Locus 839

Sequence ID 3R_DroMel_CAF1
Location 2,872,744 – 2,872,857
Length 113
Max. P 0.859475
window1335

overview

Window 5

Location 2,872,744 – 2,872,857
Length 113
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 94.42
Mean single sequence MFE -30.69
Consensus MFE -26.77
Energy contribution -27.14
Covariance contribution 0.37
Combinations/Pair 1.07
Mean z-score -1.97
Structure conservation index 0.87
SVM decision value 0.82
SVM RNA-class probability 0.859475
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2872744 113 + 27905053
CAACAGC------AACAACAAGCUGAGGAAGAUGGUCCGGCCAGAAGUUUGGCCAACAUCUUU-UUGGCAUUUUCAGCGGUUUUGCAUUAAUUUAAAUUUCGAAUGUAAAUGAGCCAAUU
...((((------........))))(((((((((....((((((....))))))..)))))))-)).((.......))(((((((((((.............))))))...))))).... ( -29.82)
>DroSec_CAF1 3944 113 + 1
CAACAGC------AACAACAAGCUGAGGAAGAUGGUCCGGCCAGAAGUUUGGCCAACAGCUUU-UUGGCAUUUUCAGCGGUUUUGCAUUAAUUUAAAUUUCGAAUGCAAAUGAGCCAAUU
.....((------..(((.((((((.(((......)))((((((....))))))..)))))).-))))).........(((((((((((.............))))))...))))).... ( -32.22)
>DroSim_CAF1 4323 114 + 1
CAACAGC------AACAACAAGCUGAGGAAGAUGGUCCGGCCAGAAGUUUGGCCAACAGCUUUUUUGGCAUUUUCAGCGGUUUUGCAUUAAUUUAAAUUUCGAAUGCAAAUGAGCCAAUU
.......------........((((((((.........((((((....))))))....(((.....))).))))))))(((((((((((.............))))))...))))).... ( -31.22)
>DroEre_CAF1 4873 119 + 1
CAACAGCAACAGCAACAUCAAGCUGAGGAAGAUGGUCCGGCCAAAAGUUUACCCAACAGCUUU-UUGGCAUUUUCAGCGGUUUUGCAUUAAUUUAAAUUUCGAAUGCAAAUGAGCCAAUU
.....((....))........((((((((......))).((((((((((........))).))-)))))....)))))(((((((((((.............))))))...))))).... ( -29.52)
>consensus
CAACAGC______AACAACAAGCUGAGGAAGAUGGUCCGGCCAGAAGUUUGGCCAACAGCUUU_UUGGCAUUUUCAGCGGUUUUGCAUUAAUUUAAAUUUCGAAUGCAAAUGAGCCAAUU
.....................((((((((.........((((((....))))))....(((.....))).))))))))(((((((((((.............))))))...))))).... (-26.77 = -27.14 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:25 2006