Locus 1475

Sequence ID 3R_DroMel_CAF1
Location 4,261,637 – 4,261,744
Length 107
Max. P 0.595135
window2451

overview

Window 1

Location 4,261,637 – 4,261,744
Length 107
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.31
Mean single sequence MFE -40.52
Consensus MFE -26.39
Energy contribution -27.07
Covariance contribution 0.68
Combinations/Pair 1.09
Mean z-score -1.86
Structure conservation index 0.65
SVM decision value 0.12
SVM RNA-class probability 0.595135
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4261637 107 + 27905053
GUGCCGUUCGGGAUUAAAGUGUCCAAGUCGGAUUGCCGAGCACCACUGGG----CGGUUCAGUUGGUUGG---------AUGGUUAAGUUGGUUUGGCUGCUUUCGGUUGGCAUUCUGUG
((((((..((..(.......((((.....)))).(((((((.(.(((..(----(.((((((....))))---------)).))..))).))))))))...)..))..))))))...... ( -36.30)
>DroSec_CAF1 63381 108 + 1
GUGCCGUUCGGGAUUAAAGUGUCCAAGUCGGAUGGCCGAGCACCACUGGG----CGGUUCAGUUG--------GUUGGGAUGGUUAAGUUGGUUUGGCUGCUUUCGGGUGGCAUUCUCUG
((((((..((..(.......((((.....))))((((((((.(.(((..(----(.((((.....--------....)))).))..))).)))))))))..)..))..))))))...... ( -38.90)
>DroSim_CAF1 63230 116 + 1
GUGCCGUUCGGGAUUAAAGUGUCCAAGUCGGAUGGCCGAGCACCACUGGG----CGGUUCAGUUGGCUGGAUGGUUGGCAUGGUUAAGUUGGUUUGGCUGCUUUCGGGUAGCAUUCUCUG
(.((((((((((((......))))....)))))))))..(((((...(((----((((..((..((((.(((.((....)).))).))))..))..)))))))...))).))........ ( -38.20)
>DroEre_CAF1 66414 103 + 1
GUGCCGUUCGGGAUUAAAGUGUCCAAGUCGGAUGGCCGAGCACCGCUGGGCGGGCGGUUCAG-----------------AUGGUUAAGUUGGCUUGGCUGGCUUCGGGUGGCAUUCAAUG
((((((..((((((......))))(((((((..((((((..((((((((((.....))))))-----------------.))))....))))))...)))))))))..))))))...... ( -44.30)
>DroYak_CAF1 65289 99 + 1
GUGCCGCUCGGGAUUAAAGUGUCCAAGUCGGAUGGCCGAGCACCAAUGGG----CGGUUCAG-----------------AUGGUUAAGUCGGCUUGGAUGGUUUCGGGUGGCAUUCAAUG
((((((((((..(((.....(((((((((((((.(((.(.......).))----).)))).(-----------------((......)))))))))))))))..))))))))))...... ( -44.90)
>consensus
GUGCCGUUCGGGAUUAAAGUGUCCAAGUCGGAUGGCCGAGCACCACUGGG____CGGUUCAGUUG______________AUGGUUAAGUUGGUUUGGCUGCUUUCGGGUGGCAUUCUAUG
(((((((((((((.......((((.....))))(((((((((((((((((.......)))))..................)))).......))))))))..)))))))))))))...... (-26.39 = -27.07 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:29 2006