Locus 5507

Sequence ID 2R_DroMel_CAF1
Location 17,656,134 – 17,656,290
Length 156
Max. P 0.834691
window8811 window8812

overview

Window 1

Location 17,656,134 – 17,656,250
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.29
Mean single sequence MFE -23.90
Consensus MFE -19.35
Energy contribution -19.86
Covariance contribution 0.51
Combinations/Pair 1.04
Mean z-score -1.69
Structure conservation index 0.81
SVM decision value 0.43
SVM RNA-class probability 0.733432
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17656134 116 - 20766785
GUUUCUGCACGCUGUUGCACUAAUGCAACCGGUUGCAGUCGCAGUCUGCAGUCCAGCGGAAAACGAAAAG--AAAA--AAACUCAAAAUGAAACCGAAAAACAUGGAAAAAGAAAACCCC
(((((((((.(((((((((....))))).)))))))).(((...(((((......)))))...)))....--....--...........))))).......................... ( -25.10)
>DroSec_CAF1 9679 114 - 1
GUUUCUG----CUGUUGCACUAAUGCAACCGGUUGCAGUCGCAGUCUGCAGUCCAGCGGAAAACGAAAAA--AAAAGCAAACUCAAAAUGAAACCGAAAAACAUGGAAAAAGAAAACCCC
.((((((----((((((((....)))))).((((((((.......)))))).))))))))))........--.....................(((.......))).............. ( -25.70)
>DroSim_CAF1 15626 120 - 1
GUUUCUGCACGCUGUUGCACUAAUGCAACCGGUUGCAGUCGCAGUCUGCAGUCCAGCGGAAAACGAAAAACAAAAAACAAACUCAAAAUGAAACCGAAAAACAUGGAAAAAGAAAACCCC
(((((((((.(((((((((....))))).)))))))).(((...(((((......)))))...))).......................))))).......................... ( -25.10)
>DroEre_CAF1 9924 110 - 1
GUUUCUGCGCGCUGUUGCACUAAUGCAACCGGUUGCAGUCGCUGUCUGCAGUCUGGCA-AAAACGAAAA------AAUAAACUCAAAAUGAAACCGAAAAACAUGGAAAAAGAAAAC---
((((.(((.....((((((....))))))(((((((((.......)))))).))))))-.)))).....------..................(((.......)))...........--- ( -22.50)
>DroYak_CAF1 21385 100 - 1
GUUUCGGAGCGCUGUUGCACUAAUGCAACCGGUUGCAG------UCUGCAGUCUAGCA-AAA-------------AAAAAUCUCAAAAUGAAACCGAAAAAAAUGGAAAAAGAAAACCCC
.((((((...(((((((((....)))))).(..(((..------...)))..).))).-...-------------.....((.......))..))))))..................... ( -21.10)
>consensus
GUUUCUGCACGCUGUUGCACUAAUGCAACCGGUUGCAGUCGCAGUCUGCAGUCCAGCGGAAAACGAAAA___AAAAACAAACUCAAAAUGAAACCGAAAAACAUGGAAAAAGAAAACCCC
.(((((.....((((((((....))))))(((((....(((...(((((......)))))...)))................((.....)))))))........))....)))))..... (-19.35 = -19.86 +   0.51)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,656,174 – 17,656,290
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.71
Mean single sequence MFE -27.97
Consensus MFE -21.14
Energy contribution -21.10
Covariance contribution -0.04
Combinations/Pair 1.05
Mean z-score -1.97
Structure conservation index 0.76
SVM decision value 0.73
SVM RNA-class probability 0.834691
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17656174 116 - 20766785
UCUAAUAAAAAUAAUACGAAAAUUGGUUGCAUGUGCUAAUGUUUCUGCACGCUGUUGCACUAAUGCAACCGGUUGCAGUCGCAGUCUGCAGUCCAGCGGAAAACGAAAAG--AAAA--AA
(((.............(...((((((((((((((((..........))))((....))....))))))))))))...)(((...(((((......)))))...)))..))--)...--.. ( -32.30)
>DroSec_CAF1 9719 114 - 1
UCUAAUAAAAAUAAUACGAAAAUUUGUUGCAUGUGCUAAUGUUUCUG----CUGUUGCACUAAUGCAACCGGUUGCAGUCGCAGUCUGCAGUCCAGCGGAAAACGAAAAA--AAAAGCAA
......................((((((((((......))))(((((----((((((((....)))))).((((((((.......)))))).)))))))))))))))...--........ ( -29.30)
>DroSim_CAF1 15666 120 - 1
UCUAAUAAAAAUAAUACGAAAAUUUGUUGCAUGUGCUAAUGUUUCUGCACGCUGUUGCACUAAUGCAACCGGUUGCAGUCGCAGUCUGCAGUCCAGCGGAAAACGAAAAACAAAAAACAA
.......................(((((...(((.......(((((((.....((((((....)))))).((((((((.......)))))).)).))))))).......)))...))))) ( -30.04)
>DroEre_CAF1 9961 113 - 1
UCUAAUAAAAAUAGUACGAAAAUUUGUUGCAUGUGCUAAUGUUUCUGCGCGCUGUUGCACUAAUGCAACCGGUUGCAGUCGCUGUCUGCAGUCUGGCA-AAAACGAAAA------AAUAA
...........(((((((..((....))...))))))).(((((.(((.....((((((....))))))(((((((((.......)))))).))))))-.)))))....------..... ( -27.00)
>DroYak_CAF1 21425 100 - 1
UCUAAUAAAAAUACUACGAAAAUAUGUUGCAUGUGCUAAUGUUUCGGAGCGCUGUUGCACUAAUGCAACCGGUUGCAG------UCUGCAGUCUAGCA-AAA-------------AAAAA
.............((.(((((.(((...((....))..)))))))).)).(((((((((....)))))).(..(((..------...)))..).))).-...-------------..... ( -21.20)
>consensus
UCUAAUAAAAAUAAUACGAAAAUUUGUUGCAUGUGCUAAUGUUUCUGCACGCUGUUGCACUAAUGCAACCGGUUGCAGUCGCAGUCUGCAGUCCAGCGGAAAACGAAAA___AAAAACAA
.........................(((((((((((....((........))....))))..))))))).((((((((.......)))))).)).......................... (-21.14 = -21.10 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:02 2006