Locus 102

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

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