Locus 471

Sequence ID 2R_DroMel_CAF1
Location 2,662,119 – 2,662,213
Length 94
Max. P 0.907390
window895 window896

overview

Window 5

Location 2,662,119 – 2,662,213
Length 94
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 89.53
Mean single sequence MFE -31.85
Consensus MFE -21.53
Energy contribution -21.66
Covariance contribution 0.13
Combinations/Pair 1.09
Mean z-score -2.85
Structure conservation index 0.68
SVM decision value 0.49
SVM RNA-class probability 0.755631
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2662119 94 + 20766785
GGGCAUCACUUGUGGCAUUUGGUUAAAGGCGC---AUGCACCGUGCACAAUCCACCAUGCACCGUGGACCAUGCACCUGCUGCAAUUCUUCCCUCCC
(((......(((..(((..(((((...((.((---(((....(((.......)))))))).))...)))))......)))..))).....))).... ( -28.20)
>DroSec_CAF1 95370 97 + 1
GGGCAGCACUUGUGGCAUUUGGUUAAAGGCGCACCAUGCACCAUGCACAAUCCACCAUGCACCGUGCACCAUGCACCUGCUGCAAUUCUUCCCUCCC
(((.((...(((..(((..........((.(((...(((((..((((..........))))..)))))...))).)))))..)))..)).))).... ( -28.10)
>DroSim_CAF1 93444 94 + 1
GGGCAGCACUUGUGGCAUAUGGUUAAAGGCGC---AUGCACCAUGCGCAAUCCACCAUGCACCGUGCACCAUGCACCUGCUGCAAUUCUUCCCUCCC
(((.((...(((..(((((((((.....((((---(((...))))))).....))))))....((((.....)))).)))..)))..)).))).... ( -36.00)
>DroEre_CAF1 94002 87 + 1
GGGCGGCACUUGUGGCAUUUGCCCAAAGGCGC---AUGCACCAUGCACAAUCCAC-------CGUGCACCAUGCACCUGCUGCAAUUCUUCCCGCCC
((((((...(((..(((...(((....)))((---(((.....(((((.......-------.))))).)))))...)))..)))......)))))) ( -35.10)
>consensus
GGGCAGCACUUGUGGCAUUUGGUUAAAGGCGC___AUGCACCAUGCACAAUCCACCAUGCACCGUGCACCAUGCACCUGCUGCAAUUCUUCCCUCCC
(((.((...(((..(((..((......((.((.....)).)).(((((...............))))).....))..)))..)))..)).))).... (-21.53 = -21.66 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 2,662,119 – 2,662,213
Length 94
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 89.53
Mean single sequence MFE -39.40
Consensus MFE -28.95
Energy contribution -29.07
Covariance contribution 0.12
Combinations/Pair 1.07
Mean z-score -2.78
Structure conservation index 0.73
SVM decision value 1.05
SVM RNA-class probability 0.907390
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2662119 94 - 20766785
GGGAGGGAAGAAUUGCAGCAGGUGCAUGGUCCACGGUGCAUGGUGGAUUGUGCACGGUGCAU---GCGCCUUUAACCAAAUGCCACAAGUGAUGCCC
....(((.....(((..(((.(((((..((((((........))))))..)))))((((...---.))))..........)))..)))......))) ( -35.60)
>DroSec_CAF1 95370 97 - 1
GGGAGGGAAGAAUUGCAGCAGGUGCAUGGUGCACGGUGCAUGGUGGAUUGUGCAUGGUGCAUGGUGCGCCUUUAACCAAAUGCCACAAGUGCUGCCC
..............(((((((((((((.((((((.(((((..(....)..))))).)))))).))))))))..........((.....))))))).. ( -42.10)
>DroSim_CAF1 93444 94 - 1
GGGAGGGAAGAAUUGCAGCAGGUGCAUGGUGCACGGUGCAUGGUGGAUUGCGCAUGGUGCAU---GCGCCUUUAACCAUAUGCCACAAGUGCUGCCC
..............((((((.((((.....))))(((..(((((.((..(((((((...)))---))))..)).)))))..))).....)))))).. ( -38.10)
>DroEre_CAF1 94002 87 - 1
GGGCGGGAAGAAUUGCAGCAGGUGCAUGGUGCACG-------GUGGAUUGUGCAUGGUGCAU---GCGCCUUUGGGCAAAUGCCACAAGUGCCGCCC
((((((.(....(((..(((.((((((.(((((((-------(....)))))))).))))))---..(((....)))...)))..))).).)))))) ( -41.80)
>consensus
GGGAGGGAAGAAUUGCAGCAGGUGCAUGGUGCACGGUGCAUGGUGGAUUGUGCAUGGUGCAU___GCGCCUUUAACCAAAUGCCACAAGUGCUGCCC
(((.((.(....(((..(((.(((((((((.(((........))).)))))))))(((((.....)))))..........)))..))).).)).))) (-28.95 = -29.07 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:25 2006