Locus 1780

Sequence ID X_DroMel_CAF1
Location 4,900,391 – 4,900,508
Length 117
Max. P 0.523928
window2908

overview

Window 8

Location 4,900,391 – 4,900,508
Length 117
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 85.76
Mean single sequence MFE -33.23
Consensus MFE -28.83
Energy contribution -29.59
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.36
Structure conservation index 0.87
SVM decision value -0.02
SVM RNA-class probability 0.523928
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4900391 117 + 22224390
AGGUGCAGAUAUAUGCGCAACUGACUGUGAGCUUGAUCAGUUUGUCAAUGGCUGCGUUUGUCAAGCCGAAAGCUGGGGGAAAAAAAAACAAACCAGUUCAGAGGUGCA---GCCUCAGCC
..(((((......)))))..((((..(..((((.....))))..)....(((((((.....)..(((...((((((.(..........)...))))))....))))))---))))))).. ( -32.30)
>DroSec_CAF1 51280 113 + 1
AGGUGCAGAUAUAUGCGCAACUGACUCUGAGCUUGAUCAGUUUGUCAAUGGCUGCGUUUGUCAAGCCGAAAGCUGGGGAAAAA-------AACCAGUUCAGAGGUGCAGCAGCCUCAGCC
.(((...((((.((((((...((((.((((......))))...))))...)).)))).))))..)))....(((((((.....-------.(((........))).......))))))). ( -38.52)
>DroEre_CAF1 54377 103 + 1
AGGUGCAGAUAUAUGCGCAACUGACUGUGAGCUUGAUCAGUUUGUCAAUGGCUGCGUUUGUCAAGCCGAAAGCUGGGAAA-AA-------AACCAGUUCAGAGGUGCA---------GCC
..(((((......)))))..(((.((.(((((((((((((((.......))))).....))))))).....(((((....-..-------..)))))))).))...))---------).. ( -31.90)
>DroYak_CAF1 52354 97 + 1
---------UAUAUGCGCAACUGACUGUGAGCUUGAUCAGUUUGUCAAUGGCUGCGUUUGUCAAGCCGAAAGCUGGGGAA-AA-------AACCAGUUCAGAGGUGCAGC------AGCG
---------....(((((..((((...((.((((((((((((.......))))).....)))))))))...(((((....-..-------..)))))))))..)))))..------.... ( -30.20)
>consensus
AGGUGCAGAUAUAUGCGCAACUGACUGUGAGCUUGAUCAGUUUGUCAAUGGCUGCGUUUGUCAAGCCGAAAGCUGGGGAA_AA_______AACCAGUUCAGAGGUGCA________AGCC
.(((.........(((((..((((...((.((((((((((((.......))))).....)))))))))...(((((................)))))))))..))))).........))) (-28.83 = -29.59 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:42 2006