Locus 6139

Sequence ID 3L_DroMel_CAF1
Location 16,256,888 – 16,257,005
Length 117
Max. P 0.608334
window9861

overview

Window 1

Location 16,256,888 – 16,257,005
Length 117
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 86.71
Mean single sequence MFE -22.21
Consensus MFE -16.68
Energy contribution -17.48
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.63
Structure conservation index 0.75
SVM decision value 0.15
SVM RNA-class probability 0.608334
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16256888 117 + 23771897
AACUUUUACUGCCGCCGCCACCAGCUGCAAAAAAGUAUAA-AAUAUAAGACAAAAAAAAAAAAAGCAAGCAAGUGGCAAGAGCUGCAAGAAACCCAUUGCGAUCACGUUCCAGGCACC
.........((((...(((((..(((((............-.......................)).)))..)))))..((..(((((........))))).))........)))).. ( -24.35)
>DroSec_CAF1 8327 116 + 1
AACUUUUACUGCCGCCGCCACCAGCUGCAAAAAAGUAUAA-AAUAUAAGCCGAAAUAGAAA-AAACGAGCAAGUGGCAAGAGCUGCAAGAAACCCAUUGCGAUCACGUUCCAGGCACA
.........((((...(((((..(((.......)))....-.......((((.........-...)).))..)))))..((..(((((........))))).))........)))).. ( -23.30)
>DroSim_CAF1 6781 117 + 1
AACUUUUACUGCCGCUGCCACCAGCUGCAAAAAAGUAUAA-AAUAUAAGCUGAAAAAGAAAAAAACGAGCAAGUGGCAAGAGCUGCAAGAAACCCAUUGCGAUCACGUUCCAGGCACC
.........((((..(((((((((((..............-......))))).....(.......)......)))))).((..(((((........))))).))........)))).. ( -23.95)
>DroEre_CAF1 8266 106 + 1
AACUUUUACUGCCG---CCACCAGCUGCAAAAAAAAAUAACAAAAUACGCC--------AAAAA-CAACCAAGUGGCAAGAGCUGCAAGAAACCCAUUGCGAUCACGUUCCAGGCACC
.........(((((---((((..............................--------.....-.......)))))..((..(((((........))))).))........)))).. ( -17.65)
>DroYak_CAF1 10143 105 + 1
AACUUUUACUGCCG---CCACCAGCUGCAGAAAAAA--GACAAAAUAAGCC--------AAAAACCAACCAAGUGGCAAGAGCUGCAAGAAACCCAUUGCGAUCACGUUCCAGGCACC
..(((((.((((.(---(.....)).))))..))))--).........(((--------.....(((......)))...((..(((((........))))).))........)))... ( -21.80)
>consensus
AACUUUUACUGCCGC_GCCACCAGCUGCAAAAAAGUAUAA_AAUAUAAGCC_AAA_A_AAAAAAACAAGCAAGUGGCAAGAGCUGCAAGAAACCCAUUGCGAUCACGUUCCAGGCACC
.........((((...(((((..(((.........................................)))..)))))..((..(((((........))))).))........)))).. (-16.68 = -17.48 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:04 2006