Locus 392

Sequence ID X_DroMel_CAF1
Location 1,165,926 – 1,166,035
Length 109
Max. P 0.984522
window594 window595

overview

Window 4

Location 1,165,926 – 1,166,035
Length 109
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.32
Mean single sequence MFE -31.52
Consensus MFE -21.48
Energy contribution -21.16
Covariance contribution -0.32
Combinations/Pair 1.15
Mean z-score -3.13
Structure conservation index 0.68
SVM decision value 0.89
SVM RNA-class probability 0.876549
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1165926 109 + 22224390
GACAGCCGAACUGUCUA------UCGAACAACUUAAUUAGCUCUGGCAAAUCAGCCGCACACAACAGAC-----AAUUGUUAGUCCGCUCGAUAAGUUGUUCGGCAACAUGCACAUAGCC
(((((.....)))))..------.(((((((((((.(.(((...(((......)))..........(((-----........))).))).).)))))))))))((.....))........ ( -30.60)
>DroSec_CAF1 1995 115 + 1
AACAGUCGAACUGUCUAGUGUAAUCGAACAACUUAAUUAGCUCCGGAAAAUCAGCCGCACACAACAGAC-----AAUUGUUAGUCCGCUCAAUAAGUUGUUCGGAAACAUGCACAUAGCC
.((((.....))))((((((((...((((((((((.(.(((..(((........))).........(((-----........))).))).).))))))))))(....).))))).))).. ( -30.00)
>DroSim_CAF1 2598 115 + 1
AACAGUCGAACUGUCUAGUGUAAUCGAACAACUUAAUUAGCUCCGGCAAAUCAGCCGCACACAACAGAC-----AAUUGUUAGUCCGCUCAAUAAGUUGUUCGGAAACAUGCACAUAGCC
.((((.....))))((((((((...((((((((((.(.(((..((((......)))).........(((-----........))).))).).))))))))))(....).))))).))).. ( -33.80)
>DroEre_CAF1 1041 120 + 1
AACUGCCGAACAGUCUAGUAUAAUCGAACAACUUAAUUAGCUCUGGCAAAUCAGCCGCAAACAACGGACAAUACAAUUGUUAGUCCACUCAAUAAGUUGUUCGGAAACAUGCACAUAGCC
.((((.....))))...((((....((((((((((....((...(((......))))).......((((((((....)))).))))......))))))))))(....)))))........ ( -30.00)
>DroYak_CAF1 3238 115 + 1
AACAGCCGAACAGUCUAGUAUGAUCGAACAACUUAAUUAGCUCUGGCAAAUGAGCCGCAAACAACGGAC-----AAUUGUUGGUGCACUCGAUAAGUUGUUCGAAAACAUGCACAUAGCC
.................(((((.((((((((((((....((.(..((((.((..(((.......))).)-----).))))..).))......))))))))))))...)))))........ ( -33.20)
>consensus
AACAGCCGAACUGUCUAGUAUAAUCGAACAACUUAAUUAGCUCUGGCAAAUCAGCCGCACACAACAGAC_____AAUUGUUAGUCCGCUCAAUAAGUUGUUCGGAAACAUGCACAUAGCC
.((((.....)))).........((((((((((((.(.(((..((((......))))...(((((((.........))))).))..))).).))))))))))))......((.....)). (-21.48 = -21.16 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 5

Location 1,165,926 – 1,166,035
Length 109
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.32
Mean single sequence MFE -35.48
Consensus MFE -29.84
Energy contribution -29.56
Covariance contribution -0.28
Combinations/Pair 1.14
Mean z-score -2.15
Structure conservation index 0.84
SVM decision value 1.98
SVM RNA-class probability 0.984522
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1165926 109 - 22224390
GGCUAUGUGCAUGUUGCCGAACAACUUAUCGAGCGGACUAACAAUU-----GUCUGUUGUGUGCGGCUGAUUUGCCAGAGCUAAUUAAGUUGUUCGA------UAGACAGUUCGGCUGUC
(((.((......)).)))((((((((((...((((.(((((((...-----...))))).)).)(((......)))...)))...))))))))))..------..(((((.....))))) ( -37.90)
>DroSec_CAF1 1995 115 - 1
GGCUAUGUGCAUGUUUCCGAACAACUUAUUGAGCGGACUAACAAUU-----GUCUGUUGUGUGCGGCUGAUUUUCCGGAGCUAAUUAAGUUGUUCGAUUACACUAGACAGUUCGACUGUU
.((.....)).(((...(((((((((((...(((((((........-----)))))))....((..(((......))).))....)))))))))))...)))...(((((.....))))) ( -33.00)
>DroSim_CAF1 2598 115 - 1
GGCUAUGUGCAUGUUUCCGAACAACUUAUUGAGCGGACUAACAAUU-----GUCUGUUGUGUGCGGCUGAUUUGCCGGAGCUAAUUAAGUUGUUCGAUUACACUAGACAGUUCGACUGUU
.((.....)).(((...(((((((((((...(((((((........-----))))........((((......))))..)))...)))))))))))...)))...(((((.....))))) ( -37.30)
>DroEre_CAF1 1041 120 - 1
GGCUAUGUGCAUGUUUCCGAACAACUUAUUGAGUGGACUAACAAUUGUAUUGUCCGUUGUUUGCGGCUGAUUUGCCAGAGCUAAUUAAGUUGUUCGAUUAUACUAGACUGUUCGGCAGUU
.((.....)).......(((((((((((...(((((((..((....))...)))).........(((......)))...)))...))))))))))).........(((((.....))))) ( -34.30)
>DroYak_CAF1 3238 115 - 1
GGCUAUGUGCAUGUUUUCGAACAACUUAUCGAGUGCACCAACAAUU-----GUCCGUUGUUUGCGGCUCAUUUGCCAGAGCUAAUUAAGUUGUUCGAUCAUACUAGACUGUUCGGCUGUU
((((....(((.((((((((((((((((...((((((..((((((.-----....)))))))))(((......)))...)))...)))))))))))).......)))))))..))))... ( -34.91)
>consensus
GGCUAUGUGCAUGUUUCCGAACAACUUAUUGAGCGGACUAACAAUU_____GUCUGUUGUGUGCGGCUGAUUUGCCAGAGCUAAUUAAGUUGUUCGAUUACACUAGACAGUUCGGCUGUU
.((.....)).......(((((((((((...(((((((.............)))).........(((......)))...)))...))))))))))).........(((((.....))))) (-29.84 = -29.56 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:23 2006