Locus 1026

Sequence ID	X_DroMel_CAF1
Location	2,994,520 – 2,994,617
Length	97
Max. P	0.999901

overview

Window 3

Location	2,994,520 – 2,994,617
Length	97
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	98.35
Mean single sequence MFE	-31.15
Consensus MFE	-31.20
Energy contribution	-31.24
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-2.80
Structure conservation index	1.00
SVM decision value	4.45
SVM RNA-class probability	0.999901
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2994520 97 + 22224390
CAUGUAUGGCGAUGCAUAACCAACAUGCCCAUGGUUAUGGAUCGUAAAGUGUGCACUUUAUGGUCGGAAUGGAUCAUCCACAUAAAGUUGCAACCAA
(((.....(((((.((((((((.........)))))))).)))))...)))(((((((((((...(((........))).))))))).))))..... ( -31.60)
>DroSec_CAF1 371569 97 + 1
CAUGUAUGGCGAUGCAUAACCAACAUGCCCAUGGUUAUGGGUCGUAAAGUGUGCACUUUAUGGUCGGAAUGGAUCAUCCACAUAAAGUUGCAACCAA
(((.....(((((.((((((((.........)))))))).)))))...)))(((((((((((...(((........))).))))))).))))..... ( -31.90)
>DroSim_CAF1 336799 97 + 1
CAUGUAUGGCGAUGCAUAACCAACGUGCCCAUGGUUAUGGGUCGUAAAGUGUGCACUUUAUGGUCGGAAUGGAUCAUCCACAUAAAGUUGCAACCAA
(((.....(((((.((((((((.........)))))))).)))))...)))(((((((((((...(((........))).))))))).))))..... ( -31.90)
>DroEre_CAF1 403200 97 + 1
CAUGUAUGGCGAUGCAUAACCAACAUGCCCAUGGUUAUGGGUCGUAAAGUGUGCACUUUAUGGUCGGAAUGGAUCAUCCACAUAACGCUGCAACCAA
..(((...(((((.((((((((.........)))))))).)))))..(((((.......((((((......)))))).......))))))))..... ( -28.44)
>DroYak_CAF1 384240 97 + 1
CAUGUAUGGCGAUGCAUAACCAACAUGCCCAUGGUUAUGGGUCGUAAAGUGUGCACUUUAUGGUCGGAAUGGAUCAUCCACAUAAAGUUGCAACCAA
(((.....(((((.((((((((.........)))))))).)))))...)))(((((((((((...(((........))).))))))).))))..... ( -31.90)
>consensus
CAUGUAUGGCGAUGCAUAACCAACAUGCCCAUGGUUAUGGGUCGUAAAGUGUGCACUUUAUGGUCGGAAUGGAUCAUCCACAUAAAGUUGCAACCAA
(((.....(((((.((((((((.........)))))))).)))))...)))(((((((((((...(((........))).))))))).))))..... (-31.20 = -31.24 +   0.04)

alignment

secondary structure

dotplot

Window 4

Location	2,994,520 – 2,994,617
Length	97
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	98.35
Mean single sequence MFE	-27.98
Consensus MFE	-27.10
Energy contribution	-27.14
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-2.25
Structure conservation index	0.97
SVM decision value	3.30
SVM RNA-class probability	0.998964
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2994520 97 - 22224390
UUGGUUGCAACUUUAUGUGGAUGAUCCAUUCCGACCAUAAAGUGCACACUUUACGAUCCAUAACCAUGGGCAUGUUGGUUAUGCAUCGCCAUACAUG
.((((((((.(((((((((((........))))..)))))))))))........(((.((((((((.........)))))))).)))))))...... ( -29.50)
>DroSec_CAF1 371569 97 - 1
UUGGUUGCAACUUUAUGUGGAUGAUCCAUUCCGACCAUAAAGUGCACACUUUACGACCCAUAACCAUGGGCAUGUUGGUUAUGCAUCGCCAUACAUG
.((((((((.(((((((((((........))))..)))))))))))........((..((((((((.........))))))))..))))))...... ( -27.90)
>DroSim_CAF1 336799 97 - 1
UUGGUUGCAACUUUAUGUGGAUGAUCCAUUCCGACCAUAAAGUGCACACUUUACGACCCAUAACCAUGGGCACGUUGGUUAUGCAUCGCCAUACAUG
.((((((((.(((((((((((........))))..)))))))))))........((..((((((((((....)).))))))))..))))))...... ( -29.00)
>DroEre_CAF1 403200 97 - 1
UUGGUUGCAGCGUUAUGUGGAUGAUCCAUUCCGACCAUAAAGUGCACACUUUACGACCCAUAACCAUGGGCAUGUUGGUUAUGCAUCGCCAUACAUG
.((((((((.......((((.....)))).(((((..((((((....)))))).(.(((((....))))))..)))))...))))..))))...... ( -25.60)
>DroYak_CAF1 384240 97 - 1
UUGGUUGCAACUUUAUGUGGAUGAUCCAUUCCGACCAUAAAGUGCACACUUUACGACCCAUAACCAUGGGCAUGUUGGUUAUGCAUCGCCAUACAUG
.((((((((.(((((((((((........))))..)))))))))))........((..((((((((.........))))))))..))))))...... ( -27.90)
>consensus
UUGGUUGCAACUUUAUGUGGAUGAUCCAUUCCGACCAUAAAGUGCACACUUUACGACCCAUAACCAUGGGCAUGUUGGUUAUGCAUCGCCAUACAUG
.(((((((.((((((((((((........))))..)))))))))))........((..((((((((.........))))))))..))))))...... (-27.10 = -27.14 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:35 2006