Locus 3440

Sequence ID 3L_DroMel_CAF1
Location 10,095,809 – 10,095,904
Length 95
Max. P 0.941205
window5372

overview

Window 2

Location 10,095,809 – 10,095,904
Length 95
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 78.88
Mean single sequence MFE -24.33
Consensus MFE -14.56
Energy contribution -16.95
Covariance contribution 2.39
Combinations/Pair 1.05
Mean z-score -2.40
Structure conservation index 0.60
SVM decision value 1.32
SVM RNA-class probability 0.941205
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10095809 95 + 23771897
CACUUCAUU-ACC-G----------------CAACACCAAAGCUAUACCCCAU-UUGGCCACCCAU-CC-GGGUGGCUUCCAUUAUAAUUGAGUGCAAAAUUAUGCAUUGAAGUCG
.(((((...-...-.----------------......................-..((((((((..-..-)))))))).............((((((......))))))))))).. ( -25.10)
>DroSec_CAF1 34802 95 + 1
CACUUCAUU-ACC-C----------------CAACGCCAGAGCUAUACCCCAU-UUGGCCACCCAU-CC-GGGUUGCUUCCAUUAUAAUUGAGUGCAAAAUUAUGCAUUGAAGUCG
.(((((...-...-.----------------........((((...((((...-.(((....))).-..-)))).))))............((((((......))))))))))).. ( -21.00)
>DroSim_CAF1 35624 95 + 1
CACUUCAUU-ACC-C----------------CAACGCCAAAGCUAUACCCCAU-UUGGCCACCCAU-CC-GGGUGGCUUCCAUUAUAAUUGAGUGCAAAAUUAUGCAUUGAAGUCG
.(((((...-...-.----------------(((.((....))..........-..((((((((..-..-))))))))..........)))((((((......))))))))))).. ( -25.50)
>DroEre_CAF1 39334 82 + 1
CACUUCAUU-ACC-G----------------CAACGCCAAAGCUACACC-CAU-UU--------------GGGUGGCUUCCAUUAUAAUUGAGUGCAAAAUUAUGCAUUGAAGUCG
.(((((...-...-(----------------(...((....))..((((-(..-..--------------)))))))..............((((((......))))))))))).. ( -20.90)
>DroYak_CAF1 36840 96 + 1
CACUUCAUU-ACCCC----------------CAACGCCAAAGCUCUACCCCAU-UUGGCCACCCAG-CC-GGGUGGCUCCCAUUAUAAUUGAGUGCAAAAUUAUGCAUUGAAGUCG
.((((((..-.....----------------..........((((........-..((((((((..-..-))))))))............))))(((......)))..)))))).. ( -26.15)
>DroPer_CAF1 39454 116 + 1
UACUUCAUCUACCAACACCCGCACGAGCCGCCGCCGCCCCCGCCUCACCCGCUCGUGCCCACUCCCUCAGCGAAGGCGUCCAUUAUAAUUGAGUGCAAAAUUAUGCAUUGAAGCCG
..((((......(((.....((((((((.......((....)).......))))))))...........((....))...........)))((((((......))))))))))... ( -27.34)
>consensus
CACUUCAUU_ACC_C________________CAACGCCAAAGCUAUACCCCAU_UUGGCCACCCAU_CC_GGGUGGCUUCCAUUAUAAUUGAGUGCAAAAUUAUGCAUUGAAGUCG
.(((((..................................................((((((((......)))))))).............((((((......))))))))))).. (-14.56 = -16.95 +   2.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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