Sequences	3
Columns	96
Reading direction	reverse
Mean pairwise identity	98.61
Mean single sequence MFE	-39.67
Consensus MFE	-38.23
Energy contribution	-38.57
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-1.69
Structure conservation index	0.96
SVM decision value	0.34
SVM RNA-class probability	0.697756
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7007005 96 - 22224390
GGUUGGGUGUCCCUUUUGGGUGGUGGCGGUCGACUGGUCACACGGGCCAGUGGUGGGUUUGUUAUUCAUUUCGCAAACCACCCUUUCCGCCCCCUG
....(((...(((....)))....(((((...(((((((.....)))))))(((((.(((((.(......).))))))))))....)))))))).. ( -37.70)
>DroSec_CAF1 8238 96 - 1
GGGUGGGUGUCCCUUUCGGGUGGUGGCGGUCGACUGGUCACACGGGCCAGUGGUGGGUUUGUUAUUCAUUUCGCAAACCACCCUUUCCGCCCCCUG
(((.(((((........(((((((.((((...(((((((.....)))))))(((((((.....)))))))))))..)))))))....)))))))). ( -40.30)
>DroEre_CAF1 14101 96 - 1
GGGUGGGUGUCCCUUUUGGGUGGUGGCGGUCGACUGGUCACACGGGCCAGUGGUGGGUUUGUUAUUCAUUUCGCAAACCACCCUUUCCGCCCCCUG
(((.(((((........(((((((.((((...(((((((.....)))))))(((((((.....)))))))))))..)))))))....)))))))). ( -41.00)
>consensus
GGGUGGGUGUCCCUUUUGGGUGGUGGCGGUCGACUGGUCACACGGGCCAGUGGUGGGUUUGUUAUUCAUUUCGCAAACCACCCUUUCCGCCCCCUG
(((.(((((........(((((((.((((...(((((((.....)))))))(((((((.....)))))))))))..)))))))....)))))))). (-38.23 = -38.57 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:32 2006