Locus 2742

Sequence ID 2L_DroMel_CAF1
Location 7,715,234 – 7,715,394
Length 160
Max. P 0.594322
window4358 window4359

overview

Window 8

Location 7,715,234 – 7,715,354
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 90.83
Mean single sequence MFE -36.00
Consensus MFE -30.01
Energy contribution -30.23
Covariance contribution 0.23
Combinations/Pair 1.07
Mean z-score -1.97
Structure conservation index 0.83
SVM decision value 0.12
SVM RNA-class probability 0.594322
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7715234 120 - 22407834
GGAAUUUAUUCGACUUUUAUAAUGGCUCUACAAGCCUUUGGAGCUGGCUGGGGUAGUGUAAUAGCCCUGUCCAGUUUCAACGGAUUUAAGACAGACAUAAUGUCGUAUAGUUGGAUUAUU
.......((((((((..(((...((((.....)))).((((((((((.((((((.........)))))).)))))))))).........((((.......))))))).)))))))).... ( -35.10)
>DroSim_CAF1 4239 120 - 1
GGAGUUUAUUCGACUUUUAUAAUGGCUCUACAAGCGUUUGGAGCUGGCUGGGGCAGUGUAAUAGCCCUGUCCAGUUUCAACGGAUUUAAGACAGACAUCAUGUCGUAUAGUUGGAUUAUU
.......((((((((..(((..............((((.((((((((.((((((.........)))))).)))))))))))).......((((.......))))))).)))))))).... ( -34.90)
>DroEre_CAF1 4345 120 - 1
GGACUUUCUUCGACAUAUGUAAUGGCGCUUCAAGCCUUUGGAGCUGGCUGGGGUAGUGUAAUAGCCCUGUCCAGUUUUAAUGGGUUCAAGACUAACAUCAUGUCGUAUAGUUGGAUUAUU
.((((.....((((((((((..(((..(((.((.((.((((((((((.((((((.........)))))).)))))))))).)).)).))).))))))).))))))...))))........ ( -38.00)
>consensus
GGAAUUUAUUCGACUUUUAUAAUGGCUCUACAAGCCUUUGGAGCUGGCUGGGGUAGUGUAAUAGCCCUGUCCAGUUUCAACGGAUUUAAGACAGACAUCAUGUCGUAUAGUUGGAUUAUU
........((((((....................((.((((((((((.((((((.........)))))).)))))))))).))......((((.......)))).....))))))..... (-30.01 = -30.23 +   0.23)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 9

Location 7,715,274 – 7,715,394
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 90.00
Mean single sequence MFE -36.22
Consensus MFE -28.72
Energy contribution -29.07
Covariance contribution 0.35
Combinations/Pair 1.17
Mean z-score -1.97
Structure conservation index 0.79
SVM decision value -0.03
SVM RNA-class probability 0.518627
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7715274 120 - 22407834
GUGGAUGUAUAUAACUCCGAAUACAAAGGAUUUUUCGGAGGGAAUUUAUUCGACUUUUAUAAUGGCUCUACAAGCCUUUGGAGCUGGCUGGGGUAGUGUAAUAGCCCUGUCCAGUUUCAA
((.((.........(((((((............))))))).........)).)).........((((.....)))).((((((((((.((((((.........)))))).)))))))))) ( -37.27)
>DroSim_CAF1 4279 120 - 1
GUGGAGGUAUAUAACUCCGAAUACAAAUGAUUUUUCAGAGGGAGUUUAUUCGACUUUUAUAAUGGCUCUACAAGCGUUUGGAGCUGGCUGGGGCAGUGUAAUAGCCCUGUCCAGUUUCAA
((((((.((((((((((.(((............))).))).(((((.....))))))))).))).))))))......((((((((((.((((((.........)))))).)))))))))) ( -37.90)
>DroEre_CAF1 4385 120 - 1
GUGGAGGUAUAUAACUCCAAGGACAAAAGAUUUUUCAGAAGGACUUUCUUCGACAUAUGUAAUGGCGCUUCAAGCCUUUGGAGCUGGCUGGGGUAGUGUAAUAGCCCUGUCCAGUUUUAA
.(((((........)))))...(((...((....)).(((((....)))))......)))...(((.......))).((((((((((.((((((.........)))))).)))))))))) ( -33.50)
>consensus
GUGGAGGUAUAUAACUCCGAAUACAAAAGAUUUUUCAGAGGGAAUUUAUUCGACUUUUAUAAUGGCUCUACAAGCCUUUGGAGCUGGCUGGGGUAGUGUAAUAGCCCUGUCCAGUUUCAA
((((((.(((((((...((((((.....(((((((....)))))))))))))....)))).))).))))))......((((((((((.((((((.........)))))).)))))))))) (-28.72 = -29.07 +   0.35)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:06 2006