Locus 5050

Sequence ID 3R_DroMel_CAF1
Location 13,300,941 – 13,301,049
Length 108
Max. P 0.771508
window8239

overview

Window 9

Location 13,300,941 – 13,301,049
Length 108
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 78.24
Mean single sequence MFE -50.57
Consensus MFE -27.88
Energy contribution -28.93
Covariance contribution 1.06
Combinations/Pair 1.12
Mean z-score -1.95
Structure conservation index 0.55
SVM decision value 0.53
SVM RNA-class probability 0.771508
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13300941 108 + 27905053
AUCGUGGAAUCCAGCCGGCGGGCGGAAACCACCGGAAAGGUCGGCUCCCGCUCCCGACCCCGCCAUCGCGGCUAUAGAGGCUGCCAAAGAGGCGGCGGUCUCCGCAUC
...(((((........((.((((((...(((((.....))).))...))))))))(((((((((.((((((((.....))))))....))))))).)))))))))... ( -52.30)
>DroPse_CAF1 71352 102 + 1
GUCGUGGAAGCCAGCGGGCGGACGGAAACCGCCCGUCAGAUCCACUCCG------GCCCCUGCCAUGGCUGCUAUAGAGGCGGCCAGCGAGGCAGCCGUCUCCGCAUC
...(((((..(..((((((((.......))))))))..).)))))...(------((....))).((((((((.....))))))))(((((((....)))).)))... ( -48.90)
>DroEre_CAF1 55321 108 + 1
AUCGUGGAAUCCUGCAGGCGGGCGGAAGCCACCGGAAAGGUCGGUCCCCGCCCCCGACCCCGCCAUUGCGGCUAUGGAGGCAGCCAAAGAGGCGGCGGUCUCCGCAUC
...(((((........((.((((((..((((((.....))).)))..))))))))(((((((((.((..((((........))))..)).))))).)))))))))... ( -55.60)
>DroYak_CAF1 64537 108 + 1
AUCGUGGAAUCCUGCGGGCGGGCGAAAUCCACCGGAAAGGUCGGCCCCCGCCCCCGACCCCGCCAUCGCGGCUAUGGAGGCUGCCAAAGAGGCGGCGGUCUCCGCAUC
...(((((.....(.(((((((.(....(((((.....))).)).)))))))).)(((((((((.((((((((.....))))))....))))))).)))))))))... ( -53.20)
>DroAna_CAF1 74651 96 + 1
GUCGUGAAAUCCUGCCGGUGGUCGGAAUCCGCCGGAGAGCUC------------CGCCCCCGCCAUAGCGGCUAUGGAGGCGGCCAACGAGGCUGCGGUCUCGGCAUC
((((.((....((.(((((((.......)))))))))..(((------------((...((((....))))...)))))((((((.....))))))..)).))))... ( -43.90)
>DroPer_CAF1 65335 102 + 1
GUCGUGGAAGCCAGCGGGCGGACGGAAACCGCCCGUCAAAUCCACUCCG------GCUCCAGCCAUGGCUGCUAUAGAGGCGGCCAGCGAGGCAGCCGUCUCCGCAUC
...(((((..(..((((((((.......))))))))............(------(((((.((..((((((((.....))))))))))..)).)))))..)))))... ( -49.50)
>consensus
AUCGUGGAAUCCAGCGGGCGGGCGGAAACCACCGGAAAGGUCGGCUCCC_____CGACCCCGCCAUCGCGGCUAUAGAGGCGGCCAAAGAGGCGGCGGUCUCCGCAUC
...(((((..((..((((.((.......)).))))........................(((((...((((((.....))))))......))))).))..)))))... (-27.88 = -28.93 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:01 2006