Locus 2601

Sequence ID 3L_DroMel_CAF1
Location 7,211,155 – 7,211,298
Length 143
Max. P 0.994964
window4069 window4070

overview

Window 9

Location 7,211,155 – 7,211,272
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.32
Mean single sequence MFE -24.78
Consensus MFE -17.86
Energy contribution -19.94
Covariance contribution 2.08
Combinations/Pair 1.22
Mean z-score -2.28
Structure conservation index 0.72
SVM decision value 0.85
SVM RNA-class probability 0.866064
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7211155 117 - 23771897
-AUUCAAUGAUUACCACUGAUAGUGCUUUUCAGUAAGAUCAACUGGAAUCACUGUCAACUUU-CGAGUA-UAUCUGCUCACAUGAACAAUCUAGUUACUCCGUUGAAUUUUUAACACUAA
-((((((((........((((((((..(((((((.......))))))).)))))))).....-.(((((-....))))).....................))))))))............ ( -27.60)
>DroSec_CAF1 4286 118 - 1
-AUUCAAUGAUUACCGCUGAUAGUGCUUUUCAGUAAGUUCAACUGGAAUCACUGUCAACCUU-CGAGUAAUCUCUGCUCACAUGAACAAUCUAGGUACUCUGCUGAAUUUUUAACACUAA
-(((((..((.((((..((((((((..(((((((.......))))))).)))))))).....-.(((((.....)))))..............)))).))...)))))............ ( -29.80)
>DroSim_CAF1 4312 118 - 1
-AUUCAAUGAUUACCACUGACAGUGCUUUUCAGUAAGAUCAACUGGAAUCACUGUCAACCUU-CCAGUAAUCUCUGCUCACAUGAACAAUCUAGGUACUCUGUUGAAUUUUUAACACUAA
-(((((((((.((((..((((((((..(((((((.......))))))).)))))))).....-.(((......))).................)))).)).)))))))............ ( -30.00)
>DroEre_CAF1 848 118 - 1
AAUUUCAUGAUUACCACUGACGGUACUUUUCAGUAUGAUCAAAAGGACUCACUGUCAACGCU-CCAG-AAUCUCUGCUCACAUGAACAAUCUAGGUACUGCGAUGCAUUUUUAACACUAA
.......((((((..(((((.........))))).))))))....(((.....)))...(((-((((-.((((.((.((....)).))....)))).))).)).)).............. ( -19.20)
>DroYak_CAF1 213 120 - 1
AAUUUAUUGACUACCACUGAUAGCACUUUUCAGUAAGAUCAGAAGGAAUCACUGUCAACCCCUGGAGUAAUCUCUACUCACAUGAACAAUCUAGGUACUCCGAUGCAUUUUUAACACUAA
......(((((.....(((((...(((....)))...))))).((......)))))))....(((((((.(((....((....)).......)))))))))).................. ( -17.30)
>consensus
_AUUCAAUGAUUACCACUGAUAGUGCUUUUCAGUAAGAUCAACUGGAAUCACUGUCAACCUU_CGAGUAAUCUCUGCUCACAUGAACAAUCUAGGUACUCCGAUGAAUUUUUAACACUAA
.((((((((..((((..((((((((..(((((((.......))))))).)))))))).......(((((.....)))))..............))))...))))))))............ (-17.86 = -19.94 +   2.08)

alignment

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secondary structure

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dotplot

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Window 0

Location 7,211,195 – 7,211,298
Length 103
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.57
Mean single sequence MFE -24.18
Consensus MFE -16.02
Energy contribution -17.86
Covariance contribution 1.84
Combinations/Pair 1.22
Mean z-score -2.70
Structure conservation index 0.66
SVM decision value 2.53
SVM RNA-class probability 0.994964
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7211195 103 - 23771897
----------UGUUACGACUUGAAUAAAUCAAGUUA-----AUUCAAUGAUUACCACUGAUAGUGCUUUUCAGUAAGAUCAACUGGAAUCACUGUCAACUUU-CGAGUA-UAUCUGCUCA
----------......(((((((.....))))))).-----................((((((((..(((((((.......))))))).)))))))).....-.(((((-....))))). ( -27.20)
>DroSec_CAF1 4326 110 - 1
----AUACAAUUUUACGACUUGAAUAAAUCAAGUUA-----AUUCAAUGAUUACCGCUGAUAGUGCUUUUCAGUAAGUUCAACUGGAAUCACUGUCAACCUU-CGAGUAAUCUCUGCUCA
----............(((((((.....))))))).-----...((..((((((((.((((((((..(((((((.......))))))).)))))))).....-)).))))))..)).... ( -28.80)
>DroSim_CAF1 4352 110 - 1
----AUAUAAUUUUGCGACUUGAAUAAAUCAAGUUA-----AUUCAAUGAUUACCACUGACAGUGCUUUUCAGUAAGAUCAACUGGAAUCACUGUCAACCUU-CCAGUAAUCUCUGCUCA
----..........(((((((((.....))))))).-----.......((((((...((((((((..(((((((.......))))))).)))))))).....-...))))))...))... ( -29.00)
>DroEre_CAF1 888 117 - 1
CCAUAUAUAAGUGUACAACUCUAAUAAACCCAGUUA-UUGAAUUUCAUGAUUACCACUGACGGUACUUUUCAGUAUGAUCAAAAGGACUCACUGUCAACGCU-CCAG-AAUCUCUGCUCA
.........(((((.......((((((......)))-))).......((((((..(((((.........))))).))))))....(((.....))).)))))-.(((-.....))).... ( -16.10)
>DroYak_CAF1 253 112 - 1
--------CAGUUUACAACUGCAAUAAAUCCAGUUAAUUGAAUUUAUUGACUACCACUGAUAGCACUUUUCAGUAAGAUCAGAAGGAAUCACUGUCAACCCCUGGAGUAAUCUCUACUCA
--------..(((.(((....((((((((.(((....))).))))))))....((.(((((...(((....)))...)))))..))......))).))).....(((((.....))))). ( -19.80)
>consensus
____AUA_AAUUUUACGACUUGAAUAAAUCAAGUUA_____AUUCAAUGAUUACCACUGAUAGUGCUUUUCAGUAAGAUCAACUGGAAUCACUGUCAACCUU_CGAGUAAUCUCUGCUCA
................(((((((.....)))))))......................((((((((..(((((((.......))))))).)))))))).......(((((.....))))). (-16.02 = -17.86 +   1.84)

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 10:37:10 2006