Locus 960

Sequence ID X_DroMel_CAF1
Location 2,723,762 – 2,723,865
Length 103
Max. P 0.500000
window1560

overview

Window 0

Location 2,723,762 – 2,723,865
Length 103
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 92.05
Mean single sequence MFE -30.14
Consensus MFE -25.78
Energy contribution -26.38
Covariance contribution 0.60
Combinations/Pair 1.12
Mean z-score -1.20
Structure conservation index 0.86
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2723762 103 + 22224390
AACGCAUUUCAGCCAGCUUGUCAACAUUUUAAAGCUCUUGUAUGGAGCAU-UGGGUGGAAGCAAUUUGCUGGCGAGAAAGCCGAGUGCAUUAAGCAUUUCAGCU
...((.((((.((((((((((...(((((....(((((.....)))))..-.)))))...))))...))))))..)))))).((((((.....))))))..... ( -32.10)
>DroSec_CAF1 112319 103 + 1
AACGCAUUUCAGCCAGCUUGUCAACAUUUUAAAGCUCUUGU-UGGAGCAUUUGGGUGGAAGCAAUUUGCUGGCGAGAAAGCCGAGGGCAUUCAGCAUUGCAGCU
...(((.....((((((((((...((((..((.(((((...-.))))).))..))))...))))...))))))..(((.(((...))).))).....))).... ( -32.80)
>DroSim_CAF1 100412 103 + 1
AACGCAUUUCAGCCAGCUUGUCAACAUUUUAAAGCUCUUGU-UGGAGCAUUUGGGUGGAAGCAAUUUGCUGGCGAGAAAGCCGAGUGCAUUCAGCAUUGCAGCU
...((.((((.((((((((((...((((..((.(((((...-.))))).))..))))...))))...))))))..))))((..(((((.....))))))).)). ( -34.00)
>DroEre_CAF1 126976 102 + 1
GACGCACUUCAGCCAGCUUGUCAACAUUUUAAAGCUCUUGU-CAGUGCAU-CGGGUGGAAGCAAUUUGCUGGCGAGAAAGCCGAAUGCAUUCAGCAUUUCAGCU
((.(((((.(((..(((((............))))).))).-.))))).)-)((.(((((((....(((((((......))))...)))....)).))))).)) ( -27.00)
>DroYak_CAF1 121412 102 + 1
GUCGUAUUUCAGCCAGCUUGUCAACAUUUUAAAGCUCUUGU-CGGUGCAU-UGGGUAGAAGCAAUUUGCAGGCGAGAAGGCCGAGUGCAUUCAGCAUUUCAGAU
(((........(((.((((............))))((((((-(..((((.-...((....))....))))))))))).))).((((((.....))))))..))) ( -24.80)
>consensus
AACGCAUUUCAGCCAGCUUGUCAACAUUUUAAAGCUCUUGU_UGGAGCAU_UGGGUGGAAGCAAUUUGCUGGCGAGAAAGCCGAGUGCAUUCAGCAUUUCAGCU
...((.((((.((((((((((...(((((....(((((.....)))))....)))))...))))...))))))..)))))).((((((.....))))).).... (-25.78 = -26.38 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:10 2006