Locus 8679

Sequence ID 3R_DroMel_CAF1
Location 23,184,690 – 23,184,781
Length 91
Max. P 0.914901
window13940 window13941

overview

Window 0

Location 23,184,690 – 23,184,781
Length 91
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 85.53
Mean single sequence MFE -31.92
Consensus MFE -22.42
Energy contribution -22.53
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -2.81
Structure conservation index 0.70
SVM decision value 0.96
SVM RNA-class probability 0.889687
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23184690 91 + 27905053
---------------AGCAAGAAAUUAGCACAAACUAUGCCGCAAGAAAAGUUAGUUGCGAAGCCUAAUAAGCGGCGCCCAUGGGCGCUCCACAAAACGGCUGAAA
---------------.((((..((((.(((.......)))(....)...))))..))))..((((........((((((....)))))).........)))).... ( -23.63)
>DroSec_CAF1 27561 106 + 1
AAGAGGCGUGGAAGCAGCAAGAAAUUAGCACAAACUAUGCCGCAAGAAAAGUUAUUUGCGAAGCCUAAUAAGCGGCGCCCAUGGGCGCCCCACAAAACGGCUGGAA
....(((((((.....((((....)).)).....)))))))(((((........)))))..((((........((((((....)))))).........)))).... ( -34.13)
>DroEre_CAF1 32103 106 + 1
AAGAGGCGUGCAAGCGGCAAGAAAUUAGCACAAACUAUGCCGCAAGAAAAGUUAGUUGCGAAGCCUAAUAAGCGGCGCCCAUGGGCGCCCCACAAAGCGACUGCAC
.......((((..((((((......(((......)))))))))..........((((((...((.......))((((((....)))))).......)))))))))) ( -38.00)
>consensus
AAGAGGCGUG_AAGCAGCAAGAAAUUAGCACAAACUAUGCCGCAAGAAAAGUUAGUUGCGAAGCCUAAUAAGCGGCGCCCAUGGGCGCCCCACAAAACGGCUGAAA
................((((..((((.(((.......)))(....)...))))..))))..((((........((((((....)))))).........)))).... (-22.42 = -22.53 +   0.11)

alignment

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secondary structure

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dotplot

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Window 1

Location 23,184,690 – 23,184,781
Length 91
Sequences 3
Columns 106
Reading direction reverse
Mean pairwise identity 85.53
Mean single sequence MFE -33.54
Consensus MFE -27.73
Energy contribution -27.62
Covariance contribution -0.11
Combinations/Pair 1.08
Mean z-score -2.45
Structure conservation index 0.83
SVM decision value 1.10
SVM RNA-class probability 0.914901
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23184690 91 - 27905053
UUUCAGCCGUUUUGUGGAGCGCCCAUGGGCGCCGCUUAUUAGGCUUCGCAACUAACUUUUCUUGCGGCAUAGUUUGUGCUAAUUUCUUGCU---------------
.....(((((.((((((((((((....))))).(((.....))))))))))............))))).((((....))))..........--------------- ( -27.02)
>DroSec_CAF1 27561 106 - 1
UUCCAGCCGUUUUGUGGGGCGCCCAUGGGCGCCGCUUAUUAGGCUUCGCAAAUAACUUUUCUUGCGGCAUAGUUUGUGCUAAUUUCUUGCUGCUUCCACGCCUCUU
....((.((((((((((((((((....))))))(((.....))).)))))))...........((((((((((....))))......))))))....))).))... ( -33.10)
>DroEre_CAF1 32103 106 - 1
GUGCAGUCGCUUUGUGGGGCGCCCAUGGGCGCCGCUUAUUAGGCUUCGCAACUAACUUUUCUUGCGGCAUAGUUUGUGCUAAUUUCUUGCCGCUUGCACGCCUCUU
((((((.....((((((((((((....))))))(((.....))).))))))............((((((((((....))))......))))))))))))....... ( -40.50)
>consensus
UUCCAGCCGUUUUGUGGGGCGCCCAUGGGCGCCGCUUAUUAGGCUUCGCAACUAACUUUUCUUGCGGCAUAGUUUGUGCUAAUUUCUUGCUGCUU_CACGCCUCUU
.....(((((.((((((((((((....))))))(((.....))).))))))............))))).((((....))))......................... (-27.73 = -27.62 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:17:06 2006