Locus 4661

Sequence ID 3L_DroMel_CAF1
Location 13,192,854 – 13,192,968
Length 114
Max. P 0.684997
window7330 window7331

overview

Window 0

Location 13,192,854 – 13,192,968
Length 114
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 89.19
Mean single sequence MFE -32.36
Consensus MFE -27.72
Energy contribution -27.64
Covariance contribution -0.08
Combinations/Pair 1.12
Mean z-score -1.41
Structure conservation index 0.86
SVM decision value 0.31
SVM RNA-class probability 0.684997
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13192854 114 + 23771897
CUUAGGGUCUUGAACCACCUAACCUUUGUUACACAACCCU---GCCCUUCUGGGGUCACCGACCCUCGACGAACAAGUGUCGUUGCGUUGCACACAUGACACGAGAUCGUUUGGCCC
...(((((..(((((............))).))..)))))---(((.....((((((...)))))).(((((.(..((((((((((...)))...)))))))..).))))).))).. ( -32.40)
>DroSec_CAF1 44129 107 + 1
CUGAGGGCCUUGACC--CCUAACCUUUGUUACACAACCCU---GCCCUUCUAGGGUCACCGACCCUCGACGAACAAGUGUCGU-----UGCACACAUGACACGAGAUCGUCUGGCCC
..((((((..(((((--(.((((....))))..((....)---)........))))))..).)))))(((((.(..(((((((-----.......)))))))..).)))))...... ( -33.20)
>DroSim_CAF1 42557 107 + 1
CUUAGGGCCUUGACC--CCUAACCUUUGUUAUACAACCCU---GCCCUUCUGGGGUCACCGACCCUCGACGAACAAGUGUCGU-----UGCACACAUGACACGAGAUCGUUUGGCCC
....(((((.(((((--((.....................---........))))))).........(((((.(..(((((((-----.......)))))))..).))))).))))) ( -33.95)
>DroEre_CAF1 47824 107 + 1
CCAAGGGCCUUGACC--CCUAACCUUUGUUACACACGCCG---CCCCCUCUGGGGUCGCCGACCCUUGACGAACAAGUGUCGU-----UGCACACAUGACACGAGAUCGUUGGGCCC
....((((((.....--...................((.(---((((....))))).))........(((((.(..(((((((-----.......)))))))..).))))))))))) ( -35.00)
>DroYak_CAF1 43916 110 + 1
CCAAGGGCCUUGACC--CCUAACCUUUGCUACACACCCCUGCUGCCCUUCUGAGGUCACCGACCCUCGACGAACAAGUGUCGU-----UGCACACAUGACACGAGAUCGCUUGGCCC
....(((((.(((((--.(........((..((......))..))......).))))).........(.(((.(..(((((((-----.......)))))))..).))))..))))) ( -27.24)
>consensus
CUAAGGGCCUUGACC__CCUAACCUUUGUUACACAACCCU___GCCCUUCUGGGGUCACCGACCCUCGACGAACAAGUGUCGU_____UGCACACAUGACACGAGAUCGUUUGGCCC
....(((((..........................................((((((...)))))).(((((.(..(((((((............)))))))..).))))).))))) (-27.72 = -27.64 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 1

Location 13,192,854 – 13,192,968
Length 114
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 89.19
Mean single sequence MFE -42.04
Consensus MFE -30.15
Energy contribution -30.67
Covariance contribution 0.52
Combinations/Pair 1.09
Mean z-score -1.68
Structure conservation index 0.72
SVM decision value -0.04
SVM RNA-class probability 0.510860
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13192854 114 - 23771897
GGGCCAAACGAUCUCGUGUCAUGUGUGCAACGCAACGACACUUGUUCGUCGAGGGUCGGUGACCCCAGAAGGGC---AGGGUUGUGUAACAAAGGUUAGGUGGUUCAAGACCCUAAG
((((((...(((((..(((..((((.....))))(((((.(((((((.((..(((((...)))))..)).))))---))))))))...))).)))))...))))))........... ( -38.00)
>DroSec_CAF1 44129 107 - 1
GGGCCAGACGAUCUCGUGUCAUGUGUGCA-----ACGACACUUGUUCGUCGAGGGUCGGUGACCCUAGAAGGGC---AGGGUUGUGUAACAAAGGUUAGG--GGUCAAGGCCCUCAG
(((((....((((((....(...(((...-----(((((.(((((((.((.((((((...)))))).)).))))---))))))))...)))...)...))--))))..))))).... ( -45.80)
>DroSim_CAF1 42557 107 - 1
GGGCCAAACGAUCUCGUGUCAUGUGUGCA-----ACGACACUUGUUCGUCGAGGGUCGGUGACCCCAGAAGGGC---AGGGUUGUAUAACAAAGGUUAGG--GGUCAAGGCCCUAAG
(((((....((((((....(...(((...-----(((((.(((((((.((..(((((...)))))..)).))))---))))))))...)))...)...))--))))..))))).... ( -43.50)
>DroEre_CAF1 47824 107 - 1
GGGCCCAACGAUCUCGUGUCAUGUGUGCA-----ACGACACUUGUUCGUCAAGGGUCGGCGACCCCAGAGGGGG---CGGCGUGUGUAACAAAGGUUAGG--GGUCAAGGCCCUUGG
(((((....((((((.(((.(((..(((.-----.((((.((((.....)))).)))).((.((((....))))---)))))..))).))).......))--))))..))))).... ( -42.90)
>DroYak_CAF1 43916 110 - 1
GGGCCAAGCGAUCUCGUGUCAUGUGUGCA-----ACGACACUUGUUCGUCGAGGGUCGGUGACCUCAGAAGGGCAGCAGGGGUGUGUAGCAAAGGUUAGG--GGUCAAGGCCCUUGG
(((((...((((((((((.((.((((...-----...)))).))..)).))).))))).(((((((.((...((.(((......))).)).....)).))--))))).))))).... ( -40.00)
>consensus
GGGCCAAACGAUCUCGUGUCAUGUGUGCA_____ACGACACUUGUUCGUCGAGGGUCGGUGACCCCAGAAGGGC___AGGGUUGUGUAACAAAGGUUAGG__GGUCAAGGCCCUAAG
(((((..(((((((.(((((................)))))..((((.((..(((((...)))))..)).))))....))))))).((((....))))..........))))).... (-30.15 = -30.67 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:57 2006