Locus 1456

Sequence ID	3R_DroMel_CAF1
Location	4,196,156 – 4,196,251
Length	95
Max. P	0.996931

overview

Window 1

Location	4,196,156 – 4,196,251
Length	95
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	94.61
Mean single sequence MFE	-34.68
Consensus MFE	-31.98
Energy contribution	-31.94
Covariance contribution	-0.04
Combinations/Pair	1.12
Mean z-score	-1.82
Structure conservation index	0.92
SVM decision value	2.50
SVM RNA-class probability	0.994724
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4196156 95 + 27905053
UUCAUCAAUUGUCCGGCGGAUGUUGAGUUCAGCCGGAGAGGAAUCUGGUUUCCAGUGUUGAAAGGGGGUCCCGCCAACAG--ACGGACCAGAGAUGC
..((((..((.((((((((((.....)))).)))))).))...((((((((....(((((...(((...)))..))))).--..)))))))))))). ( -35.20)
>DroSec_CAF1 7567 95 + 1
UUCAUCAAUUGUCCGGCGGAUGUUGAGUUCAGCCGGAGAGGAAUCUGGUUUCCAGUGUUGAAAGGGGGUCCCGCCAACAG--ACGGACCAGAGAUGC
..((((..((.((((((((((.....)))).)))))).))...((((((((....(((((...(((...)))..))))).--..)))))))))))). ( -35.20)
>DroSim_CAF1 7775 95 + 1
UUCAUCAAUUGUCCGGCGGAUGUUGAGUUCAGCCGGAGAGGAAUCUGGUUUCCAGUGUUGAAAGGGGGUCCCGCCAACAG--ACGGACCAGAGAUGC
..((((..((.((((((((((.....)))).)))))).))...((((((((....(((((...(((...)))..))))).--..)))))))))))). ( -35.20)
>DroEre_CAF1 8216 97 + 1
UUCAUCAAUUGUCCGGCGGAUGUUGAGUUCAGCCGGAGAGAAAUCUGGUUUCCAGAGUUGAAAGGGGGUCCCUCCAACAGAGACGGACCAGGGAUGC
..((((..((.((((((((((.....)))).)))))).))...((((((((.....((((..((((...)))).))))......)))))))))))). ( -32.50)
>DroYak_CAF1 7857 97 + 1
UUCAUCAAUUGUCCGGCGGAUGUUGAGUUCAGCCGGAGAGGAAUUUGGUUUCCAGACUUGAAAGGGGGUUCCUCCAGCAGAGAGGGACCAGAGAUGC
..((((...(.((((((((((.....)))).)))))).)((((......))))...(((....)))(((((((((....).))))))))...)))). ( -35.30)
>consensus
UUCAUCAAUUGUCCGGCGGAUGUUGAGUUCAGCCGGAGAGGAAUCUGGUUUCCAGUGUUGAAAGGGGGUCCCGCCAACAG__ACGGACCAGAGAUGC
..((((..((.((((((((((.....)))).)))))).))...((((((((....(((((...(((...)))..))))).....)))))))))))). (-31.98 = -31.94 +  -0.04)

alignment

secondary structure

dotplot

Window 2

Location	4,196,156 – 4,196,251
Length	95
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	94.61
Mean single sequence MFE	-32.76
Consensus MFE	-26.68
Energy contribution	-28.28
Covariance contribution	1.60
Combinations/Pair	1.00
Mean z-score	-3.22
Structure conservation index	0.81
SVM decision value	2.77
SVM RNA-class probability	0.996931
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4196156 95 - 27905053
GCAUCUCUGGUCCGU--CUGUUGGCGGGACCCCCUUUCAACACUGGAAACCAGAUUCCUCUCCGGCUGAACUCAACAUCCGCCGGACAAUUGAUGAA
.(((((((((((((.--.((((((.(((....))).)))))).))))..)))))......((((((.((........)).)))))).....)))).. ( -34.00)
>DroSec_CAF1 7567 95 - 1
GCAUCUCUGGUCCGU--CUGUUGGCGGGACCCCCUUUCAACACUGGAAACCAGAUUCCUCUCCGGCUGAACUCAACAUCCGCCGGACAAUUGAUGAA
.(((((((((((((.--.((((((.(((....))).)))))).))))..)))))......((((((.((........)).)))))).....)))).. ( -34.00)
>DroSim_CAF1 7775 95 - 1
GCAUCUCUGGUCCGU--CUGUUGGCGGGACCCCCUUUCAACACUGGAAACCAGAUUCCUCUCCGGCUGAACUCAACAUCCGCCGGACAAUUGAUGAA
.(((((((((((((.--.((((((.(((....))).)))))).))))..)))))......((((((.((........)).)))))).....)))).. ( -34.00)
>DroEre_CAF1 8216 97 - 1
GCAUCCCUGGUCCGUCUCUGUUGGAGGGACCCCCUUUCAACUCUGGAAACCAGAUUUCUCUCCGGCUGAACUCAACAUCCGCCGGACAAUUGAUGAA
.((((.(((((...(((..(((((((((....)))))))))...))).))))).......((((((.((........)).)))))).....)))).. ( -34.90)
>DroYak_CAF1 7857 97 - 1
GCAUCUCUGGUCCCUCUCUGCUGGAGGAACCCCCUUUCAAGUCUGGAAACCAAAUUCCUCUCCGGCUGAACUCAACAUCCGCCGGACAAUUGAUGAA
.((((...(((.(((((.....))))).))).............((((......))))..((((((.((........)).)))))).....)))).. ( -26.90)
>consensus
GCAUCUCUGGUCCGU__CUGUUGGCGGGACCCCCUUUCAACACUGGAAACCAGAUUCCUCUCCGGCUGAACUCAACAUCCGCCGGACAAUUGAUGAA
.(((((((((((((....((((((.(((....))).)))))).))))..)))))......((((((.((........)).)))))).....)))).. (-26.68 = -28.28 +   1.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:01 2006