Locus 10002

Sequence ID 3R_DroMel_CAF1
Location 26,778,179 – 26,778,287
Length 108
Max. P 0.770568
window15944

overview

Window 4

Location 26,778,179 – 26,778,287
Length 108
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 82.43
Mean single sequence MFE -23.50
Consensus MFE -9.54
Energy contribution -11.22
Covariance contribution 1.68
Combinations/Pair 1.11
Mean z-score -2.75
Structure conservation index 0.41
SVM decision value 0.53
SVM RNA-class probability 0.770568
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26778179 108 - 27905053
CGGAAAGAAUCGUACAAAUAGCCGUGUAAAUGAUUCCUCC-CCCACAA-----CAUCAUAUCCUUUCAAAUUAUAACGUAUUGAAUCUCAAUGCGCAUCAUCCCCUGAUGCAAA
.(((..((((((((((........)))..))))))).)))-.......-----........................((((((.....))))))((((((.....))))))... ( -22.40)
>DroSec_CAF1 81544 108 - 1
CGGAAUGAUUCGUACAAAGAGCCGUGUAAAUGAUUCCUCC-CCCACAA-----CAUCAUAUCCUUUCAAAUUACAACGUAUUGAAUCUCAAUGCGCAGCAUCCCCUGAUGCAAA
.(((((.(((..(((........)))..))).)))))...-.......-----.......................(((((((.....)))))))..(((((....)))))... ( -24.30)
>DroSim_CAF1 85309 109 - 1
CGGAAUGAUUCGUACAAAGAGCCGUGUAAAUGAUUCCUCCCCCCACAA-----CAUCAUAUCCUUUCAAAUUACAACGUAUUGAAUCUCAAUGCGCAGCAUCCCCUGAUGCAAA
.(((((.(((..(((........)))..))).)))))...........-----.......................(((((((.....)))))))..(((((....)))))... ( -24.30)
>DroEre_CAF1 83083 113 - 1
CGGAAAGAGUCGUACAACGACUCAUGUAAAUGAGUCCUCCGCCCACAAAAUG-CACAAUAUCCUUUCAAAUUAUAACGUUGUGAAUCUCAAUGCGCAGCAUUCCCUGACGCAAA
......(((...(((((((((((((....)))))))....((.........)-).......................))))))...)))..(((((((......))).)))).. ( -27.90)
>DroYak_CAF1 84865 101 - 1
CGGA------------ACGACUCAUGUAAAUGAUUUCUCUCCCCAUAUACAGCCGCAAUAUCCUUGCAAAUUA-AACGUUUUGAAUCUCAAUGCACAGCAUCCCCUGAUGCAAA
((((------------(((.....((((.(((...........))).))))...((((.....))))......-..)))))))..............(((((....)))))... ( -18.60)
>consensus
CGGAAAGAUUCGUACAAAGAGCCGUGUAAAUGAUUCCUCC_CCCACAA_____CAUCAUAUCCUUUCAAAUUACAACGUAUUGAAUCUCAAUGCGCAGCAUCCCCUGAUGCAAA
.(((........((((........))))......))).......................................(((((((.....)))))))..(((((....)))))... ( -9.54 = -11.22 +   1.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:46:48 2006