Locus 5643

Sequence ID 2R_DroMel_CAF1
Location 17,945,455 – 17,945,575
Length 120
Max. P 0.872832
window9046 window9047

overview

Window 6

Location 17,945,455 – 17,945,575
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 100.00
Mean single sequence MFE -42.90
Consensus MFE -42.90
Energy contribution -42.90
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -4.85
Structure conservation index 1.00
SVM decision value 0.40
SVM RNA-class probability 0.721668
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17945455 120 + 20766785
GCCCAGUCGAGCAAUGGAGUUGAGAUUUGUUUUGCAUUGACCGCAAAUUUCAAUACAGUUUUGCGGUCGUCGCCCAAUUGCUAUACACCUCUCAUUCGCUCCUCUUCAAUUGCUCGCCUG
...(((.((((((((((((((((((..(((...(((.((((((((((............)))))))))).........)))...)))..)))))...)))))......)))))))).))) ( -42.90)
>DroSec_CAF1 2809 120 + 1
GCCCAGUCGAGCAAUGGAGUUGAGAUUUGUUUUGCAUUGACCGCAAAUUUCAAUACAGUUUUGCGGUCGUCGCCCAAUUGCUAUACACCUCUCAUUCGCUCCUCUUCAAUUGCUCGCCUG
...(((.((((((((((((((((((..(((...(((.((((((((((............)))))))))).........)))...)))..)))))...)))))......)))))))).))) ( -42.90)
>DroEre_CAF1 7600 120 + 1
GCCCAGUCGAGCAAUGGAGUUGAGAUUUGUUUUGCAUUGACCGCAAAUUUCAAUACAGUUUUGCGGUCGUCGCCCAAUUGCUAUACACCUCUCAUUCGCUCCUCUUCAAUUGCUCGCCUG
...(((.((((((((((((((((((..(((...(((.((((((((((............)))))))))).........)))...)))..)))))...)))))......)))))))).))) ( -42.90)
>DroYak_CAF1 7475 120 + 1
GCCCAGUCGAGCAAUGGAGUUGAGAUUUGUUUUGCAUUGACCGCAAAUUUCAAUACAGUUUUGCGGUCGUCGCCCAAUUGCUAUACACCUCUCAUUCGCUCCUCUUCAAUUGCUCGCCUG
...(((.((((((((((((((((((..(((...(((.((((((((((............)))))))))).........)))...)))..)))))...)))))......)))))))).))) ( -42.90)
>consensus
GCCCAGUCGAGCAAUGGAGUUGAGAUUUGUUUUGCAUUGACCGCAAAUUUCAAUACAGUUUUGCGGUCGUCGCCCAAUUGCUAUACACCUCUCAUUCGCUCCUCUUCAAUUGCUCGCCUG
...(((.((((((((((((((((((..(((...(((.((((((((((............)))))))))).........)))...)))..)))))...)))))......)))))))).))) (-42.90 = -42.90 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 17,945,455 – 17,945,575
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 100.00
Mean single sequence MFE -43.40
Consensus MFE -43.40
Energy contribution -43.40
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -4.01
Structure conservation index 1.00
SVM decision value 0.88
SVM RNA-class probability 0.872832
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17945455 120 - 20766785
CAGGCGAGCAAUUGAAGAGGAGCGAAUGAGAGGUGUAUAGCAAUUGGGCGACGACCGCAAAACUGUAUUGAAAUUUGCGGUCAAUGCAAAACAAAUCUCAACUCCAUUGCUCGACUGGGC
(((.((((((((......((((....(((((..(((...(((....(....)(((((((((............)))))))))..)))...)))..))))).)))))))))))).)))... ( -43.40)
>DroSec_CAF1 2809 120 - 1
CAGGCGAGCAAUUGAAGAGGAGCGAAUGAGAGGUGUAUAGCAAUUGGGCGACGACCGCAAAACUGUAUUGAAAUUUGCGGUCAAUGCAAAACAAAUCUCAACUCCAUUGCUCGACUGGGC
(((.((((((((......((((....(((((..(((...(((....(....)(((((((((............)))))))))..)))...)))..))))).)))))))))))).)))... ( -43.40)
>DroEre_CAF1 7600 120 - 1
CAGGCGAGCAAUUGAAGAGGAGCGAAUGAGAGGUGUAUAGCAAUUGGGCGACGACCGCAAAACUGUAUUGAAAUUUGCGGUCAAUGCAAAACAAAUCUCAACUCCAUUGCUCGACUGGGC
(((.((((((((......((((....(((((..(((...(((....(....)(((((((((............)))))))))..)))...)))..))))).)))))))))))).)))... ( -43.40)
>DroYak_CAF1 7475 120 - 1
CAGGCGAGCAAUUGAAGAGGAGCGAAUGAGAGGUGUAUAGCAAUUGGGCGACGACCGCAAAACUGUAUUGAAAUUUGCGGUCAAUGCAAAACAAAUCUCAACUCCAUUGCUCGACUGGGC
(((.((((((((......((((....(((((..(((...(((....(....)(((((((((............)))))))))..)))...)))..))))).)))))))))))).)))... ( -43.40)
>consensus
CAGGCGAGCAAUUGAAGAGGAGCGAAUGAGAGGUGUAUAGCAAUUGGGCGACGACCGCAAAACUGUAUUGAAAUUUGCGGUCAAUGCAAAACAAAUCUCAACUCCAUUGCUCGACUGGGC
(((.((((((((......((((....(((((..(((...(((....(....)(((((((((............)))))))))..)))...)))..))))).)))))))))))).)))... (-43.40 = -43.40 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:50 2006