Locus 7018

Sequence ID 2L_DroMel_CAF1
Location 19,568,648 – 19,568,792
Length 144
Max. P 0.984504
window11196 window11197 window11198

overview

Window 6

Location 19,568,648 – 19,568,752
Length 104
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 83.10
Mean single sequence MFE -30.92
Consensus MFE -21.98
Energy contribution -23.85
Covariance contribution 1.87
Combinations/Pair 1.03
Mean z-score -1.81
Structure conservation index 0.71
SVM decision value 0.49
SVM RNA-class probability 0.757195
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19568648 104 + 22407834
AAUGCGGCAUAAUAACAACAAAGUGGCGAGCGGCUUUCGAGCUCAUGCUGUAUG---UUGUUGUAUACCCGUUACUUGGAGAGUUAAUUGGGUAUACGGUGAUGGGC
.(((((((((....((......))...((((.........)))))))))))))(---(..(((((((((((..((((...))))....)))))))))))..)).... ( -34.30)
>DroSec_CAF1 8007 100 + 1
AAUGCGGCAUAAUAACAACAAU-------GCGGCUUUCGAGCUCAUGCUGUAUGUAGUUGUUGUAUACCCGUUACUGGGAGAGUUAAUUGGGUAUACGGUGAUGGGC
...((.((((..........))-------)).))......((((.(((.....)))((..(((((((((((..(((.....)))....)))))))))))..)))))) ( -30.20)
>DroEre_CAF1 9709 103 + 1
-AUGCGGCAUAAUAACAACAAAGCGGCGAGCGGCUUUCGAGCUCAUGCUGUAUGUAG---UUGUAUACCCGUUACUUAAAUAGUUAAUGGGGUAUACGGUGAUGGGC
-(((((((((............((.....))((((....)))).)))))))))((..---((((((((((((((((.....)).)))).))))))))))..)).... ( -29.30)
>DroYak_CAF1 9025 94 + 1
AAUGCGGCAU---AACAACAAAGCGGCGAGCGGCUUUCGAGCUCAC---GUAUGUAG---UUGUAUACCCGUUACUUAAAUAGUUAUUGGGGUAUACGGUG----CC
.....(((((---(((.(((..(((..((((.........)))).)---)).))).)---))((((((((...(((.....))).....)))))))).)))----)) ( -29.90)
>consensus
AAUGCGGCAUAAUAACAACAAAGCGGCGAGCGGCUUUCGAGCUCAUGCUGUAUGUAG___UUGUAUACCCGUUACUUAAAGAGUUAAUGGGGUAUACGGUGAUGGGC
.(((((((((............((.....))((((....)))).))))))))).......(((((((((((..(((.....)))....)))))))))))........ (-21.98 = -23.85 +   1.87)

