Locus 9131

Sequence ID 3R_DroMel_CAF1
Location 24,374,852 – 24,374,993
Length 141
Max. P 0.977451
window14610 window14611

overview

Window 0

Location 24,374,852 – 24,374,970
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 63.59
Mean single sequence MFE -27.56
Consensus MFE -11.98
Energy contribution -12.14
Covariance contribution 0.16
Combinations/Pair 1.47
Mean z-score -2.33
Structure conservation index 0.43
SVM decision value 1.79
SVM RNA-class probability 0.977451
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24374852 118 - 27905053
CAUAAUUGCUUUGACACGACUAUCAGAUACCUGGUAGUUGGCGAUUUCUUAGGAAAAAACAUUUAAA--GCACUGAAGCUUUAGGUAUGCAGUUGAAAAACUUGUUUCUACCUAUAAAAU
......((((((((..((((((((((....))))))))))....((((....))))......)))))--))).........((((((.((((((....))).)))...))))))...... ( -32.00)
>DroSec_CAF1 197093 91 - 1
CAUAAUUGGGUGGACACAACUAUCAGAUACCUGGUAGUUGUUCAUUUCUUAAGAAA-----------------------------UAUGCCGUUAAAAAACUAGUUUCUACAAUUCAAAU
...((((((((.((.(((((((((((....)))))))))))))(((((....))))-----------------------------)..)))(((....))).........)))))..... ( -21.70)
>DroSim_CAF1 205691 117 - 1
CAUAAUUGGGUGGACACGACUAUCAGAUACCUGGUAGUUGUUCAUUUCUUUAGAAACAACAUUUAAA--ACA-UGAUGCUUUAAGUAUGCCGUUUAAAAACUAGUUUCUACAAUUCAAAU
...(((((((((((((..((((((((....))))))))))))))))....(((((((....(((.((--((.-..((((.....))))...)))).)))....))))))))))))..... ( -27.00)
>DroEre_CAF1 211097 111 - 1
CAUAGUCGAGUGAACACGACUGCAAGAUACCUGGUAGUUG-UGAUUUAUCGAG--ACAACAUUUGUACUGCAAGGAA---CUACUUAGCAGGUUACUUAACUAGUUG---CAGUUAGGAC
....(((..((((((((((((((.((....)).)))))))-)).)))))...)--))..........(((((((...---...))).))))....(((((((.....---.))))))).. ( -32.70)
>DroYak_CAF1 204481 108 - 1
CAUAAACGAGUGGAGACGACUGUCAGAUACCUGGUAGUUGGUGGUGUCUCAAGAAACAACAUUUCUACUGCAUGCAA---CUACUUAGU--UUUCAGUAAACAGUUG---A----AGGAC
........(((((((((((((..(((....)))..)))))((.((.((....)).)).)).)))))))).(...(((---((.....((--((.....)))))))))---.----..).. ( -24.40)
>consensus
CAUAAUUGAGUGGACACGACUAUCAGAUACCUGGUAGUUGGUGAUUUCUUAAGAAACAACAUUUAAA__GCA_GGAA___CUACGUAUGCCGUUAAAAAACUAGUUUCUACAAUUAAAAU
.....(((((......((((((((((....)))))))))).......))))).................................................................... (-11.98 = -12.14 +   0.16)

alignment

Postscript

secondary structure

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dotplot

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Window 1

Location 24,374,892 – 24,374,993
Length 101
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 67.78
Mean single sequence MFE -24.60
Consensus MFE -11.98
Energy contribution -12.14
Covariance contribution 0.16
Combinations/Pair 1.47
Mean z-score -1.87
Structure conservation index 0.49
SVM decision value 0.99
SVM RNA-class probability 0.895306
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24374892 101 - 27905053
AGAACGGCAAGAC--------GAAGGGAUGUCAUAAUUGCUUUGACACGACUAUCAGAUACCUGGUAGUUGGCGAUUUCUUAGGAAAAAACAUUUAAA--GCACUGAAGCU
.....(((..(((--------(......)))).....((((((((..((((((((((....))))))))))....((((....))))......)))))--))).....))) ( -26.50)
>DroSec_CAF1 197128 79 - 1
AGAACGGCAAGAC--------GAAGGGAUGUCAUAAUUGGGUGGACACAACUAUCAGAUACCUGGUAGUUGUUCAUUUCUUAAGAAA------------------------
.....((((...(--------....)..))))....(((((..((.(((((((((((....)))))))))))))....)))))....------------------------ ( -21.90)
>DroSim_CAF1 205731 100 - 1
AGAACGGCAAGAC--------GAAGGGAAGUCAUAAUUGGGUGGACACGACUAUCAGAUACCUGGUAGUUGUUCAUUUCUUUAGAAACAACAUUUAAA--ACA-UGAUGCU
.....((((.(((--------........)))....(((((((((.(((((((((((....))))))))))))).((((....))))...))))))).--...-...)))) ( -26.00)
>DroEre_CAF1 211134 88 - 1
ACAACGACAAGAC-----------------UCAUAGUCGAGUGAACACGACUGCAAGAUACCUGGUAGUUG-UGAUUUAUCGAG--ACAACAUUUGUACUGCAAGGAA---
.............-----------------.....(((..((((((((((((((.((....)).)))))))-)).)))))...)--))....((((.....))))...--- ( -20.10)
>DroYak_CAF1 204512 108 - 1
ACAACGACAAGAUGACAAGGCGGAGGGAUGUCAUAAACGAGUGGAGACGACUGUCAGAUACCUGGUAGUUGGUGGUGUCUCAAGAAACAACAUUUCUACUGCAUGCAA---
............((.((..((((((..(((((((......)))(((((.((..((((.(((...))).))))..)))))))........))))..)).)))).)))).--- ( -28.50)
>consensus
AGAACGGCAAGAC________GAAGGGAUGUCAUAAUUGAGUGGACACGACUAUCAGAUACCUGGUAGUUGGUGAUUUCUUAAGAAACAACAUUUAAA__GCA_GGAA___
....................................(((((......((((((((((....)))))))))).......)))))............................ (-11.98 = -12.14 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:27:17 2006