Locus 2927

Sequence ID X_DroMel_CAF1
Location 7,834,465 – 7,834,561
Length 96
Max. P 0.901080
window4793

overview

Window 3

Location 7,834,465 – 7,834,561
Length 96
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 74.40
Mean single sequence MFE -31.78
Consensus MFE -15.56
Energy contribution -16.48
Covariance contribution 0.92
Combinations/Pair 1.18
Mean z-score -2.06
Structure conservation index 0.49
SVM decision value 1.02
SVM RNA-class probability 0.901080
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7834465 96 + 22224390
GAAAAGACCAAAGCAGGACCAAGUCCU-GCGCCCAACAAGUGGAUGGCCGACCUG-------ACCCCGCCAAACGUACAUAGCUCGUUAGGUGGAAUAGGAAAA
.....(.(((..(((((((...)))))-))..(((.....))).))).)..((((-------...(((((.((((.........)))).)))))..)))).... ( -31.10)
>DroPse_CAF1 22281 79 + 1
GCAGGGGCCA----GGGAUCUGGUCCGGGCACCCAACAAGUGGAUGGAC--------------CCCUACCAAACGG----UGCUCGUUAGCGGUAAUGGGU---
((..((((((----(....)))))))(((((((.......(((.(((..--------------..))))))...))----)))))....))..........--- ( -29.80)
>DroSec_CAF1 10380 89 + 1
AAAAAGACCAAAGCAGGACGAAGUCCU-GCGCCCAACAAGUGGAUGGUCGACCUG-------ACCCCGCCAAACGU----UGCUCGUUAGGUGGAAUAAGG---
.....(((((..(((((((...)))))-))..(((.....))).)))))..(((.-------...(((((.((((.----....)))).)))))....)))--- ( -35.90)
>DroSim_CAF1 15718 92 + 1
GAAAAGACCAAAGCAGGACCAAGUCCU-GCGCCCAACAAGUGGAUGGCCGACCUG-------ACCCCGCCAAACGU----UGCUCGUUAGGUGGAAUAAGAGCA
.....(.(((..(((((((...)))))-))..(((.....))).))).)(..((.-------...(((((.((((.----....)))).)))))....))..). ( -29.30)
>DroEre_CAF1 18206 80 + 1
CA-------GGACCAGGACCAAGUCCU-GCGCCCAACAAGUGGAUGGCCGACCUG-------ACCCCGCCAAACGU----GGCUCGUUAGGUGGA--AAGG---
((-------((..((((((...)))))-)((.(((.(.....).))).)).))))-------...(((((.((((.----....)))).))))).--....--- ( -28.30)
>DroYak_CAF1 14717 96 + 1
CAAAAGACCGAAGCAGGACCAAGUCCU-GUGCCCAACAAGUGGAUGGUCGACCUGCGGGGUCAGGCCGCCAAACGU----GGCUCGUUAGGUGGAGCAAGA---
.....(((((..(((((((...)))))-))..(((.....))).)))))((((.....))))...(((((.((((.----....)))).))))).......--- ( -36.30)
>consensus
GAAAAGACCAAAGCAGGACCAAGUCCU_GCGCCCAACAAGUGGAUGGCCGACCUG_______ACCCCGCCAAACGU____UGCUCGUUAGGUGGAAUAAGA___
.......(((..(((((((...))))).))..(((.....))).)))..................(((((.((((.........)))).))))).......... (-15.56 = -16.48 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:48 2006