Locus 8378

Sequence ID	X_DroMel_CAF1
Location	20,808,067 – 20,808,187
Length	120
Max. P	0.906414

overview

Window 9

Location	20,808,067 – 20,808,187
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	99.17
Mean single sequence MFE	-31.23
Consensus MFE	-31.20
Energy contribution	-31.20
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.36
Structure conservation index	1.00
SVM decision value	1.00
SVM RNA-class probability	0.898437
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20808067 120 + 22224390
GAAAGGUCCGCUUAAGAGCGUAAAAUGCAUGGAGUUUAUAUAAAGUUUAUUGUAACACAAAAACGUAGAACUUUUUGAUGUUUUAUUAAUUAACUUUUUGCAUUCUACCGGAGGGGCGGA
......(((((((....(.(((.((((((..(((((.((.....((((.(((.....)))))))(((((((........)))))))..)).)))))..)))))).))))....))))))) ( -31.20)
>DroSim_CAF1 3785 120 + 1
GAAAGGUCCGCUUAAGAGCGUAAAAUGCAUGGAGUUUAUAUAAAGUUUAUUGUAACACAAAAACGUAGAACUUUUUGAUGUUUUAUUAAUUAACUUUUUGCAUUCUACCGGCGGGGCGGA
......(((((((....(((((.((((((..(((((.((.....((((.(((.....)))))))(((((((........)))))))..)).)))))..)))))).)))..)).))))))) ( -31.30)
>DroEre_CAF1 173 120 + 1
GAAAGGUCCGCUUAAGAGCGUAAAAUGCAUGGAGUUUAUAUAAAGUUUAUUGUAACACAAAAACGUAGAACUUUUUGAUGUUUUAUUAAUUAACUUUUUGCAUUCUACCGGAGGGGCGGA
......(((((((....(.(((.((((((..(((((.((.....((((.(((.....)))))))(((((((........)))))))..)).)))))..)))))).))))....))))))) ( -31.20)
>DroYak_CAF1 4298 120 + 1
GGAAGGUCCGCUUAAGAGCGUAAAAUGCAUGGAGUUUAUAUAAAGUUUAUUGUAACACAAAAACGUAGAACUUUUUGAUGUUUUAUUAAUUAACUUUUUGCAUUCUACCGGAGGGGCGGA
......(((((((....(.(((.((((((..(((((.((.....((((.(((.....)))))))(((((((........)))))))..)).)))))..)))))).))))....))))))) ( -31.20)
>consensus
GAAAGGUCCGCUUAAGAGCGUAAAAUGCAUGGAGUUUAUAUAAAGUUUAUUGUAACACAAAAACGUAGAACUUUUUGAUGUUUUAUUAAUUAACUUUUUGCAUUCUACCGGAGGGGCGGA
......(((((((....(.(((.((((((..(((((.((.....((((.(((.....)))))))(((((((........)))))))..)).)))))..)))))).))))....))))))) (-31.20 = -31.20 +  -0.00)

alignment

secondary structure

dotplot

Window 0

Location	20,808,067 – 20,808,187
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	99.17
Mean single sequence MFE	-23.00
Consensus MFE	-23.00
Energy contribution	-23.00
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.40
Structure conservation index	1.00
SVM decision value	1.05
SVM RNA-class probability	0.906414
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20808067 120 - 22224390
UCCGCCCCUCCGGUAGAAUGCAAAAAGUUAAUUAAUAAAACAUCAAAAAGUUCUACGUUUUUGUGUUACAAUAAACUUUAUAUAAACUCCAUGCAUUUUACGCUCUUAAGCGGACCUUUC
(((((......(((((((((((...((((.........((((.((((((........))))))))))...(((.....)))...))))...)))))))))).)......)))))...... ( -23.00)
>DroSim_CAF1 3785 120 - 1
UCCGCCCCGCCGGUAGAAUGCAAAAAGUUAAUUAAUAAAACAUCAAAAAGUUCUACGUUUUUGUGUUACAAUAAACUUUAUAUAAACUCCAUGCAUUUUACGCUCUUAAGCGGACCUUUC
(((((......(((((((((((...((((.........((((.((((((........))))))))))...(((.....)))...))))...)))))))))).)......)))))...... ( -23.00)
>DroEre_CAF1 173 120 - 1
UCCGCCCCUCCGGUAGAAUGCAAAAAGUUAAUUAAUAAAACAUCAAAAAGUUCUACGUUUUUGUGUUACAAUAAACUUUAUAUAAACUCCAUGCAUUUUACGCUCUUAAGCGGACCUUUC
(((((......(((((((((((...((((.........((((.((((((........))))))))))...(((.....)))...))))...)))))))))).)......)))))...... ( -23.00)
>DroYak_CAF1 4298 120 - 1
UCCGCCCCUCCGGUAGAAUGCAAAAAGUUAAUUAAUAAAACAUCAAAAAGUUCUACGUUUUUGUGUUACAAUAAACUUUAUAUAAACUCCAUGCAUUUUACGCUCUUAAGCGGACCUUCC
(((((......(((((((((((...((((.........((((.((((((........))))))))))...(((.....)))...))))...)))))))))).)......)))))...... ( -23.00)
>consensus
UCCGCCCCUCCGGUAGAAUGCAAAAAGUUAAUUAAUAAAACAUCAAAAAGUUCUACGUUUUUGUGUUACAAUAAACUUUAUAUAAACUCCAUGCAUUUUACGCUCUUAAGCGGACCUUUC
(((((......(((((((((((...((((.........((((.((((((........))))))))))...(((.....)))...))))...)))))))))).)......)))))...... (-23.00 = -23.00 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:29 2006