Locus 6296

Sequence ID 2L_DroMel_CAF1
Location 17,534,752 – 17,534,871
Length 119
Max. P 0.999568
window10056 window10057

overview

Window 6

Location 17,534,752 – 17,534,871
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 92.77
Mean single sequence MFE -25.05
Consensus MFE -22.48
Energy contribution -23.52
Covariance contribution 1.04
Combinations/Pair 1.06
Mean z-score -1.19
Structure conservation index 0.90
SVM decision value 0.19
SVM RNA-class probability 0.623968
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17534752 119 + 22407834
GCCAAAUGGAAUAGAUGGAAAAAUCGAAUUUAAUUCGCUUGACUUGGUCAACCGAAAAUGCCGAAAAUUAAGUCAUAUGUUUCAGUUCCCACCUAUUGAACCCAUUUGUAGCCGCUCGC
((((((((((((((.(((......(((((...)))))..(((((((((....((.......))...))))))))).............))).)))))....)))))))..))....... ( -22.80)
>DroSec_CAF1 51877 119 + 1
GCCAAAUGGAAUAGAUGGAAAAAUCGAAUUUAAUUCGCGUGACUUAGUCAACCGAAAAUGCCGAAAAUUAAGUCAUAUAUUUCGGUUCCCACCUAUUGAACCCAUUUGUAGCCGCUCGC
((((((((((((((.(((...(((((((..........((((((((((....((.......))...))))))))))....))))))).))).)))))....)))))))..))....... ( -25.94)
>DroSim_CAF1 51018 119 + 1
GCCAAAUGGAAUAGAUGGAAAAAUCGAAUUUAAUUCGCUUGACUUAGUCAACCGAAAAUGCCGAAAAUUAAGUCAUAUGUUUCGGUUCCCACCUAUUGAACCCAUUUGUAGCCGCUCGC
((((((((((((((.(((...............((((.(((((...))))).))))...(((((((..((.....))..)))))))..))).)))))....)))))))..))....... ( -27.30)
>DroEre_CAF1 53043 109 + 1
GCCAAAUGGAAUAGAUGGAAAAAUCGAAUUUAAUUCACUUGACUUAGUCAACCGAAAAUGCCGAAAAUUAAGUCAUAUGUUUCGGUUCCCACCUAUUCAAACCA----------CUCGU
........((((((.(((...(((((((.......((..(((((((((....((.......))...)))))))))..)).))))))).))).))))))......----------..... ( -23.60)
>DroYak_CAF1 52925 119 + 1
GCCAAAUGGAAUAGAUGGAAAAAUCGAAUUUAAUUCACUUGACUUAGUCAACCGAAAAUGCCGAAAAUGAAGUCAUAUGUUUCGGUUCCCACCUAUUGAACCCAUUUGCAGCCCCUCGU
((((((((((((((.(((...............(((..(((((...)))))..)))...((((((((((....)))...)))))))..))).)))))....)))))))..))....... ( -25.60)
>consensus
GCCAAAUGGAAUAGAUGGAAAAAUCGAAUUUAAUUCGCUUGACUUAGUCAACCGAAAAUGCCGAAAAUUAAGUCAUAUGUUUCGGUUCCCACCUAUUGAACCCAUUUGUAGCCGCUCGC
..((((((((((((.(((...(((((((.......((..(((((((((....((.......))...)))))))))..)).))))))).))).)))))....)))))))........... (-22.48 = -23.52 +   1.04)

alignment

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secondary structure

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dotplot

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Window 7

Location 17,534,752 – 17,534,871
Length 119
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 92.77
Mean single sequence MFE -33.58
Consensus MFE -30.60
Energy contribution -31.20
Covariance contribution 0.60
Combinations/Pair 1.06
Mean z-score -2.34
Structure conservation index 0.91
SVM decision value 3.73
SVM RNA-class probability 0.999568
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17534752 119 - 22407834
GCGAGCGGCUACAAAUGGGUUCAAUAGGUGGGAACUGAAACAUAUGACUUAAUUUUCGGCAUUUUCGGUUGACCAAGUCAAGCGAAUUAAAUUCGAUUUUUCCAUCUAUUCCAUUUGGC
((.....))..((((((((....(((((((((((((((((..((.....))..))))))....((((.(((((...))))).))))............))))))))))))))))))).. ( -33.00)
>DroSec_CAF1 51877 119 - 1
GCGAGCGGCUACAAAUGGGUUCAAUAGGUGGGAACCGAAAUAUAUGACUUAAUUUUCGGCAUUUUCGGUUGACUAAGUCACGCGAAUUAAAUUCGAUUUUUCCAUCUAUUCCAUUUGGC
((.....))..((((((((....(((((((((((..........(((((((....(((((.......))))).)))))))..(((((...)))))...))))))))))))))))))).. ( -32.60)
>DroSim_CAF1 51018 119 - 1
GCGAGCGGCUACAAAUGGGUUCAAUAGGUGGGAACCGAAACAUAUGACUUAAUUUUCGGCAUUUUCGGUUGACUAAGUCAAGCGAAUUAAAUUCGAUUUUUCCAUCUAUUCCAUUUGGC
((.....))..((((((((....(((((((((((((((((..((.....))..))))))....((((.(((((...))))).))))............))))))))))))))))))).. ( -35.20)
>DroEre_CAF1 53043 109 - 1
ACGAG----------UGGUUUGAAUAGGUGGGAACCGAAACAUAUGACUUAAUUUUCGGCAUUUUCGGUUGACUAAGUCAAGUGAAUUAAAUUCGAUUUUUCCAUCUAUUCCAUUUGGC
.((((----------(((....((((((((((((((((((..((.....))..))))))....((((.(((((...))))).))))............))))))))))))))))))).. ( -32.60)
>DroYak_CAF1 52925 119 - 1
ACGAGGGGCUGCAAAUGGGUUCAAUAGGUGGGAACCGAAACAUAUGACUUCAUUUUCGGCAUUUUCGGUUGACUAAGUCAAGUGAAUUAAAUUCGAUUUUUCCAUCUAUUCCAUUUGGC
...........((((((((....(((((((((((((((((...(((....)))))))))....((((.(((((...))))).))))............))))))))))))))))))).. ( -34.50)
>consensus
GCGAGCGGCUACAAAUGGGUUCAAUAGGUGGGAACCGAAACAUAUGACUUAAUUUUCGGCAUUUUCGGUUGACUAAGUCAAGCGAAUUAAAUUCGAUUUUUCCAUCUAUUCCAUUUGGC
...........(((((((....((((((((((((((((((.............))))))....((((.(((((...))))).))))............))))))))))))))))))).. (-30.60 = -31.20 +   0.60)

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 12:07:31 2006