Locus 4217

Sequence ID 3L_DroMel_CAF1
Location 12,347,613 – 12,347,707
Length 94
Max. P 0.567424
window6535

overview

Window 5

Location 12,347,613 – 12,347,707
Length 94
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 73.99
Mean single sequence MFE -19.92
Consensus MFE -12.03
Energy contribution -12.87
Covariance contribution 0.83
Combinations/Pair 1.28
Mean z-score -1.29
Structure conservation index 0.60
SVM decision value 0.07
SVM RNA-class probability 0.567424
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12347613 94 - 23771897
-------ACAAUUGUAUUUACUAAUAA-------UAUACUAUAAUUUUCCAUAGCCACUUUGUUUAAGAACAACCUUUUCGCGGACUAUCGGCCGGAAAAGGGAGGCA
-------.....((((((.......))-------))))...............(((...(((((....)))))(((((((.(((.(.....)))))))))))..))). ( -21.20)
>DroSec_CAF1 32894 94 - 1
-------ACAAUUGCAUAGACUAAUAA-------CAUACUAUAUAUUUCCAUAGCCACUUUGUUUAAGAACAACCUUUUUGCGGACUAUCGCCCGGAAAAGGGAGGCA
-------....................-------...................(((...(((((....)))))(((((((.(((........))).))))))).))). ( -20.00)
>DroSim_CAF1 33618 101 - 1
-------ACAAUUGCAUAGACUAAUAACAUAUAACAUACUAUAUUUUUCCAUAGCCACUUUGUUUAAGAACAACCUUUUUGCGGACUAUCGCCCGGAAAAGGGAGGCA
-------..............................................(((...(((((....)))))(((((((.(((........))).))))))).))). ( -20.00)
>DroEre_CAF1 33001 94 - 1
-------ACACUUGUAUAGAGUAAUCA-------AAUAUUUUGUUUUCCCAUAGCUACUUUGUUUAAGAAUAACCUUUUUGCGGACUAUCGACCGGAAAAAGGAGGCA
-------...((((.((((((((....-------.....................)))))))).)))).....(((((((.(((........))).)))))))..... ( -19.61)
>DroWil_CAF1 60982 92 - 1
UUGUUCGACAUUUGGAUU--UUAAUCA-------AAUU----UAUGCCAAACAGCGACGCUGUUUCAAACAAAUCUCUUUGCCGACUAUCGCGAGGAGAAGG---GUG
(((((.((....(((...--.(((...-------...)----))..)))((((((...)))))))).))))).(((((((((........)))))))))...---... ( -21.70)
>DroYak_CAF1 33028 94 - 1
-------ACACUUGUAUAGACAAAUGA-------UAUAUUUUAUUAUUUUACAGCUACUUUGUUUAAGAAUAACCUCUUUGCGGACUAUCGCCCGGAAAAAGGAGGCA
-------.....((((.....((((((-------((.....))))))))))))(((.(((.....))).....(((.(((.(((........))).))).))).))). ( -17.00)
>consensus
_______ACAAUUGUAUAGACUAAUAA_______AAUACUAUAUUUUUCCAUAGCCACUUUGUUUAAGAACAACCUUUUUGCGGACUAUCGCCCGGAAAAGGGAGGCA
.....................................................(((...(((((....)))))(((((((.(((........))).))))))).))). (-12.03 = -12.87 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:04 2006