Locus 1984

Sequence ID 2R_DroMel_CAF1
Location 7,487,005 – 7,487,100
Length 95
Max. P 0.770626
window3281

overview

Window 1

Location 7,487,005 – 7,487,100
Length 95
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 71.62
Mean single sequence MFE -31.42
Consensus MFE -15.91
Energy contribution -16.97
Covariance contribution 1.06
Combinations/Pair 1.21
Mean z-score -1.69
Structure conservation index 0.51
SVM decision value 0.53
SVM RNA-class probability 0.770626
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7487005 95 - 20766785
CAGGUAGAAGCGGCGCUCCUCGUCUGAAAGCGAGGGGUGCAUCUCGAACUUGGAGCCUGC---------------------GUUGCGGGUAUAUGC----AAUUUAUAUGCAAUUUUCCA
.((((.((....(((((((((((......)))))))))))...))..))))(((((((((---------------------...))))))...(((----(.......))))....))). ( -35.50)
>DroPse_CAF1 116 109 - 1
AAGAUAGUAGCGACGCUCCUCGUCAGAAAGGCUCGAGUGCAUCUCAUAGUUCGAACCUGUUAAAACACGAGCCACGAACACGGUCUGAGCAUUAGC----AUUGAAG-------UCCCAA
.........(.(((........(((((..((((((((.....)))...(((..((....))..)))..))))).((....)).)))))((....))----......)-------)).).. ( -23.00)
>DroSec_CAF1 117 89 - 1
CAGGUAAAAGCGGCGCUCCUCGUCUGAAAGCGAGGGGUGCAUCUCGAACUUGGAGCCUGC---------------------GUUCCGGGGAUAUGC----AAUUUAC------UUUACUA
.(((((((.((((((((((((((......)))))))))))........((((((((....---------------------))))))))....)))----..)))))------))..... ( -35.50)
>DroSim_CAF1 117 89 - 1
CAGGUAAAAGCGGCGCUCCUCGUCUGAAAGCGAGGGGUGCAUCUCGAACUUGGAGCCUGC---------------------GUUCCGGGGAUAUGC----AAUUUAC------UUUACCA
..((((((....(((((((((((......)))))))))))........((((((((....---------------------)))))))).......----.......------)))))). ( -36.30)
>DroEre_CAF1 118 94 - 1
UAUGUAGAAGCGGCGUUCCUCGUCCGAAAGCGAGGGGUGCAUCUCGAACUUGGAGCCUGC---------------------GUU---GUGAUAUGUAUGUAUGUUACA--GUAUUAACCA
.((((((.....(((..((((((......))))))..)))..(((.......))).))))---------------------))(---((((((((....)))))))))--.......... ( -29.20)
>DroYak_CAF1 118 90 - 1
CAGAUAGAAGCGGCGUUCCUCGUCCGAAAGCGAGGGGUGCAUCUCGAACUUGGAGCCUGC---------------------GUU---GGGAUAUGC----AAGUUACU--GUAUUGACCA
(((((((.....(((..((((((......))))))..)))......((((((.(.(((..---------------------...---)))...).)----))))).))--)).))).... ( -29.00)
>consensus
CAGGUAGAAGCGGCGCUCCUCGUCUGAAAGCGAGGGGUGCAUCUCGAACUUGGAGCCUGC_____________________GUUCCGGGGAUAUGC____AAUUUAC______UUUACCA
(((((.......(((((((((((......))))))))))).(((.......))))))))............................................................. (-15.91 = -16.97 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:04 2006