Locus 4600

Sequence ID	2R_DroMel_CAF1
Location	14,995,022 – 14,995,121
Length	99
Max. P	0.912920

overview

Window 4

Location	14,995,022 – 14,995,121
Length	99
Sequences	3
Columns	109
Reading direction	forward
Mean pairwise identity	86.07
Mean single sequence MFE	-35.77
Consensus MFE	-26.90
Energy contribution	-26.24
Covariance contribution	-0.65
Combinations/Pair	1.18
Mean z-score	-2.82
Structure conservation index	0.75
SVM decision value	1.09
SVM RNA-class probability	0.912920
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14995022 99 + 20766785
UCACUAUUUGCCCCUAAUUUAUUGUGGUGGUUCCAUUGGGUUCGGUGAUU--GUGGAUCGGUGGAUCAGUGG--------AUCGGUGACAAUGGGUGGGGUGCAUAUGU
....(((.((((((((.((((((((..(.(.((((((((.((((.(((((--...))))).)))))))))))--------).).)..))))))))))))).))).))). ( -36.30)
>DroSec_CAF1 12967 105 + 1
UCACUA--UGCCCCUAAUUUGUUGUGGUGGUUCCAUUGGGUUCGGUGAUU--GUGGAUCGGUGGAUCAGUGGAUCAGCGGAUCGGUGAAGAUGGGUGGGGUGCAUAUGU
..((((--((((((((.((..((((((.....))))..((((((.(((((--...((((....))))....))))).))))))......))..))))))).))))).)) ( -35.00)
>DroYak_CAF1 13155 107 + 1
UCACUA--UGCCCCUAAUUUGUUGUGGUGGUUCCAUUGGGUUUGGUGGAUCAUUGGAUCAGUGGAUCGGUGGAUCAGUUGAUCGGUGAGGAUGGGUGGGGUGCAUAUGU
..((((--((((((((.((..((.(((((((.(((((......))))))))))).((((((..((((....))))..))))))....).))..))))))).))))).)) ( -36.00)
>consensus
UCACUA__UGCCCCUAAUUUGUUGUGGUGGUUCCAUUGGGUUCGGUGAUU__GUGGAUCGGUGGAUCAGUGGAUCAG__GAUCGGUGAAGAUGGGUGGGGUGCAUAUGU
........((((((((.(..(((..(.((((((((((((.((((.(((((.....))))).)))))))))))).......)))).)...)))..)))))).)))..... (-26.90 = -26.24 +  -0.65)

alignment

secondary structure

dotplot

Window 5

Location	14,995,022 – 14,995,121
Length	99
Sequences	3
Columns	109
Reading direction	reverse
Mean pairwise identity	86.07
Mean single sequence MFE	-18.43
Consensus MFE	-12.13
Energy contribution	-12.13
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.52
Structure conservation index	0.66
SVM decision value	0.32
SVM RNA-class probability	0.689190
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14995022 99 - 20766785
ACAUAUGCACCCCACCCAUUGUCACCGAU--------CCACUGAUCCACCGAUCCAC--AAUCACCGAACCCAAUGGAACCACCACAAUAAAUUAGGGGCAAAUAGUGA
.(((((...((((..((((((.....(((--------(....))))....(((....--.)))........)))))).........((....)).))))...)).))). ( -14.60)
>DroSec_CAF1 12967 105 - 1
ACAUAUGCACCCCACCCAUCUUCACCGAUCCGCUGAUCCACUGAUCCACCGAUCCAC--AAUCACCGAACCCAAUGGAACCACCACAACAAAUUAGGGGCA--UAGUGA
.(((((((.(((..............((((.(..((((....))))..).))))...--...............(((.....)))..........))))))--).))). ( -19.10)
>DroYak_CAF1 13155 107 - 1
ACAUAUGCACCCCACCCAUCCUCACCGAUCAACUGAUCCACCGAUCCACUGAUCCAAUGAUCCACCAAACCCAAUGGAACCACCACAACAAAUUAGGGGCA--UAGUGA
.(((((((.(((.........(((..(((((...((((....))))...)))))...)))((((..........)))).................))))))--).))). ( -21.60)
>consensus
ACAUAUGCACCCCACCCAUCCUCACCGAUC__CUGAUCCACUGAUCCACCGAUCCAC__AAUCACCGAACCCAAUGGAACCACCACAACAAAUUAGGGGCA__UAGUGA
.(((.(((.(((..............................((((....))))....................(((.....)))..........))))))....))). (-12.13 = -12.13 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:26 2006