Locus 4880

Sequence ID 3R_DroMel_CAF1
Location 12,841,709 – 12,841,815
Length 106
Max. P 0.997508
window7990

overview

Window 0

Location 12,841,709 – 12,841,815
Length 106
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 76.70
Mean single sequence MFE -28.15
Consensus MFE -16.34
Energy contribution -17.46
Covariance contribution 1.12
Combinations/Pair 1.10
Mean z-score -2.88
Structure conservation index 0.58
SVM decision value 2.87
SVM RNA-class probability 0.997508
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12841709 106 - 27905053
UCAAUGUGGUUUUUUCGAUUUUGGUUUUAAUGAUUUUAAUUU--UUUUUUUAGAUUUUAGUUGAAUGGAAACCUUUGUCGAAAGACCCGCAAUGGUAGCCUGAAGGUC
(((.(((((.(((((((((...((((((..(((((..(((((--.......)))))..)))))....))))))...))))))))).))))).)))..(((....))). ( -29.00)
>DroSec_CAF1 11002 107 - 1
UCAAUGUGGUUU-UUCGGUUUUGGUUUUAAUGUUUUUUUUUAAAUUUUUUUGGUUUUUAGUUGAAUGGAAACCUUUGUCGAAAGACCCGCAAUGGAAGCCUGAAGGUC
(((.((((((((-(((((....((((((...((((..((..(((((.....)))))..))..)))).))))))....)))))))).))))).)))..(((....))). ( -26.20)
>DroEre_CAF1 11170 83 - 1
UCAAUGUGGUU--UUCGGCUU-GGU----------------------UUUCAGUUUUUGGUCGACUGGAAACCUUUUUCGAAAGACCCGCUAUGGCAGCCUGAAGGUC
.......(..(--(((((((.-(((----------------------((((((((.......)))))))))))....((....))...((....)))))).))))..) ( -25.30)
>DroYak_CAF1 11062 84 - 1
UCAAUGUGGUUU-UUCGGAAU-GGU----------------------UUUCAGUUUUUGGUCGACUGGAAACCUUUGUCGAAAGACCCGCAAUGGAAGCCUGAAGGUC
(((.((((((((-(((((...-(((----------------------((((((((.......)))))))))))....)))))))).))))).)))..(((....))). ( -32.10)
>consensus
UCAAUGUGGUUU_UUCGGUUU_GGU______________________UUUCAGUUUUUAGUCGAAUGGAAACCUUUGUCGAAAGACCCGCAAUGGAAGCCUGAAGGUC
(((.(((((.((.((((((...(((......................((((((((.......)))))))))))...)))))).)).))))).)))..(((....))). (-16.34 = -17.46 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:05 2006