Locus 6496

Sequence ID X_DroMel_CAF1
Location 16,295,819 – 16,295,925
Length 106
Max. P 0.987616
window10609 window10610

overview

Window 9

Location 16,295,819 – 16,295,925
Length 106
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.93
Mean single sequence MFE -20.68
Consensus MFE -5.90
Energy contribution -6.26
Covariance contribution 0.36
Combinations/Pair 1.21
Mean z-score -2.15
Structure conservation index 0.29
SVM decision value 0.56
SVM RNA-class probability 0.783453
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16295819 106 + 22224390
UGCGAA-AAUAGAGCACUUUGAAAACAAAAACUUGUUCAAAU-U-----GUUCACUCGUUUUCGUAUCUCUAUUUGC----UGUUUUUUUUUCUUU---UAUUUUGUGCUAGGCACAAAC
((((((-(((.(((((.(((((..((((....))))))))).-)-----))))....)))))))))...........----...............---...(((((((...))))))). ( -23.10)
>DroPse_CAF1 11374 99 + 1
UGUGAAAAAUAGAGCACAUUGAAAUUAA-AACCUCUUAACAUUUGUUUUGUUCA---GUUUUUGAAUUUCAAUU-AU----UGUUUUUUGU--UUUGGUUUUUGUGUGCU----------
............(((((((.((((((((-(((.....((((.(((....(((((---(...))))))..)))..-..----))))....))--))))))))).)))))))---------- ( -23.30)
>DroSec_CAF1 10397 103 + 1
UGCGAA-AAUAGAGCACU-UGAAAACAAAAACUUGUUCAAAU-U-----GUUCACUCGUUUUCGUAUCUCUAUUUGC----UGUUUUUUUU--UUU---UAUUUUGUGCUAGGCACAAAC
((((((-(((.(((((.(-(((..((((....))))))))..-)-----))))....)))))))))...........----..........--...---...(((((((...))))))). ( -20.20)
>DroEre_CAF1 11069 103 + 1
UGUGAA-AAUAGAGCACUUUGAAAACAAAAACUUGUUCAAAU-U-----GUUCACUCAUUUUCGUAUCUCGAUUUGC----UGCUUUUU-U--UUU---UAUUUUGUGCUAGGCACAAAC
.(..((-....(((((.(((((..((((....))))))))).-)-----))))........(((.....)))))..)----........-.--...---...(((((((...))))))). ( -19.50)
>DroYak_CAF1 10413 108 + 1
UGUGAA-AAUAGAGCACUUUGAAAACAAAAACUUGUUCAAAUUU-----GUUCACUCGUUUUCGUAUCUCUAUUUGCAAUAUAUUUUUU-U--UUU---AAUUCCGUGCUAUGCACAAAC
((((..-.....(((((.(((((((.(((((..(((((((((..-----.......((....)).......))))).))))..))))))-)--)))---))....)))))...))))... ( -17.29)
>consensus
UGUGAA_AAUAGAGCACUUUGAAAACAAAAACUUGUUCAAAU_U_____GUUCACUCGUUUUCGUAUCUCUAUUUGC____UGUUUUUU_U__UUU___UAUUUUGUGCUAGGCACAAAC
............(((((...((((((...............................))))))(((........)))............................))))).......... ( -5.90 =  -6.26 +   0.36)

alignment

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secondary structure

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dotplot

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Window 0

Location 16,295,819 – 16,295,925
Length 106
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.93
Mean single sequence MFE -20.72
Consensus MFE -10.47
Energy contribution -11.67
Covariance contribution 1.20
Combinations/Pair 1.29
Mean z-score -2.73
Structure conservation index 0.51
SVM decision value 2.09
SVM RNA-class probability 0.987616
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16295819 106 - 22224390
GUUUGUGCCUAGCACAAAAUA---AAAGAAAAAAAAACA----GCAAAUAGAGAUACGAAAACGAGUGAAC-----A-AUUUGAACAAGUUUUUGUUUUCAAAGUGCUCUAUU-UUCGCA
.(((((((...)))))))...---...............----((((((((((.(((((((((((..((((-----.-..........))))))))))))...))))))))))-)..)). ( -23.40)
>DroPse_CAF1 11374 99 - 1
----------AGCACACAAAAACCAAA--ACAAAAAACA----AU-AAUUGAAAUUCAAAAAC---UGAACAAAACAAAUGUUAAGAGGUU-UUAAUUUCAAUGUGCUCUAUUUUUCACA
----------((((((...........--..........----..-..((((((((..(((((---(.((((.......))))....))))-))))))))))))))))............ ( -14.11)
>DroSec_CAF1 10397 103 - 1
GUUUGUGCCUAGCACAAAAUA---AAA--AAAAAAAACA----GCAAAUAGAGAUACGAAAACGAGUGAAC-----A-AUUUGAACAAGUUUUUGUUUUCA-AGUGCUCUAUU-UUCGCA
.(((((((...)))))))...---...--..........----((((((((((.(((((((((((..((((-----.-..........)))))))))))).-.))))))))))-)..)). ( -23.80)
>DroEre_CAF1 11069 103 - 1
GUUUGUGCCUAGCACAAAAUA---AAA--A-AAAAAGCA----GCAAAUCGAGAUACGAAAAUGAGUGAAC-----A-AUUUGAACAAGUUUUUGUUUUCAAAGUGCUCUAUU-UUCACA
.(((((((...)))))))...---...--(-(((.((.(----(((....((((.((((((((..((....-----.-......))..))))))))))))....)))))).))-)).... ( -20.10)
>DroYak_CAF1 10413 108 - 1
GUUUGUGCAUAGCACGGAAUU---AAA--A-AAAAAAUAUAUUGCAAAUAGAGAUACGAAAACGAGUGAAC-----AAAUUUGAACAAGUUUUUGUUUUCAAAGUGCUCUAUU-UUCACA
.(((((((...)))))))...---...--.-...........((.((((((((.((((((((((((....)-----((((((....))))))))))))))...))))))))))-).)).. ( -22.20)
>consensus
GUUUGUGCCUAGCACAAAAUA___AAA__A_AAAAAACA____GCAAAUAGAGAUACGAAAACGAGUGAAC_____A_AUUUGAACAAGUUUUUGUUUUCAAAGUGCUCUAUU_UUCACA
.(((((((...))))))).........................(((....((((.((((((((..((.................))..))))))))))))....)))............. (-10.47 = -11.67 +   1.20)

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 12:15:17 2006