Locus 332

Sequence ID 3R_DroMel_CAF1
Location 1,262,353 – 1,262,449
Length 96
Max. P 0.512037
window556

overview

Window 6

Location 1,262,353 – 1,262,449
Length 96
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.06
Mean single sequence MFE -27.30
Consensus MFE -16.12
Energy contribution -16.28
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.60
Structure conservation index 0.59
SVM decision value -0.04
SVM RNA-class probability 0.512037
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1262353 96 + 27905053
AAUUGGCGCCC------------UCUGC--A----------AAAGCGAGAGCCAGAAAUCAACUUCCGUUGUGCAGCGGAAGUGAAAUGUGAAAUUUGAAAUUUAUUAUUGGCAAUGCAA
.....(((..(------------((.((--.----------...))))).(((((...(((.((((((((....)))))))))))...(((((........)))))..)))))..))).. ( -25.70)
>DroPse_CAF1 40836 106 + 1
AAAAUGAGCCC------------CCGGG--AGGCCGGUGGCAGCGCAAGACCCAGAAAUCAACUUCCGUUGUGCAGCGGAAGUGAAAUGUGAAAUUUGAAAUUUAUUAUUGGCAGUGCAA
.......(((.------------((((.--...)))).))).((((.....((((...(((.((((((((....)))))))))))...(((((........)))))..))))..)))).. ( -32.80)
>DroEre_CAF1 37438 96 + 1
AAUUGGCGCCC------------UUGGC--A----------AAAGCGAGAGCCAGAAAUCAACUUCCGUUAUGUAGCGGAAGUGAAAUGUGAAAUUUGAAAUUUAUUAUUGGCAAUGCAA
.....(((((.------------..)))--.----------.........(((((...(((.((((((((....)))))))))))...(((((........)))))..)))))...)).. ( -24.20)
>DroYak_CAF1 51792 96 + 1
ACUUUGCGCCC------------UUGGC--A----------AAAGGGAGGCCCUUAAAUCAACUUCCCUUGCGCAGCGGAAGUGAAAUGUGAAAUUUAAAAUUUAUUAUUGGCAAUGAAA
.(.(((((((.------------..)))--.----------.((((((((............)))))))).((((((....))....))))....................)))).)... ( -21.00)
>DroAna_CAF1 38252 110 + 1
AAUAUGGGCCCAGGAGGUCGGCCUUCGGAGA----------AAAACGAGAGCCAGAAAUCAACUUCCGUUGUGCAGCGGAAGUGAAAUGUGAAAUUUGAAAUUUAUUAUUGGCAAUGCAA
.......(((...((..(((((.((((....----------....)))).))).))..)).(((((((((....)))))))))...........................)))....... ( -29.70)
>DroPer_CAF1 40843 106 + 1
AAAAUGAGCCC------------UCGGG--AGGCCGGUGGCAGCGCAAGACCCAGAAAUCAACUUCCGUUGUGCAGCGGAAGUGAAAUGUGAAAUUUGAAAUUUAUUAUUGGCAGUGCAA
.......(((.------------((((.--...)))).))).((((.....((((...(((.((((((((....)))))))))))...(((((........)))))..))))..)))).. ( -30.40)
>consensus
AAUAUGCGCCC____________UCGGC__A__________AAAGCGAGACCCAGAAAUCAACUUCCGUUGUGCAGCGGAAGUGAAAUGUGAAAUUUGAAAUUUAUUAUUGGCAAUGCAA
.......(((................................................(((.((((((((....)))))))))))...(((((........)))))....)))....... (-16.12 = -16.28 +   0.17) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:37 2006