Locus 4902

Sequence ID 3L_DroMel_CAF1
Location 13,647,352 – 13,647,443
Length 91
Max. P 0.589075
window7736 window7737

overview

Window 6

Location 13,647,352 – 13,647,443
Length 91
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 82.18
Mean single sequence MFE -27.88
Consensus MFE -16.57
Energy contribution -17.27
Covariance contribution 0.69
Combinations/Pair 1.05
Mean z-score -2.12
Structure conservation index 0.59
SVM decision value 0.11
SVM RNA-class probability 0.589075
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13647352 91 + 23771897
GUUCUUCGGGGAGCCAAUCCAUUGAAUUAUAUGGAUUUUUGCCUGAAUAAAAUAUAU------------AUAACCGAGCAUGUGUGCUUGUG----UGGCCCA--CCCU
.......((((.((((((((((........)))))))....................------------...((((((((....)))))).)----)))).).--))). ( -24.60)
>DroSec_CAF1 54754 95 + 1
GUUCUUCGGGGAGCCAAUCCAUUGAAUUAUAUGGAUUUUUGCCUGAAUAAAAUAUAU------------AUAACCGAGCAUGUGUGCUUGUGAGGGUGGUUCA--CCCU
.......(((((((((((((((........)))))))...((((..((((..(((((------------((........))))))).))))..))))))))).--))). ( -28.20)
>DroSim_CAF1 64898 95 + 1
GUUCUUCGGGGAGCCAAUCCAUUGAAUUAUAUGGAUUUUUGCCUGAAUAAAAUAUAU------------AUAACCGAGCAUGUGUGCUUGUGUGGGUGGUUCA--CCCU
.......(((((((((.(((((....(((((((.(((((.........))))).)))------------)))).((((((....)))))).))))))))))).--))). ( -29.30)
>DroEre_CAF1 57463 96 + 1
GUUCUUCGGGG-GCCAAUCCAUUGAAUUAUAUGGAUUUUUGCCUGAAUAAAAUAUAUACG------AGUAUAGCCGAGCAUGUGUGCUUGUG----UGGGCCA--CCCU
.......((((-((((((((((........))))))).................((((((------((((((((...))...))))))))))----)))))).--))). ( -31.60)
>DroYak_CAF1 62535 97 + 1
GUUCUUCGGGGAGCCAAUCCAUUGAAUUAUAUGGAUUUUUGCCUGAAUAAAAUAUAUACAUUCACUCGUAUAACCGAGCAUGUGUGCUUG----------CCA--CCCU
....((((((.((..(((((((........))))))).)).)))))).......(((((........)))))..((((((....))))))----------...--.... ( -22.70)
>DroAna_CAF1 92256 93 + 1
GUGCUCC-GGGAGCCAAUCCAUUGAAUUAUAUGGAUUUUUGCCCGAAUAAAGUAUAC------------A--UCUGGGCAUGUGUGGGUGCCAC-CCGGCCCAAGCCCA
(((((.(-(((....(((((((........)))))))....)))).....)))))..------------.--...((((.((.(((((.....)-)).)).)).)))). ( -30.90)
>consensus
GUUCUUCGGGGAGCCAAUCCAUUGAAUUAUAUGGAUUUUUGCCUGAAUAAAAUAUAU____________AUAACCGAGCAUGUGUGCUUGUG____UGGCCCA__CCCU
....((((((.((..(((((((........))))))).)).))))))...........................((((((....))))))................... (-16.57 = -17.27 +   0.69)

alignment

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secondary structure

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dotplot

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Window 7

Location 13,647,352 – 13,647,443
Length 91
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 82.18
Mean single sequence MFE -25.30
Consensus MFE -13.40
Energy contribution -14.23
Covariance contribution 0.83
Combinations/Pair 1.00
Mean z-score -2.35
Structure conservation index 0.53
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13647352 91 - 23771897
AGGG--UGGGCCA----CACAAGCACACAUGCUCGGUUAU------------AUAUAUUUUAUUCAGGCAAAAAUCCAUAUAAUUCAAUGGAUUGGCUCCCCGAAGAAC
.(((--.(((((.----............(((..(..((.------------........))..)..)))..(((((((........)))))))))))))))....... ( -24.80)
>DroSec_CAF1 54754 95 - 1
AGGG--UGAACCACCCUCACAAGCACACAUGCUCGGUUAU------------AUAUAUUUUAUUCAGGCAAAAAUCCAUAUAAUUCAAUGGAUUGGCUCCCCGAAGAAC
((((--((...)))))).....(((....)))((((....------------(((.....)))...(((...(((((((........))))))).)))..))))..... ( -20.80)
>DroSim_CAF1 64898 95 - 1
AGGG--UGAACCACCCACACAAGCACACAUGCUCGGUUAU------------AUAUAUUUUAUUCAGGCAAAAAUCCAUAUAAUUCAAUGGAUUGGCUCCCCGAAGAAC
.(((--((...)))))......(((....)))((((....------------(((.....)))...(((...(((((((........))))))).)))..))))..... ( -21.00)
>DroEre_CAF1 57463 96 - 1
AGGG--UGGCCCA----CACAAGCACACAUGCUCGGCUAUACU------CGUAUAUAUUUUAUUCAGGCAAAAAUCCAUAUAAUUCAAUGGAUUGGC-CCCCGAAGAAC
.(((--(((((..----....((((....)))).)))))....------.................(((...(((((((........))))))).))-))))....... ( -23.90)
>DroYak_CAF1 62535 97 - 1
AGGG--UGG----------CAAGCACACAUGCUCGGUUAUACGAGUGAAUGUAUAUAUUUUAUUCAGGCAAAAAUCCAUAUAAUUCAAUGGAUUGGCUCCCCGAAGAAC
.(((--..(----------(..((......(((((......)))))(((((.........)))))..))...(((((((........))))))).))..)))....... ( -27.90)
>DroAna_CAF1 92256 93 - 1
UGGGCUUGGGCCGG-GUGGCACCCACACAUGCCCAGA--U------------GUAUACUUUAUUCGGGCAAAAAUCCAUAUAAUUCAAUGGAUUGGCUCCC-GGAGCAC
...(((((((((((-(.....))).....(((((..(--(------------(.......)))..)))))..(((((((........))))))))))))..-.)))).. ( -33.40)
>consensus
AGGG__UGGACCA____CACAAGCACACAUGCUCGGUUAU____________AUAUAUUUUAUUCAGGCAAAAAUCCAUAUAAUUCAAUGGAUUGGCUCCCCGAAGAAC
.(((...............(.((((....)))).)...............................(((...(((((((........))))))).))).)))....... (-13.40 = -14.23 +   0.83)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:31 2006