alignment

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secondary structure

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dotplot

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Window 7

Location 19,568,648 – 19,568,752
Length 104
Sequences 4
Columns 107
Reading direction reverse
Mean pairwise identity 83.10
Mean single sequence MFE -26.35
Consensus MFE -18.25
Energy contribution -18.75
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.79
Structure conservation index 0.69
SVM decision value 1.98
SVM RNA-class probability 0.984504
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19568648 104 - 22407834
GCCCAUCACCGUAUACCCAAUUAACUCUCCAAGUAACGGGUAUACAACAA---CAUACAGCAUGAGCUCGAAAGCCGCUCGCCACUUUGUUGUUAUUAUGCCGCAUU
((........((((((((.....(((.....)))...))))))))(((((---((....((..((((.(....)..)))))).....)))))))........))... ( -27.10)
>DroSec_CAF1 8007 100 - 1
GCCCAUCACCGUAUACCCAAUUAACUCUCCCAGUAACGGGUAUACAACAACUACAUACAGCAUGAGCUCGAAAGCCGC-------AUUGUUGUUAUUAUGCCGCAUU
((........((((((((.....(((.....)))...))))))))...........((((((...((.(....)..))-------..)))))).........))... ( -20.90)
>DroEre_CAF1 9709 103 - 1
GCCCAUCACCGUAUACCCCAUUAACUAUUUAAGUAACGGGUAUACAA---CUACAUACAGCAUGAGCUCGAAAGCCGCUCGCCGCUUUGUUGUUAUUAUGCCGCAU-
((........((((((((.....(((.....)))...))))))))((---(.(((...(((.(((((.(....)..)))))..))).))).)))........))..- ( -26.60)
>DroYak_CAF1 9025 94 - 1
GG----CACCGUAUACCCCAAUAACUAUUUAAGUAACGGGUAUACAA---CUACAUAC---GUGAGCUCGAAAGCCGCUCGCCGCUUUGUUGUU---AUGCCGCAUU
((----((..((((((((.....(((.....)))...))))))))((---(.(((...---((((((.(....)..)))))).....))).)))---.))))..... ( -30.80)
>consensus
GCCCAUCACCGUAUACCCAAUUAACUAUCCAAGUAACGGGUAUACAA___CUACAUACAGCAUGAGCUCGAAAGCCGCUCGCCGCUUUGUUGUUAUUAUGCCGCAUU
..........((((((((.....(((.....)))...))))))))..................((((.(....)..)))).......(((.((......)).))).. (-18.25 = -18.75 +   0.50)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,568,676 – 19,568,792
Length 116
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 81.15
Mean single sequence MFE -27.12
Consensus MFE -20.99
Energy contribution -23.30
Covariance contribution 2.31
Combinations/Pair 1.15
Mean z-score -2.11
Structure conservation index 0.77
SVM decision value 1.34
SVM RNA-class probability 0.943644
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19568676 116 - 22407834
AUUAUGCAAAGUGUAUUUUGGAAAAAUUCUUUGCCUAAGAGCCCAUCACCGUAUACCCAAUUAACUCUCCAAGUAACGGGUAUACAACAA---CAUACAGCAUGAGCUCGAAAGCCGCU
.((((((....(((((.(((((....(((((.....)))))....))...((((((((.....(((.....)))...))))))))..)))---.)))))))))))((.(....)..)). ( -26.00)
>DroSec_CAF1 8029 118 - 1
GUUAUGCAAAGUGUAUGUUUGAAAAAUACUUUGUCUAAGGGCCCAUCACCGUAUACCCAAUUAACUCUCCCAGUAACGGGUAUACAACAACUACAUACAGCAUGAGCUCGAAAGCCGC-
.((((((....((((((((((.................((........))((((((((.....(((.....)))...))))))))..)))..)))))))))))))(((....)))...- ( -27.10)
>DroEre_CAF1 9736 116 - 1
CUUAUGCUAAGUAUUUGUUUGAAAAAUACUUUGUGUGAGGGCCCAUCACCGUAUACCCCAUUAACUAUUUAAGUAACGGGUAUACAA---CUACAUACAGCAUGAGCUCGAAAGCCGCU
((((((((((((((((.......)))))))).(((((.((........))((((((((.....(((.....)))...))))))))..---...)))))))))))))..(....)..... ( -33.50)
>DroYak_CAF1 9050 105 - 1
CUUAUGCAAAGUAUUUGAUUAAAAAAAUC----UGUGAGGGG----CACCGUAUACCCCAAUAACUAUUUAAGUAACGGGUAUACAA---CUACAUAC---GUGAGCUCGAAAGCCGCU
..........((((..((((.....))))----.(((.((..----..))((((((((.....(((.....)))...))))))))..---.)))))))---(((.(((....)))))). ( -21.90)
>consensus
CUUAUGCAAAGUAUAUGUUUGAAAAAUACUUUGUCUAAGGGCCCAUCACCGUAUACCCAAUUAACUAUCCAAGUAACGGGUAUACAA___CUACAUACAGCAUGAGCUCGAAAGCCGCU
.(((((((((((((((.......)))))))))))))))((((........((((((((.....(((.....)))...))))))))........(((.....))).)))).......... (-20.99 = -23.30 +   2.31)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:25 2006