Locus 5948

Sequence ID X_DroMel_CAF1
Location 15,339,766 – 15,339,858
Length 92
Max. P 0.862302
window9649 window9650

overview

Window 9

Location 15,339,766 – 15,339,858
Length 92
Sequences 4
Columns 115
Reading direction forward
Mean pairwise identity 64.41
Mean single sequence MFE -28.20
Consensus MFE -11.80
Energy contribution -13.43
Covariance contribution 1.62
Combinations/Pair 1.21
Mean z-score -1.87
Structure conservation index 0.42
SVM decision value 0.07
SVM RNA-class probability 0.570877
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15339766 92 + 22224390
CAGCUGCUAGCCAAGGAGCAGCAA---CUUCAGCUAAACCAAGCUGAACUGGAAAAACUACAAGAGACACUUCGAGUUAACGAAGAGCAGCUCCU--------------------
..((.....))..((((((.((..---.(((((((......))))))).....................(((((......))))).)).))))))-------------------- ( -26.50)
>DroSim_CAF1 563 92 + 1
CAGCUGCUGGCCAAGGAGCAGCAA---CUCCAGCUAAACCAAGCUGAACUGGAAAAACUACAGGAGACACUGCGAGUUAACAAAGAGCAGCUCCU--------------------
.(((((((..(((.((((......---))))((((......))))....)))...((((.(((......)))..)))).......)))))))...-------------------- ( -26.70)
>DroYak_CAF1 594 92 + 1
CAGCUGCUGGCCAAGGAGCAGCAA---AUGCAGCUAGACCAAGCUGAACUGGAAAAAUUACACGAGACACUUCGGGCAAAUGAAGAGCAAGUCCU--------------------
..((((((........))))))..---...(((((......)))))....(((.........((((....)))).((.........))...))).-------------------- ( -21.30)
>DroMoj_CAF1 24598 112 + 1
CUGCAGCUGGCCAAGCAGGAGCAGGAGGCGCAAUUGGGC---CUGCAGCUGGAGCAGCUUAGAGUGGAACUGCGUGCCAAGCAGGAGCAGCUGGAGCUGAAGUUACAACAAAAUG
((.((((((.((..((....)).))((((.(....).))---)).)))))).))((((((..(((.(..((((.......))))...).))).))))))................ ( -38.30)
>consensus
CAGCUGCUGGCCAAGGAGCAGCAA___CUGCAGCUAAACCAAGCUGAACUGGAAAAACUACAAGAGACACUGCGAGCUAACGAAGAGCAGCUCCU____________________
..((((((..(((.(...((((....................))))..)))).................(((((......)))))))))))........................ (-11.80 = -13.43 +   1.62)

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location 15,339,766 – 15,339,858
Length 92
Sequences 4
Columns 115
Reading direction reverse
Mean pairwise identity 64.41
Mean single sequence MFE -29.73
Consensus MFE -14.56
Energy contribution -15.81
Covariance contribution 1.25
Combinations/Pair 1.35
Mean z-score -1.72
Structure conservation index 0.49
SVM decision value 0.83
SVM RNA-class probability 0.862302
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15339766 92 - 22224390
--------------------AGGAGCUGCUCUUCGUUAACUCGAAGUGUCUCUUGUAGUUUUUCCAGUUCAGCUUGGUUUAGCUGAAG---UUGCUGCUCCUUGGCUAGCAGCUG
--------------------.((((((((.(((((......)))))........)))))...)))...((((((......))))))((---((((((((....))).))))))). ( -30.90)
>DroSim_CAF1 563 92 - 1
--------------------AGGAGCUGCUCUUUGUUAACUCGCAGUGUCUCCUGUAGUUUUUCCAGUUCAGCUUGGUUUAGCUGGAG---UUGCUGCUCCUUGGCCAGCAGCUG
--------------------...(((((((....(((((...((((((.((((...((((...((((......))))...))))))))---.))))))...))))).))))))). ( -31.60)
>DroYak_CAF1 594 92 - 1
--------------------AGGACUUGCUCUUCAUUUGCCCGAAGUGUCUCGUGUAAUUUUUCCAGUUCAGCUUGGUCUAGCUGCAU---UUGCUGCUCCUUGGCCAGCAGCUG
--------------------.(((((..........((((.(((......))).)))).......)))))(((((((((.(((.((..---..)).)))....)))))..)))). ( -22.63)
>DroMoj_CAF1 24598 112 - 1
CAUUUUGUUGUAACUUCAGCUCCAGCUGCUCCUGCUUGGCACGCAGUUCCACUCUAAGCUGCUCCAGCUGCAG---GCCCAAUUGCGCCUCCUGCUCCUGCUUGGCCAGCUGCAG
......((((......))))..((((((..(((((((((...((((((........)))))).))))..))))---).........(((....((....))..)))))))))... ( -33.80)
>consensus
____________________AGGAGCUGCUCUUCGUUAACUCGAAGUGUCUCUUGUAGUUUUUCCAGUUCAGCUUGGUCUAGCUGCAG___UUGCUGCUCCUUGGCCAGCAGCUG
......................(((((((.........((.....)).......))))))).....((((((((......)))))))).....((((((........)))))).. (-14.56 = -15.81 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:14 2006