Locus 9566

Sequence ID 3R_DroMel_CAF1
Location 25,266,178 – 25,266,280
Length 102
Max. P 0.777727
window15296

overview

Window 6

Location 25,266,178 – 25,266,280
Length 102
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 74.57
Mean single sequence MFE -30.75
Consensus MFE -15.17
Energy contribution -15.67
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.88
Structure conservation index 0.49
SVM decision value 0.55
SVM RNA-class probability 0.777727
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25266178 102 - 27905053
UGUC-------------GGCUUAAGACAGGCGAACAA-----GCCAGAAAGCCCUGAUUAAUUGGCGCUAUUUAUAAUUAAAUUGCGUCCUAAGCUGUAAUCACAGUUCUCAGUCGUCGC
.(.(-------------((((.......(((......-----))).((.(((..((((((.(((((((.(((((....))))).))).)).))....))))))..))).))))))).).. ( -27.50)
>DroPse_CAF1 126549 119 - 1
UGUUUGAGCAUUAGAAUGGCUUC-GGCCUGGGAUUGGGCUUGGGCAGAAAGGUCUGAUUAAUUGGCGCUAUUUAUAAUUAAAUUGCGUCUCAAGCUGUAAUCACUGUCCCGAGUCCGAGU
.................(((...-.))).....((((((((((((((...((..(((......(((((.(((((....))))).))))))))..)).......))).))))))))))).. ( -40.10)
>DroEre_CAF1 140422 102 - 1
UGUC-------------GGCUUAAGGCCGGCGAACAA-----GCCAGAAAGCCCUGAUUAAUUGGCGCUAUUUAUAAUUAAAUUGCGUCCUAAGCUGUAAUCACAGUUCUCAGUCGUCGC
....-------------(((.....)))(((((....-----((......)).((((......(((((.(((((....))))).)))))...((((((....)))))).))))))))).. ( -28.00)
>DroYak_CAF1 128017 102 - 1
UGUC-------------GGCUUAAGGCCGGCGAACAA-----GCCAGAAAGCCCUGAUUAAUUGGCGCUAUUUAUAAUUAAAUUGCGUCCUAAGCUGUAAUCACAGUUCUCAGUCGUCGC
....-------------(((.....)))(((((....-----((......)).((((......(((((.(((((....))))).)))))...((((((....)))))).))))))))).. ( -28.00)
>DroAna_CAF1 119607 85 - 1
UGCU-------------GGCUUACUGC--------AC-----GGCACAAAGCCCUGAUUAAUUGGCGCUAUUUAUAAUUAAAUUGCGUCCUAAGCUGUAAUCACUAUUCUU---------
(((.-------------((((((...(--------(.-----(((.....))).)).......(((((.(((((....))))).))))).)))))))))............--------- ( -20.80)
>DroPer_CAF1 127560 119 - 1
UGUUUGAGCAUUAGAAUGGCUUC-GGCCUGGGAUUGGGCUUGGGCAGAAAGGUCUGAUUAAUUGGCGCUAUUUAUAAUUAAAUUGCGUCUCAAGCUGUAAUCACUGUCCCGAGUCCGAGU
.................(((...-.))).....((((((((((((((...((..(((......(((((.(((((....))))).))))))))..)).......))).))))))))))).. ( -40.10)
>consensus
UGUC_____________GGCUUAAGGCCGGCGAACAA_____GCCAGAAAGCCCUGAUUAAUUGGCGCUAUUUAUAAUUAAAUUGCGUCCUAAGCUGUAAUCACAGUUCUCAGUCGUCGC
.................((((((.....................(((......))).......(((((.(((((....))))).))))).))))))........................ (-15.17 = -15.67 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:37:16 2006