Locus 8001

Sequence ID 3R_DroMel_CAF1
Location 21,463,557 – 21,463,655
Length 98
Max. P 0.597859
window12878

overview

Window 8

Location 21,463,557 – 21,463,655
Length 98
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 82.03
Mean single sequence MFE -36.34
Consensus MFE -25.55
Energy contribution -26.55
Covariance contribution 1.00
Combinations/Pair 1.23
Mean z-score -1.52
Structure conservation index 0.70
SVM decision value 0.13
SVM RNA-class probability 0.597859
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21463557 98 + 27905053
UCGU-----UUUCGUUGAGGC-GACGAGCUGAGUCGCCGCUGUGGAGGAAAUUCAAUUGCGCGCAAUCCAUCGGCGGCGACGGUUGUGUCUCAAAAGAGCCUUC
..((-----(((..(((((((-.((((.(...((((((((((((((.(.....)..(((....))))))).))))))))))).))))))))))).))))).... ( -39.10)
>DroSec_CAF1 70314 98 + 1
UCGU-----UUUCGUUGAGGC-GACGAGCUGAGUCGCCGCUGUGGAGGAAAUUCAAUUGCGCGCAAUCCAUCGGCGGCGACGGUUGUGUCUCAACAGACCCUUC
....-----....((((((((-.((((.(...((((((((((((((.(.....)..(((....))))))).))))))))))).))))))))))))......... ( -40.30)
>DroSim_CAF1 55197 98 + 1
UCGU-----UUUCGUUGAGGC-GACGAGCUGAGUCGCCGCUGUGGAGGAAAUUCAAUUGCGCGCAAUCCAUCGGCGGCGACGGUUGUGUCUCAACAGACCCUUC
....-----....((((((((-.((((.(...((((((((((((((.(.....)..(((....))))))).))))))))))).))))))))))))......... ( -40.30)
>DroEre_CAF1 71474 97 + 1
CUGC-----GUUCGUUGAGCC-GACGAGCUGAGUCGCCGCUGUAAAGGAAAUUCAAUUGCGCGCAAUCCAUCGGCGGCGACGGUUGUGGCUCAAA-AACCGUUC
..((-----(....(((((((-.((((.(...((((((((((....(((.......(((....))))))..))))))))))).))))))))))).-...))).. ( -38.61)
>DroYak_CAF1 61976 97 + 1
UUGA-----GUUCGUUGAGGC-GAUGAGCUGAGUCGCCGCUGUGGAGGAAAUUCAAUUGCGCGCAAUCCAUCGGCGGCGACGGUUGUGGCUCAAA-AACCCUUC
.(.(-----((((((((...)-)))))))).)((((((((((((((.(.....)..(((....))))))).))))))))))((((..........-)))).... ( -36.20)
>DroMoj_CAF1 57523 100 + 1
UUGUUUCUCUGUGGCUGACGCUUACGAGCGACGUUGUCGCUGAAGAAGGAA-UCAAUUGCGCGCGCACCAUCAACGAGGACGGUUGUGAAAUAAG-AACUCU--
(((((((...(..((...((((....)))).((((.(((.(((.((.....-))...(((....)))...))).))).))))))..)))))))).-......-- ( -23.50)
>consensus
UCGU_____UUUCGUUGAGGC_GACGAGCUGAGUCGCCGCUGUGGAGGAAAUUCAAUUGCGCGCAAUCCAUCGGCGGCGACGGUUGUGUCUCAAA_AACCCUUC
..............(((((((..((((.(...((((((((((((((....................)))).))))))))))).))))))))))).......... (-25.55 = -26.55 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:58 2006