Locus 4529

Sequence ID 3R_DroMel_CAF1
Location 12,022,583 – 12,022,680
Length 97
Max. P 0.500000
window7392

overview

Window 2

Location 12,022,583 – 12,022,680
Length 97
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 83.90
Mean single sequence MFE -28.36
Consensus MFE -19.08
Energy contribution -19.97
Covariance contribution 0.89
Combinations/Pair 1.09
Mean z-score -1.96
Structure conservation index 0.67
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12022583 97 + 27905053
GGACUGCAGGUGAAGGCGCCAAUUGUCCAGACCAAGUGCCCGGAACGGGCAUAAUCAUAAGGUGGUGACGAAACUA-AAGCUGAAAACCUGAGUUGUA
.((((.(((((...(((.....(((((...(((..(((((((...))))))).(((....))))))))))).....-..)))....)))))))))... ( -31.00)
>DroGri_CAF1 808 87 + 1
GCAGUACAGCCCAAAGCACCCAUUGUACAAACCAAAUGCCCGGAGCGCGCAUAAGCGCCA----------AGGCUUUGAGCUUAAAAC-UGAAUUGUU
(((((.(((....((((((.....))......((((.(((..(.((((......))))).----------.))))))).))))....)-)).))))). ( -23.50)
>DroSec_CAF1 826 97 + 1
GGACUGCAGGUGAAGGCGCCAAUUGUCCAGACCAAGUGCCCGGAACGGGCAUAAUCAUUAGGUGAAGACGAAACUA-AAGCUGAAAACCUGAGUUGUA
.((((.(((((...(((.....(((((........(((((((...)))))))..((((...)))).))))).....-..)))....)))))))))... ( -29.50)
>DroSim_CAF1 832 97 + 1
GGACUGCAGGUGAAGGCGCCAAUUGUCCAGACCAAGUGCCCGGAACGGGCAUAAUCAUUAGGUGAAGACGAAACUA-AAGCUGAAAACCUGAGUUGUA
.((((.(((((...(((.....(((((........(((((((...)))))))..((((...)))).))))).....-..)))....)))))))))... ( -29.50)
>DroEre_CAF1 826 97 + 1
GGACUCCAGGUGAAGGCGCCAAUUGUCCAGACCAAGUGCCCGGAACGGGCAUAAUCAUUACGUGGACACGAAACUA-AAGCUGAAAACCUGAGUUUUA
((((((.((((...(((......((((((......(((((((...)))))))..........))))))........-..)))....)))))))))).. ( -28.88)
>DroYak_CAF1 826 97 + 1
GGACUCCAGGUGAAGGCACCAAUUGUCCAGACCAAGUGCCCGGAACGGGCAUAAUCAUUAGGUGCAGACGAAACUA-UAGCUGAAAACCCGAGUUUUA
((((....((((....))))....))))(((((..(((((((...)))))))........(((.(((.(.......-..))))...))).).)))).. ( -27.80)
>consensus
GGACUGCAGGUGAAGGCGCCAAUUGUCCAGACCAAGUGCCCGGAACGGGCAUAAUCAUUAGGUGAAGACGAAACUA_AAGCUGAAAACCUGAGUUGUA
.((((.(((((...(((.....(((.......)))(((((((...)))))))...........................)))....)))))))))... (-19.08 = -19.97 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:29 2006