Locus 5001

Sequence ID 3R_DroMel_CAF1
Location 13,180,202 – 13,180,294
Length 92
Max. P 0.853920
window8177

overview

Window 7

Location 13,180,202 – 13,180,294
Length 92
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 79.02
Mean single sequence MFE -31.48
Consensus MFE -15.02
Energy contribution -14.22
Covariance contribution -0.80
Combinations/Pair 1.29
Mean z-score -2.52
Structure conservation index 0.48
SVM decision value 0.80
SVM RNA-class probability 0.853920
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13180202 92 - 27905053
AAGUGUUUUGACACUUAAAGCCCGACUGCAGUGGCAUUGGCUGCUGUGAUUGCAUUAGACGACAAGUGGUUGCCCAAG-------UGUCGAGAGACGAG
..((.(((((((((((..(((((((..((((..((....))..))))..)))......((.....))))))....)))-------)))))))).))... ( -32.40)
>DroPse_CAF1 198677 75 - 1
AAGUGUUUUGGCACUUAAACUUCGAAUGCAUUGGCAUUGGC---UGUGAUUGCAUUAGGCGACAAGUGGGUGCCGGAG---------------------
......(((((((((((....(((((((((.(.(((.....---))).).))))))...)))....))))))))))).--------------------- ( -24.90)
>DroSec_CAF1 208068 92 - 1
AAGUGUUUUGGCACUUAAAGCCCAACUGCAGUGGCAUUGGCUGCUGUGAUUGCAUUAGACGACAAGUGGUUGCCCAAG-------UGUCGAGAGCCGAG
.......(((((..........(((..((((..((....))..))))..))).......(((((..(((....)))..-------)))))...))))). ( -31.40)
>DroEre_CAF1 198918 92 - 1
AAGUGUUUUGGCACUUAAAGCUCGACUGCAGUGGCAUUGGCUGCUGUGAUUGCAUUAGACGACAAGUGGUUGGCCAAG-------UGUCGAGAGCCGAG
((((((....))))))...((((((..((((..((....))..))))..))........(((((..(((....)))..-------))))).)))).... ( -34.70)
>DroAna_CAF1 194822 96 - 1
AAGUGUUUUGGCACUUAAGCCUCGGCUGCAGUGGCAUUGGC---UGUGAUUGCAUUAGGCGACAAGUGGCUGUCCAAGAGCGGGGCGUUGAGUGCCGAG
.......(((((((((((((((((((((((((.(((.....---))).)))))....)))((((......))))......)))))).))))))))))). ( -40.60)
>DroPer_CAF1 265365 75 - 1
AAGUGUUUUGGCACUUAAACUUCGAAUGCAUUGGCAUUGGC---UGUGAUUGCAUUAGGCGACAAGUGGGUGCCGGAG---------------------
......(((((((((((....(((((((((.(.(((.....---))).).))))))...)))....))))))))))).--------------------- ( -24.90)
>consensus
AAGUGUUUUGGCACUUAAACCUCGACUGCAGUGGCAUUGGC___UGUGAUUGCAUUAGACGACAAGUGGUUGCCCAAG_______UGUCGAGAGCCGAG
((((((....))))))..((((....((((((.(((........))).))))))....((.....))))))............................ (-15.02 = -14.22 +  -0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:00 2006