Locus 7961

Sequence ID	3R_DroMel_CAF1
Location	21,355,191 – 21,355,299
Length	108
Max. P	0.726725

overview

Window 0

Location	21,355,191 – 21,355,299
Length	108
Sequences	4
Columns	114
Reading direction	forward
Mean pairwise identity	83.46
Mean single sequence MFE	-17.58
Consensus MFE	-15.27
Energy contribution	-15.77
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-1.58
Structure conservation index	0.87
SVM decision value	0.41
SVM RNA-class probability	0.726725
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21355191 108 + 27905053
GGAAGAAACAAAAAA-AAAA-----AUGAUAAAAAAAAUCGAGAAUAACGAAAACAAAGAACUUGGUCUAUAGCGAAAUCAAGCCCAGACUGAGCGCCUUACUUGGCAUCGGUG
...............-....-----............(((((...................((..((((...((........))..))))..)).(((......))).))))). ( -19.70)
>DroSim_CAF1 45275 113 + 1
GGAAGAAACAGAAAAAAAAAAAAAUAUGAUAAA-AAAAUCGAGAAUAACGAAAACAAAGAACUUGGUCUAUAGCAAAAUCAAGCCCAGACUGAGUGCCUUACUUGGCAUCGGUG
.................................-...(((((..................(((..((((...((........))..))))..)))(((......))).))))). ( -20.50)
>DroEre_CAF1 47453 93 + 1
GGAGGAAGAAAAA---------------------AAAAACGAGAAUAACGAAAACAAAGAACUUGGUCUAUAGCAAAAUCAGGCACAGACUGAACGCCUUACUUGGCAUCGGUG
.............---------------------..............(((...........(..((((...((........))..))))..)..(((......))).)))... ( -14.70)
>DroYak_CAF1 47651 103 + 1
GGAUGAAGAAAAAGG-AAAA-----A----AAU-AAAAACGAGAAUAACGAAAACAAAGAACUUGGUCUAUAGCAAAAUCAAGCCCAGACUGAACGCCUUACUUGGCAUCGGUG
.((((..((..((((-....-----.----...-.....((.......))............(..((((...((........))..))))..)...))))..))..)))).... ( -15.40)
>consensus
GGAAGAAAAAAAAAA_AAAA_____A____AAA_AAAAACGAGAAUAACGAAAACAAAGAACUUGGUCUAUAGCAAAAUCAAGCCCAGACUGAACGCCUUACUUGGCAUCGGUG
................................................(((..........((..((((...((........))..))))..)).(((......))).)))... (-15.27 = -15.77 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:03 2006