Locus 1807

Sequence ID	X_DroMel_CAF1
Location	5,012,776 – 5,012,883
Length	107
Max. P	0.595816

overview

Window 5

Location	5,012,776 – 5,012,883
Length	107
Sequences	4
Columns	115
Reading direction	reverse
Mean pairwise identity	88.51
Mean single sequence MFE	-23.24
Consensus MFE	-16.26
Energy contribution	-16.82
Covariance contribution	0.56
Combinations/Pair	1.04
Mean z-score	-1.71
Structure conservation index	0.70
SVM decision value	0.13
SVM RNA-class probability	0.595816
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5012776 107 - 22224390
UCUUGAGUGCAAUAAAGAG--------CGAGUGGAACUUACCCCGUGAUUCCAACUCUUUAUAAAGUGUGCUACCCCAACCAUAAUCCAAACACCUUCCAACGAAAAGGAAGAAA
.....((..((((((((((--------....(((((.((((...))))))))).))))))))....))..))......................(((((........)))))... ( -23.80)
>DroSec_CAF1 78927 107 - 1
GUGUGAGUGCAAUAAAGAG--------CGAGUGGAACUUGCCCCGUGAUUCCAACUCUUUAUAAAGUGUGCUACCCCAACCAUAAUCCAAACACCUUCCAACGAAAAGGAAGAAA
((((.((..((((((((((--------....(((((.(..(...)..)))))).))))))))....))..))..................))))(((((........)))))... ( -24.51)
>DroEre_CAF1 83237 106 - 1
C---GAGUGCAAUAAAGAGA------GAGAGUGGAACUUACCCCGUGAGUCCACCUCUUUAUAAAGUGUCCUACCCCAACCAUAAUCCAAACACCUUCCAACGAAAAAGAAGAAA
.---.((..((......(((------(((.(((((.(((((...))))))))))))))))......))..))......................((((..........))))... ( -23.40)
>DroYak_CAF1 80351 114 - 1
CCUUGAGUGCAAUAAAGAGAGAGAGAGAGAGUGGAACUUACUCCGUGAUUCCAACUCUUUAUAAAGCGUUCUACCCCAACCA-AAUCCAAACACCUUCCACCGAAAAGGAAGAAA
..(((.((.......((((......(((((((((((.((((...)))))))).)))))))........))))......))))-)..........(((((........)))))... ( -21.26)
>consensus
CCUUGAGUGCAAUAAAGAG________AGAGUGGAACUUACCCCGUGAUUCCAACUCUUUAUAAAGUGUGCUACCCCAACCAUAAUCCAAACACCUUCCAACGAAAAGGAAGAAA
.....((..((((((((((............(((((.((((...))))))))).))))))))....))..))......................(((((........)))))... (-16.26 = -16.82 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:15 2006