Locus 1511

Sequence ID X_DroMel_CAF1
Location 4,431,366 – 4,431,514
Length 148
Max. P 0.997314
window2442 window2443

overview

Window 2

Location 4,431,366 – 4,431,480
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.40
Mean single sequence MFE -26.38
Consensus MFE -19.94
Energy contribution -19.70
Covariance contribution -0.24
Combinations/Pair 1.05
Mean z-score -1.68
Structure conservation index 0.76
SVM decision value 0.25
SVM RNA-class probability 0.653193
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4431366 114 - 22224390
AACCACCCUGACAUCCAGAUUGCGAUCCGAGCGAAAGACUUGGGCUC-----AAUCGGUUGAUUUCUAUGGCAACUAUCUUUAUCUCCACUGGAAAUAAUAGUACACUUUAUAAG-AGUA
.............(((((((((.(.(((((((....).))))))).)-----))))((..(((......(....).......))).))..))))...........((((.....)-))). ( -25.52)
>DroSec_CAF1 33734 110 - 1
AACCACCCUGACAUCCAGAUUGCGAUCCGAGCGAAAGACUUGGACUC-----AAUCGGUUGAUUUCUAUGGCAACUAUCUUUAUCUCCUCUGGAAAUAAUAAU----AUUAAUAG-AGUA
...........((.((.(((((.(.(((((((....).))))))).)-----)))))).))..(((((((....)(((..((((.(((...))).))))..))----)...))))-)).. ( -26.40)
>DroSim_CAF1 35054 110 - 1
AACCACCCUGACAUCCAGAUUGCGAUCCGAGCGAAAGACUUGGACUC-----AAUCGGUUGAUUUCUAUGGCAACUAUCUUUAUCUCCACUGGAAAUAAUAAU----UUUAAUAG-AGUA
....((.(((.((.((.(((((.(.(((((((....).))))))).)-----)))))).))((((((((((...............))).)))))))......----.....)))-.)). ( -25.96)
>DroEre_CAF1 34716 107 - 1
AACCACCCUGACAUCCAGAUUGCGAUCCGAGCGAAAGACUUGGGCUCAAGCCAAUCGGUUGAUUUCUAUGGCAACUAUCUUUAUCUGCACUGGAAAUAAU-------------AUAAACU
.............(((((..((((((((((((....).)))))).))..((((...((......))..))))..............))))))))......-------------....... ( -25.50)
>DroYak_CAF1 33911 119 - 1
AACCACCCUGGCAUCCAGAUUGCGAUCCGAGCGAAAGACUUGGGCUCAAGUCAAUCGGUUGAUUUCUAUGGAAACUAUCUUUAUCUGCACUGGAAAUAAUAGUGCAC-UUAAUAAAAAUU
..(((..((((...)))).....(((((((((....).)))))).))(((((((....)))))))...))).........(((..(((((((.......))))))).-.)))........ ( -28.50)
>consensus
AACCACCCUGACAUCCAGAUUGCGAUCCGAGCGAAAGACUUGGGCUC_____AAUCGGUUGAUUUCUAUGGCAACUAUCUUUAUCUCCACUGGAAAUAAUAAU_____UUAAUAG_AGUA
.............(((((.....(((((((((....).)))))).))..........(..(((......(....).......)))..).))))).......................... (-19.94 = -19.70 +  -0.24)

alignment

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secondary structure

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dotplot

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Window 3

Location 4,431,405 – 4,431,514
Length 109
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.20
Mean single sequence MFE -35.46
Consensus MFE -29.45
Energy contribution -29.80
Covariance contribution 0.35
Combinations/Pair 1.06
Mean z-score -2.65
Structure conservation index 0.83
SVM decision value 2.84
SVM RNA-class probability 0.997314
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4431405 109 - 22224390
CCUAACGGUUGCCUGAA------UUCAAACAGGAGUUCCGAACCACCCUGACAUCCAGAUUGCGAUCCGAGCGAAAGACUUGGGCUC-----AAUCGGUUGAUUUCUAUGGCAACUAUCU
......(((((((.(((------.((((.((((.((........))))))....((.(((((.(.(((((((....).))))))).)-----)))))))))).)))...))))))).... ( -38.50)
>DroSec_CAF1 33769 115 - 1
CCUAACGGUUGCCUGAAUUCGAAUUCAAACAGGAGUUCCGAACCACCCUGACAUCCAGAUUGCGAUCCGAGCGAAAGACUUGGACUC-----AAUCGGUUGAUUUCUAUGGCAACUAUCU
......(((((((.(((.((((((((......))))))..((((....((.....))(((((.(.(((((((....).))))))).)-----)))))))))).)))...))))))).... ( -38.90)
>DroSim_CAF1 35089 115 - 1
CCUAACGGUUGCCUGAAUUCGAAUUCAAACAGGAGUUCCGAACCACCCUGACAUCCAGAUUGCGAUCCGAGCGAAAGACUUGGACUC-----AAUCGGUUGAUUUCUAUGGCAACUAUCU
......(((((((.(((.((((((((......))))))..((((....((.....))(((((.(.(((((((....).))))))).)-----)))))))))).)))...))))))).... ( -38.90)
>DroEre_CAF1 34743 114 - 1
CCUAACGGUUGCCUUAA------UUCAAACAGGAGUUCCGAACCACCCUGACAUCCAGAUUGCGAUCCGAGCGAAAGACUUGGGCUCAAGCCAAUCGGUUGAUUUCUAUGGCAACUAUCU
......(((((((....------......((((.((........)))))).((.((.(((((((((((((((....).)))))).))..).))))))).))........))))))).... ( -33.10)
>DroYak_CAF1 33950 114 - 1
CCUAACGGUUGCCUUAA------UUCAAACAGGAGUUUCGAACCACCCUGGCAUCCAGAUUGCGAUCCGAGCGAAAGACUUGGGCUCAAGUCAAUCGGUUGAUUUCUAUGGAAACUAUCU
.....((((((.(((..------......((((.((........))))))(((.......)))(((((((((....).)))))).))))).))))))............(....)..... ( -27.90)
>consensus
CCUAACGGUUGCCUGAA______UUCAAACAGGAGUUCCGAACCACCCUGACAUCCAGAUUGCGAUCCGAGCGAAAGACUUGGGCUC_____AAUCGGUUGAUUUCUAUGGCAACUAUCU
......((((((((((((....)))))...(((((((((((......(((.....))).....(((((((((....).)))))).)).......))))..)))))))..))))))).... (-29.45 = -29.80 +   0.35)

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 10:11:41 2006