Locus 8617

Sequence ID 3R_DroMel_CAF1
Location 23,025,385 – 23,025,475
Length 90
Max. P 0.556049
window13849

overview

Window 9

Location 23,025,385 – 23,025,475
Length 90
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 79.99
Mean single sequence MFE -21.22
Consensus MFE -11.44
Energy contribution -11.60
Covariance contribution 0.17
Combinations/Pair 1.18
Mean z-score -1.93
Structure conservation index 0.54
SVM decision value 0.04
SVM RNA-class probability 0.556049
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23025385 90 - 27905053
C---UUCGAAGGACCAGCUAAUUA-----CACUCGGUUAGCUGGGC-UCAAGGUCAAUUUUUGCAUCACCAUCAGGAAACUGAUAAAACAACUUACCAG
.---......((.((((((((((.-----.....))))))))))((-..(((.....)))..))....))(((((....)))))............... ( -24.70)
>DroSec_CAF1 27650 95 - 1
C---UUCGAAAGACCAGCUAAUUACCAUACACUCGGUUAGCUGGGC-UCAAGGUCAAUUUUUGCAUCACCAUCUGGAAACUGAUAAAACAACUAACCAG
.---.((....))(((((((...(((........))))))))))..-....(((.............)))(((.(....).)))............... ( -19.62)
>DroSim_CAF1 16091 90 - 1
C---UCCGAAAGACCAGCUAAUUA-----CACUCGGUUAGCUGGGC-UCAAGGUCAAUUUUUGCAUCACCAUCUGGAAACUGAUAAAACAACUAACCAG
.---.((...((.((((((((((.-----.....)))))))))).)-)...)).................(((.(....).)))............... ( -19.50)
>DroEre_CAF1 31346 89 - 1
C---CACGAAAGUCCAGCUAAUUA-----CACUCAGAUAGCUGGGC-UCAAGGUCAAUUCUUGCAUCACCAUCUGGACACUGAUAAA-AAAUUAACCAG
.---......((((((((((.((.-----.....)).)))))))))-)...(((.((((.((..((((((....))....)))).))-.)))).))).. ( -20.80)
>DroYak_CAF1 32099 84 - 1
C---UUCGAAAGAUCAGCUAAUUA-----CACUCGGUUAGCUG------AAGGUCAAGUUUUGCCUCACCAUCUGGAUACUGAUAAA-CAACUGACCAG
.---.((....))((((((((((.-----.....)))))))))------).(((((.(((.....(((((....))....)))....-.)))))))).. ( -23.30)
>DroPer_CAF1 29819 91 - 1
ACUAUUCGCA---AUGGCUAAUUA-----CAUUUGGUUAACUUUGCUUCAAGGUCAAGGUUCCCAUCACCAUCUGGAUUCUGAUAAAGGUAGUGGGCAG
..........---.(((((((...-----...)))))))((((((((....)).)))))).(((((.((((((........)))...))).)))))... ( -19.40)
>consensus
C___UUCGAAAGACCAGCUAAUUA_____CACUCGGUUAGCUGGGC_UCAAGGUCAAUUUUUGCAUCACCAUCUGGAAACUGAUAAAACAACUAACCAG
.............((((((((((...........)))))))))).......(((.............)))(((.(....).)))............... (-11.44 = -11.60 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:15:37 2006