Locus 8372

Sequence ID 3R_DroMel_CAF1
Location 22,332,504 – 22,332,613
Length 109
Max. P 0.881300
window13488 window13489

overview

Window 8

Location 22,332,504 – 22,332,613
Length 109
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 88.61
Mean single sequence MFE -32.13
Consensus MFE -25.11
Energy contribution -25.83
Covariance contribution 0.72
Combinations/Pair 1.07
Mean z-score -3.27
Structure conservation index 0.78
SVM decision value 0.92
SVM RNA-class probability 0.881300
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22332504 109 + 27905053
AAAAUUCAAAGAGUGAUUUGCCAAGUGCA---CUCGCUUUUGUGAAACCUUUCAAACUUAAUUGCCACAUUAUGUGGCAGUGUUCCAAGUUGAUGCGUCCAACUUGGCAUAU
....((((((((((((..(((.....)))---.)))))))).))))..............((((((((.....))))))))((.((((((((.......)))))))).)).. ( -33.00)
>DroSec_CAF1 49263 109 + 1
AAAAUUCAAUGAAUGAUUUGCCAAGUGCA---CUCGCUUUUGUGAAACCUUUCAAACUUAAUUGCCACAUUAUGUGGCAGUGUUCCAAGUUGAUGCGUCCAACUUGGCAUAU
..................((((((((...---..(((.....((((....))))(((((.((((((((.....)))))))).....)))))...)))....))))))))... ( -31.20)
>DroSim_CAF1 48274 109 + 1
AAAAUUCAAUGAAUGAUUUGCCAAGUGCA---CUCGCUUUUGUGAAACCUUUCAAACUUAAUUGCCACAUUAUGUGGCAGUGUUCCAAGUUGAUGCGUCCAACUUGGCAUAU
..................((((((((...---..(((.....((((....))))(((((.((((((((.....)))))))).....)))))...)))....))))))))... ( -31.20)
>DroEre_CAF1 51286 109 + 1
AAAAAGCUGAGUAUGUUUUGCCAAGUGCA---CUCGCUUUUGUGAAACCUUUCAAACUUAAUUGCCACAUUAUGUGGCAGUGUUCCAAGUUGAUGCGUCCAACUUGGCAUAU
..(((((.......)))))(((((((...---..(((.....((((....))))(((((.((((((((.....)))))))).....)))))...)))....))))))).... ( -32.00)
>DroYak_CAF1 50576 109 + 1
AAAAUUCUGAGAAUGUUUUGCCAAGUGCA---CUCGCUAUUGUGAAACCUUUCAAACGUAAUUGCCACAUUAUGUGGCAGUGUUCCAAGUUGAUGCGUCCAACUUGGCAUAU
.......(((((..((((..(..((((..---..))))...)..)))).)))))......((((((((.....))))))))((.((((((((.......)))))))).)).. ( -31.30)
>DroAna_CAF1 52581 107 + 1
UUCAUUCAA-----AUUUUCACAAGUGCAGCUCUGAUGCUGGGGAAACCUAUUCAACUUAAUUGCCACAUUAUGUGGCUGUGUUCCAAGUUGAUGCGUUCAACUUGGCAUAU
.........-----.....(((((((.((((......))))((....))......))))....(((((.....))))).)))..(((((((((.....)))))))))..... ( -34.10)
>consensus
AAAAUUCAAAGAAUGAUUUGCCAAGUGCA___CUCGCUUUUGUGAAACCUUUCAAACUUAAUUGCCACAUUAUGUGGCAGUGUUCCAAGUUGAUGCGUCCAACUUGGCAUAU
..................(((((((((((....((((....))))......((.(((((.((((((((.....)))))))).....)))))))))).....))))))))... (-25.11 = -25.83 +   0.72)

alignment

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secondary structure

Postscript

dotplot

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Window 9

Location 22,332,504 – 22,332,613
Length 109
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 88.61
Mean single sequence MFE -29.73
Consensus MFE -22.58
Energy contribution -23.17
Covariance contribution 0.58
Combinations/Pair 1.08
Mean z-score -2.60
Structure conservation index 0.76
SVM decision value -0.03
SVM RNA-class probability 0.519362
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22332504 109 - 27905053
AUAUGCCAAGUUGGACGCAUCAACUUGGAACACUGCCACAUAAUGUGGCAAUUAAGUUUGAAAGGUUUCACAAAAGCGAG---UGCACUUGGCAAAUCACUCUUUGAAUUUU
...((((((((.(.((.(.(((((((((.....((((((.....)))))).))))).))))...((((.....))))).)---).))))))))).................. ( -28.80)
>DroSec_CAF1 49263 109 - 1
AUAUGCCAAGUUGGACGCAUCAACUUGGAACACUGCCACAUAAUGUGGCAAUUAAGUUUGAAAGGUUUCACAAAAGCGAG---UGCACUUGGCAAAUCAUUCAUUGAAUUUU
...((((((((.(.((.(.(((((((((.....((((((.....)))))).))))).))))...((((.....))))).)---).)))))))))..(((.....)))..... ( -29.40)
>DroSim_CAF1 48274 109 - 1
AUAUGCCAAGUUGGACGCAUCAACUUGGAACACUGCCACAUAAUGUGGCAAUUAAGUUUGAAAGGUUUCACAAAAGCGAG---UGCACUUGGCAAAUCAUUCAUUGAAUUUU
...((((((((.(.((.(.(((((((((.....((((((.....)))))).))))).))))...((((.....))))).)---).)))))))))..(((.....)))..... ( -29.40)
>DroEre_CAF1 51286 109 - 1
AUAUGCCAAGUUGGACGCAUCAACUUGGAACACUGCCACAUAAUGUGGCAAUUAAGUUUGAAAGGUUUCACAAAAGCGAG---UGCACUUGGCAAAACAUACUCAGCUUUUU
.....(((((((((.....))))))))).....((((((.....))))))........((((....)))).(((((((((---((....((......))))))).)))))). ( -29.50)
>DroYak_CAF1 50576 109 - 1
AUAUGCCAAGUUGGACGCAUCAACUUGGAACACUGCCACAUAAUGUGGCAAUUACGUUUGAAAGGUUUCACAAUAGCGAG---UGCACUUGGCAAAACAUUCUCAGAAUUUU
...((((((((.(.((.........((((((..((((((.....))))))....(........))))))).........)---).))))))))).................. ( -28.67)
>DroAna_CAF1 52581 107 - 1
AUAUGCCAAGUUGAACGCAUCAACUUGGAACACAGCCACAUAAUGUGGCAAUUAAGUUGAAUAGGUUUCCCCAGCAUCAGAGCUGCACUUGUGAAAAU-----UUGAAUGAA
.....(((((((((.....)))))))))......(((((.....)))))..(((((((..((((((.....((((......)))).))))))...)))-----))))..... ( -32.60)
>consensus
AUAUGCCAAGUUGGACGCAUCAACUUGGAACACUGCCACAUAAUGUGGCAAUUAAGUUUGAAAGGUUUCACAAAAGCGAG___UGCACUUGGCAAAACAUUCUUUGAAUUUU
...((((((((.....(((....((((......((((((.....))))))........((((....))))......))))...))))))))))).................. (-22.58 = -23.17 +   0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:56 2006