Locus 6475

Sequence ID 2R_DroMel_CAF1
Location 20,229,087 – 20,229,180
Length 93
Max. P 0.953313
window10324

overview

Window 4

Location 20,229,087 – 20,229,180
Length 93
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 76.59
Mean single sequence MFE -29.87
Consensus MFE -18.20
Energy contribution -18.68
Covariance contribution 0.48
Combinations/Pair 1.20
Mean z-score -2.09
Structure conservation index 0.61
SVM decision value 1.43
SVM RNA-class probability 0.953313
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20229087 93 + 20766785
CGGCACAAAUGAAAACCCA-AACGGAAUGG--UGAAUGGG-------GAGC-------GGGGAAACGGAUGCAUCCAGCAGAUGGGUGUGGAAAACUGCACCAGUGCUCC
.(((((.........((((-.((......)--)...))))-------..((-------(((....)....(((((((.....)))))))......))))....))))).. ( -29.20)
>DroSec_CAF1 22018 100 + 1
CGGCACAAAUGAAAACCCA-AACGGAAUGC--UGAAUGGG-------GAGUGGGCAGUGGGGAAACGGGUGCAUCCAGCAGCUGGGUGUGGAAAACUGCACCAGUGCUCC
.(((((.........((((-..(((....)--))..))))-------...((((((((..(....)....((((((((...)))))))).....))))).)))))))).. ( -36.90)
>DroSim_CAF1 20872 100 + 1
CGGCACAAAUGAAAACCCA-AACGGAAUGG--UGAAUGGG-------GAGUGGGCAGUGGGGAAACGGGUGCAUCCAGCAGCUGGGUGUGGAAAACUGCACCAGUGCUCC
.(((((.........((((-.((......)--)...))))-------...((((((((..(....)....((((((((...)))))))).....))))).)))))))).. ( -35.20)
>DroEre_CAF1 23103 83 + 1
CGGCACAAAUGAA-ACCCA-AACCAAACG----GAAUGGG-------G--------------AAAUGGGUGCAUCCAGCAGCUGGGUGUGGAAAACUGCACCAGUGCUCC
..((((..((...-.((((-..((....)----)..))))-------.--------------..))..))))....((((.((((.((..(....)..)))))))))).. ( -28.90)
>DroYak_CAF1 21742 92 + 1
CGGCACAAAUGAAAACCCA-AAGCAAACG----GAAUGGG-------GA------AAUGGGGAAAUGGGUGCAUUCAGCAGCUGGGUGUGGAAAACUGCACCAGUGCUCC
..((((..((.....((((-...(...(.----.....).-------).------..))))...))..))))....((((.((((.((..(....)..)))))))))).. ( -25.30)
>DroAna_CAF1 20255 97 + 1
CAGCACAAAUGAAAAACCAAAACGAAAUGAAAUGAAUGCUCCGCUCCGAGU--GCAGCAUAGGAAUGG-----------AGUGGAAAGUGGAAAACUGCAGCAGUGCUCC
.(((((...((......)).................((((((((((((..(--.(......).).)))-----------))))))..(..(....)..).)))))))).. ( -23.70)
>consensus
CGGCACAAAUGAAAACCCA_AACGAAAUG___UGAAUGGG_______GAGU____AGUGGGGAAACGGGUGCAUCCAGCAGCUGGGUGUGGAAAACUGCACCAGUGCUCC
.(((((.........((((.................)))).........................(((.(((.....))).)))((((..(....)..)))).))))).. (-18.20 = -18.68 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:52 2006