Locus 102

Sequence ID 3R_DroMel_CAF1
Location 628,827 – 628,929
Length 102
Max. P 0.711276
window171

overview

Window 1

Location 628,827 – 628,929
Length 102
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 80.12
Mean single sequence MFE -21.38
Consensus MFE -12.51
Energy contribution -13.45
Covariance contribution 0.94
Combinations/Pair 1.17
Mean z-score -2.04
Structure conservation index 0.59
SVM decision value 0.38
SVM RNA-class probability 0.711276
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 628827 102 + 27905053
CGCACAAAUUCAUUGUUUUUAAG-----AAUAUU------CAACGGGAAAAUUUCACGUUGCCACC---AAAGGGCAAUGGAAACUAGGCACCAAAAGUGAACAAUGAACAAUUUA
........(((((((((......-----......------((((((((....))).))))).(((.---...((((...(....)...)).))....))))))))))))....... ( -22.60)
>DroSec_CAF1 44630 99 + 1
CACACAAAUUCUUUGUUUUUAAAACUUUAAUAUU------UAACGGGAAAAUUCCAUGUUGCCACCACCAAAGGGCAAUGGAAACUAGGCAC----AA-------UGAAGAAUUUA
.....((((((((..((.................------.(((((((....))).))))(((.((......)).....(....)..)))..----))-------..)))))))). ( -19.90)
>DroSim_CAF1 46241 106 + 1
CACACAAAUUCUUUGUUUUUAAGACUUUAAUAUU------UAACGGGAAAAUUCCAUGUUGCCACCACAAAAGGGCAAUGGAAACUAGGCAC----AAUGAACAAUGAAGAAUUUA
.....((((((((..((((((.............------.....(((....))).(((.(((.((......)).....(....)..)))))----).)))).))..)))))))). ( -20.90)
>DroEre_CAF1 47828 116 + 1
CGCACAAAUUCUUAGUUUUAUAGGCUUUAAUAUUAAACUACAACGGGAAAAUUCCAUGUAGCCACCACAGAAGAGCAAUAGAAACUAGGCACCAAAAGUGAACAAUGGAGAAUUUA
.....((((((((((((((....(((((.........(((((...(((....))).)))))..........)))))....)))))))....(((...(....)..)))))))))). ( -22.11)
>consensus
CACACAAAUUCUUUGUUUUUAAGACUUUAAUAUU______CAACGGGAAAAUUCCAUGUUGCCACCACAAAAGGGCAAUGGAAACUAGGCAC____AAUGAACAAUGAAGAAUUUA
.....((((((((((((.......................((((((((....))).))))).............((...(....)...)).............)))))))))))). (-12.51 = -13.45 +   0.94) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:13 2006