Locus 5107

Sequence ID X_DroMel_CAF1
Location 13,331,839 – 13,331,946
Length 107
Max. P 0.590057
window8306

overview

Window 6

Location 13,331,839 – 13,331,946
Length 107
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 86.78
Mean single sequence MFE -24.48
Consensus MFE -17.88
Energy contribution -18.00
Covariance contribution 0.12
Combinations/Pair 1.23
Mean z-score -1.67
Structure conservation index 0.73
SVM decision value 0.11
SVM RNA-class probability 0.590057
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13331839 107 - 22224390
GGUUCGCGGCACUGUCAAAA-GAUUUGUAUUAUAGUUAUAAUGCAAAGUGCAUGCGAAAAUAAGCCCUAUAGAAGUCUGUUGUUUUUUUUUUUU---UGCAAUAAUUUUGA
..((((((((((((((....-)))(((((((((....)))))))))))))).)))))).............(((((.((((((...........---.))))))))))).. ( -24.60)
>DroSec_CAF1 44316 100 - 1
GGUUUGCUGCACUAUCAAAA-GAUUUGUAUUAUAGUUAUAAUGCACAGUGCAUGGGAAAAUAAGCCCUAUAGAAGUCUGUUGUUU-------UU---UGCAAUAACUUUGA
.......(((((((((....-))).((((((((....)))))))).)))))).(((........)))....(((((.((((((..-------..---.))))))))))).. ( -23.00)
>DroSim_CAF1 36181 100 - 1
GGCUUACUGCACAAUCAAAA-GAUUUGUAUUAUAGUUAUAAUGCAAAGUGCAUGGGAAAAUAAGCCCUAUAGAAGUCUGUUGUUU-------UU---UGCAAUAACUUUGA
((((((((((((..((....-))((((((((((....))))))))))))))).)......)))))).....(((((.((((((..-------..---.))))))))))).. ( -25.50)
>DroEre_CAF1 35800 99 - 1
GGCUCGCUGCACUGUCAAAA-GGCUUGCAUUUUAGUUAUAAGGCAAAGUGCAUGGGA-AAUAAGCUCUAUAGAAGUCUGUUGUUU-------UU---UGCAAUAACUUUGA
..((((.(((((((((....-)))((((...(((....))).)))))))))))))).-.............(((((.((((((..-------..---.))))))))))).. ( -22.20)
>DroYak_CAF1 35806 104 - 1
GGCUUGCUGCACUGUCGAAACGGCUUGUAUUAUAGUUAUAAAGCAAAGUGCAUGGCAGAAUAAGCUCUAUAGAAGUCUGUUGUUU-------UUUUGUGCCAUAACUUUGA
((((...((((..((((...)))).))))....))))......((((((..((((((.((.((((...((((....)))).))))-------..)).)))))).)))))). ( -27.10)
>consensus
GGCUUGCUGCACUGUCAAAA_GAUUUGUAUUAUAGUUAUAAUGCAAAGUGCAUGGGAAAAUAAGCCCUAUAGAAGUCUGUUGUUU_______UU___UGCAAUAACUUUGA
((((((.(((((((((.....)))(((((((((....)))))))))))))))........)))))).....(((((.((((((...............))))))))))).. (-17.88 = -18.00 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:17 2006