Locus 486

Sequence ID 3R_DroMel_CAF1
Location 1,811,109 – 1,811,202
Length 93
Max. P 0.988635
window784 window785

overview

Window 4

Location 1,811,109 – 1,811,202
Length 93
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 65.45
Mean single sequence MFE -32.48
Consensus MFE -12.32
Energy contribution -14.52
Covariance contribution 2.20
Combinations/Pair 1.25
Mean z-score -2.01
Structure conservation index 0.38
SVM decision value 1.04
SVM RNA-class probability 0.905744
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1811109 93 + 27905053
UAUCAGUGCGGACCUGGCAGGAGGGA--UUGUGGUUCCA-----GGUUCG-------AGGUUGGAGUUGGG---UGGGUCAUGUCCUGGCGGAUAGCACUGAUAAUGGCA
(((((((((....(((.(((((.(((--((.....((((-----(.((((-------....)))).)))))---..)))).).))))).)))...)))))))))...... ( -36.30)
>DroSec_CAF1 121730 96 + 1
UAUCAGUGCGGACCUGGCAGGAGGGA--UUGUGGUUCCA-----GGUUCG-------AGGUUGGAGUCGGGUGGUGGGUCAUGUCCUGGCGGAAGGCACUGAUAAUGGCA
(((((((((((((((((((.((....--)).))...)))-----))))).-------........((((((..(((...)))..)))))).....)))))))))...... ( -37.00)
>DroSim_CAF1 124788 96 + 1
UAUCAGUGCGGACCUGGCAGGAGGGA--UUGUGGUUCCA-----GGUUCG-------AGGUUGGAGUCGGGUGGUGGGUCAUGUCCUGGCGGAAGGCACUGAUAAUGGCA
(((((((((((((((((((.((....--)).))...)))-----))))).-------........((((((..(((...)))..)))))).....)))))))))...... ( -37.00)
>DroEre_CAF1 117848 96 + 1
UAUCAGUGCGGACCUGGGAGGAGCAA--CUGUGGUUCG-------CUUCUGGAUUCGAGGCCCGAGUUGGGUGG-----CAUGUCCUGGUGGCAGGCACUGAUAAUGGCC
((((((((((((((..(.((......--)).))))))(-------((.((((((..(..((((.....))))..-----)..)))).)).)))..)))))))))...... ( -36.80)
>DroYak_CAF1 121162 88 + 1
UAUCAGUGCGGUCCUGGGAGGAGGGA--CUGUGGUUCGA-----GGUUCAAUGUUCGAGGCUUGAGGUCUG---------------AGGUGAAAGGCACUGAUAAUGGCU
(((((((((((((((.......))))--))))..(((((-----(.(((.......))).))))))((((.---------------.......)))))))))))...... ( -29.80)
>DroAna_CAF1 110576 88 + 1
UAUCAAUGCGAACAUGAAAGAAGGGGCGUUUUGGUGGCACUACUUGUUGG-------CA---AUAGUGGAUUGUUAGGUG--GUCCUUG--G--------AAAAAUAGUA
.(((((.(((..(..........)..))).)))))((.((((((((...(-------((---((.....)))))))))))--))))...--.--------.......... ( -18.00)
>consensus
UAUCAGUGCGGACCUGGCAGGAGGGA__UUGUGGUUCCA_____GGUUCG_______AGGUUGGAGUUGGGUGGUGGGUCAUGUCCUGGCGGAAGGCACUGAUAAUGGCA
((((((((((((((..((((........)))))))))............................((((((.............)))))).....)))))))))...... (-12.32 = -14.52 +   2.20)

alignment

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secondary structure

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dotplot

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Window 5

Location 1,811,109 – 1,811,202
Length 93
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 65.45
Mean single sequence MFE -21.14
Consensus MFE -9.37
Energy contribution -10.98
Covariance contribution 1.61
Combinations/Pair 1.25
Mean z-score -2.39
Structure conservation index 0.44
SVM decision value 2.13
SVM RNA-class probability 0.988635
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1811109 93 - 27905053
UGCCAUUAUCAGUGCUAUCCGCCAGGACAUGACCCA---CCCAACUCCAACCU-------CGAACC-----UGGAACCACAA--UCCCUCCUGCCAGGUCCGCACUGAUA
......(((((((((..(((....))).........---..............-------.(.(((-----(((........--.........)))))).)))))))))) ( -24.03)
>DroSec_CAF1 121730 96 - 1
UGCCAUUAUCAGUGCCUUCCGCCAGGACAUGACCCACCACCCGACUCCAACCU-------CGAACC-----UGGAACCACAA--UCCCUCCUGCCAGGUCCGCACUGAUA
......(((((((((...((..(((((..............(((........)-------))....-----.(((.......--))).)))))...))...))))))))) ( -24.30)
>DroSim_CAF1 124788 96 - 1
UGCCAUUAUCAGUGCCUUCCGCCAGGACAUGACCCACCACCCGACUCCAACCU-------CGAACC-----UGGAACCACAA--UCCCUCCUGCCAGGUCCGCACUGAUA
......(((((((((...((..(((((..............(((........)-------))....-----.(((.......--))).)))))...))...))))))))) ( -24.30)
>DroEre_CAF1 117848 96 - 1
GGCCAUUAUCAGUGCCUGCCACCAGGACAUG-----CCACCCAACUCGGGCCUCGAAUCCAGAAG-------CGAACCACAG--UUGCUCCUCCCAGGUCCGCACUGAUA
......(((((((((..(((....(((..((-----...(((.....)))...))..)))((.((-------(((.......--))))).))....)))..))))))))) ( -28.10)
>DroYak_CAF1 121162 88 - 1
AGCCAUUAUCAGUGCCUUUCACCU---------------CAGACCUCAAGCCUCGAACAUUGAACC-----UCGAACCACAG--UCCCUCCUCCCAGGACCGCACUGAUA
......(((((((((.........---------------.............((((..........-----))))......(--(((.........)))).))))))))) ( -18.00)
>DroAna_CAF1 110576 88 - 1
UACUAUUUUU--------C--CAAGGAC--CACCUAACAAUCCACUAU---UG-------CCAACAAGUAGUGCCACCAAAACGCCCCUUCUUUCAUGUUCGCAUUGAUA
..........--------.--.((((..--............((((((---(.-------......))))))).............))))...(((((....)).))).. (  -8.13)
>consensus
UGCCAUUAUCAGUGCCUUCCGCCAGGACAUGACCCACCACCCAACUCCAACCU_______CGAACC_____UGGAACCACAA__UCCCUCCUGCCAGGUCCGCACUGAUA
......(((((((((...((..(((((.............................................................)))))...))...))))))))) ( -9.37 = -10.98 +   1.61)

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 09:44:22 2006