Locus 1431

Sequence ID 3R_DroMel_CAF1
Location 4,139,041 – 4,139,156
Length 115
Max. P 0.720642
window2388

overview

Window 8

Location 4,139,041 – 4,139,156
Length 115
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.47
Mean single sequence MFE -35.50
Consensus MFE -28.48
Energy contribution -28.12
Covariance contribution -0.36
Combinations/Pair 1.19
Mean z-score -1.51
Structure conservation index 0.80
SVM decision value 0.40
SVM RNA-class probability 0.720642
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4139041 115 + 27905053
C-----GCGAACAAAUCGUGAACAUGGCGCGCAAGAAUGCCCAGGCGGAGGACCUCUCCAACGUGGAGUUCGAGACGAGCGAGGAUGUGGAGGUGAUACCCACAUUCAACGCCAUGAAUC
(-----((((.....)))))..((((((((((......((....))((((.....))))...)))..(((((...)))))..((((((((.(......)))))))))..))))))).... ( -43.10)
>DroVir_CAF1 9284 118 + 1
UAAGUCAAGCACAA--GCUAAAAAUGGCGCGCAAGAAUGCACAGGCCGAGGAUCUCUCGAACGUGGAGUUUGAGACUAGCGAAGACGUUGAGGUGAUACCCACCUUCAAUGCCAUGAACC
.......(((....--)))....(((((.(((.((...((....))........((((((((.....)))))))))).))).....(((((((((.....)))).))))))))))..... ( -33.00)
>DroPse_CAF1 1612 112 + 1
U--------AAAACACAGUAAGAAUGGCGCGCAAGAAUGCCCAGGCCGAGGAUCUCUCGAACGUUGAGUUCGAGACCAGCGAAGAUGUGGAGGUAAUACCCACUUUUAAUGCCAUGAAUC
.--------..............(((((((((......((....))...((...((((((((.....)))))))))).)))((((.((((.(......)))))))))..))))))..... ( -32.10)
>DroYak_CAF1 227 115 + 1
C-----ACAAUCAAGCAGCAAACAUGGCGCGCAAGAAUGCCCAGGCGGAGGACCUCUCGAACGUGGAGUUCGAGACCAGCGAGGAUGUGGAGGUGAUUCCCACCUUCAACGCCAUGAAUC
.-----................((((((((((.....(((....)))..((...((((((((.....)))))))))).)))......((((((((.....)))))))).))))))).... ( -43.30)
>DroMoj_CAF1 5739 118 + 1
UUGAACACAUUCAA--GUCGAAAAUGGCGCGCAAAAAUGCACAGGCCGAGGAUCUCUCGAAUGUGGAGUUUGAGACAAGCGAAGAUGUGGAGGUAAUACCCACCUUCAAUGCCAUGAACC
(((((....)))))--.......((((((((((....)))..............((((((((.....))))))))...))((((..((((.(......)))))))))...)))))..... ( -29.40)
>DroPer_CAF1 1727 112 + 1
U--------AAAACACAGUAAGAAUGGCGCGCAAGAAUGCCCAGGCCGAGGAUCUCUCGAACGUUGAGUUCGAGACCAGCGAAGAUGUGGAGGUAAUACCCACUUUUAAUGCCAUGAAUC
.--------..............(((((((((......((....))...((...((((((((.....)))))))))).)))((((.((((.(......)))))))))..))))))..... ( -32.10)
>consensus
U_____AC_AACAAACAGUAAAAAUGGCGCGCAAGAAUGCCCAGGCCGAGGAUCUCUCGAACGUGGAGUUCGAGACCAGCGAAGAUGUGGAGGUAAUACCCACCUUCAAUGCCAUGAAUC
.......................(((((((((......((....))........((((((((.....))))))))...)))......(((((((.......))))))).))))))..... (-28.48 = -28.12 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:27 2006