Locus 7298

Sequence ID 3L_DroMel_CAF1
Location 19,530,375 – 19,530,480
Length 105
Max. P 0.998582
window11860 window11861

overview

Window 0

Location 19,530,375 – 19,530,480
Length 105
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 89.48
Mean single sequence MFE -35.80
Consensus MFE -34.00
Energy contribution -34.00
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -3.89
Structure conservation index 0.95
SVM decision value 3.15
SVM RNA-class probability 0.998582
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19530375 105 + 23771897
UC---UAUAUACAGGGUGCUAUGUUGUCUUUGGUUAUCUAGCUGUAUGAGUGAUAAAUAACGUCAUAAAGCUAGCUUACCGAAGUUAAUAUUAGCGUCUGCCCAGC------------GA
..---........(((((((((((((.(((((((...((((((.(((((((........)).))))).))))))...))))))).))))).))))....))))...------------.. ( -35.90)
>DroSec_CAF1 770 105 + 1
UC---UAUAUACAGGGUGCUAUGUUGUCUUUGGUUAUCUAGCUGUAUGAGUGAUAAAUAACGUCAUAAAGCUAGCUUACCGAAGUUAAUAUUAGCGUCUGACCAGC------------GA
..---........((..(((((((((.(((((((...((((((.(((((((........)).))))).))))))...))))))).))))).))))..)).......------------.. ( -34.00)
>DroWil_CAF1 10509 120 + 1
CCUCGCAUAUACAGGGUGCUAUGUUGUCUUUGGUUAUCUAGCUGUAUGAGUGAUACAUAACGUCAUAAAGCUAGCUUACCGAAGUUAAUAUUAGCGUCUGUUCAUCAGUCAUGUGAACGA
..((((((.........(((((((((.(((((((...((((((.(((((((........)).))))).))))))...))))))).))))).))))(.(((.....))).))))))).... ( -39.30)
>DroYak_CAF1 14229 103 + 1
UC---UA--UACAGGGUGCUAUGUUGUCUUUGGUUAUCUAGCUGUAUGAGUGAUAAAUAACGUCAUAAAGCUAGCUUACCGAAGUUAAUAUUAGCGUCUGACCAGC------------GA
..---..--....((..(((((((((.(((((((...((((((.(((((((........)).))))).))))))...))))))).))))).))))..)).......------------.. ( -34.00)
>consensus
UC___UAUAUACAGGGUGCUAUGUUGUCUUUGGUUAUCUAGCUGUAUGAGUGAUAAAUAACGUCAUAAAGCUAGCUUACCGAAGUUAAUAUUAGCGUCUGACCAGC____________GA
.............((..(((((((((.(((((((...((((((.(((((((........)).))))).))))))...))))))).))))).))))..))..................... (-34.00 = -34.00 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,530,375 – 19,530,480
Length 105
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 89.48
Mean single sequence MFE -25.87
Consensus MFE -22.55
Energy contribution -22.54
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.39
Structure conservation index 0.87
SVM decision value 1.82
SVM RNA-class probability 0.978607
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19530375 105 - 23771897
UC------------GCUGGGCAGACGCUAAUAUUAACUUCGGUAAGCUAGCUUUAUGACGUUAUUUAUCACUCAUACAGCUAGAUAACCAAAGACAACAUAGCACCCUGUAUAUA---GA
..------------.(((.((((..((((.......(((.(((...((((((.(((((.((........))))))).))))))...))).)))......))))...))))...))---). ( -26.72)
>DroSec_CAF1 770 105 - 1
UC------------GCUGGUCAGACGCUAAUAUUAACUUCGGUAAGCUAGCUUUAUGACGUUAUUUAUCACUCAUACAGCUAGAUAACCAAAGACAACAUAGCACCCUGUAUAUA---GA
..------------.(((..(((..((((.......(((.(((...((((((.(((((.((........))))))).))))))...))).)))......))))...)))....))---). ( -24.22)
>DroWil_CAF1 10509 120 - 1
UCGUUCACAUGACUGAUGAACAGACGCUAAUAUUAACUUCGGUAAGCUAGCUUUAUGACGUUAUGUAUCACUCAUACAGCUAGAUAACCAAAGACAACAUAGCACCCUGUAUAUGCGAGG
..(((((((....)).)))))....((((.......(((.(((...((((((.(((((.((........))))))).))))))...))).)))......)))).((.(((....))).)) ( -28.12)
>DroYak_CAF1 14229 103 - 1
UC------------GCUGGUCAGACGCUAAUAUUAACUUCGGUAAGCUAGCUUUAUGACGUUAUUUAUCACUCAUACAGCUAGAUAACCAAAGACAACAUAGCACCCUGUA--UA---GA
..------------.(((..(((..((((.......(((.(((...((((((.(((((.((........))))))).))))))...))).)))......))))...)))..--))---). ( -24.42)
>consensus
UC____________GCUGGUCAGACGCUAAUAUUAACUUCGGUAAGCUAGCUUUAUGACGUUAUUUAUCACUCAUACAGCUAGAUAACCAAAGACAACAUAGCACCCUGUAUAUA___GA
....................(((..((((.......(((.(((...((((((.(((((.((........))))))).))))))...))).)))......))))...)))........... (-22.55 = -22.54 +  -0.00)

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 12:43:25 2006