Locus 3737

Sequence ID X_DroMel_CAF1
Location 9,952,274 – 9,952,390
Length 116
Max. P 0.972935
window6128 window6129

overview

Window 8

Location 9,952,274 – 9,952,390
Length 116
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 85.79
Mean single sequence MFE -28.79
Consensus MFE -28.02
Energy contribution -27.80
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -1.72
Structure conservation index 0.97
SVM decision value 1.70
SVM RNA-class probability 0.972935
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9952274 116 + 22224390
AUUCUUUUAGUGAUUUAUU----UUUUAUUUUUUCGUGUGUGUCACACGUGACCAAAAUUAGCCUCGAACUUUGGGGCGGGGGUCUCACUUUAAUUGACUUUAAUGUUUUGGCACGGCGA
.........(((((.(((.----..............))).))))).((((.(((((((..(((((((...))))))).((((((...........))))))...))))))))))).... ( -29.76)
>DroEre_CAF1 14896 103 + 1
AUUCUUUU------------UUAUU-----UUUUCGUGUGUGUCACACGUGACCAAAAUUAGCCUCGAACUUUGGGGCGGGGGUCUCAUUAUAAUUGACUUUAAUGUUUUGGCACGGCGA
........------------.....-----...(((((((...))).((((.(((((((..(((((((...))))))).((((((...........))))))...))))))))))))))) ( -28.50)
>DroYak_CAF1 14651 120 + 1
AUUCUUUUAGUAAUUUUCUUUUAUUUUUAUUUUUUGUGUGUGUCACACGUGACCAAAAUUAGCCUCGAACUUUGGGGCGGGGGUCUCACUAUAAUUGACUUUAAUGUUUUGGCACGGCGA
.........((.......................((((.....))))((((.(((((((..(((((((...))))))).((((((...........))))))...))))))))))))).. ( -28.10)
>consensus
AUUCUUUUAGU_AUUU__U_UUAUUUU__UUUUUCGUGUGUGUCACACGUGACCAAAAUUAGCCUCGAACUUUGGGGCGGGGGUCUCACUAUAAUUGACUUUAAUGUUUUGGCACGGCGA
.................................(((((((...))).((((.(((((((..(((((((...))))))).((((((...........))))))...))))))))))))))) (-28.02 = -27.80 +  -0.22)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 9

Location 9,952,274 – 9,952,390
Length 116
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 85.79
Mean single sequence MFE -20.10
Consensus MFE -19.90
Energy contribution -19.90
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.37
Structure conservation index 0.99
SVM decision value 1.52
SVM RNA-class probability 0.960679
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9952274 116 - 22224390
UCGCCGUGCCAAAACAUUAAAGUCAAUUAAAGUGAGACCCCCGCCCCAAAGUUCGAGGCUAAUUUUGGUCACGUGUGACACACACGAAAAAAUAAAA----AAUAAAUCACUAAAAGAAU
((((((((((((((.......(((...........)))....(((.(.......).)))...)))))).)))).))))...................----................... ( -19.90)
>DroEre_CAF1 14896 103 - 1
UCGCCGUGCCAAAACAUUAAAGUCAAUUAUAAUGAGACCCCCGCCCCAAAGUUCGAGGCUAAUUUUGGUCACGUGUGACACACACGAAAA-----AAUAA------------AAAAGAAU
(((((((((((((((((((..........)))))........(((.(.......).)))...)))))).)))).))))............-----.....------------........ ( -20.20)
>DroYak_CAF1 14651 120 - 1
UCGCCGUGCCAAAACAUUAAAGUCAAUUAUAGUGAGACCCCCGCCCCAAAGUUCGAGGCUAAUUUUGGUCACGUGUGACACACACAAAAAAUAAAAAUAAAAGAAAAUUACUAAAAGAAU
(((((((((((((((((((..........)))))........(((.(.......).)))...)))))).)))).)))).......................................... ( -20.20)
>consensus
UCGCCGUGCCAAAACAUUAAAGUCAAUUAUAGUGAGACCCCCGCCCCAAAGUUCGAGGCUAAUUUUGGUCACGUGUGACACACACGAAAAA__AAAAUAA_A__AAAU_ACUAAAAGAAU
((((((((((((((.......(((...........)))....(((.(.......).)))...)))))).)))).)))).......................................... (-19.90 = -19.90 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:01 2006