Locus 5280

Sequence ID 3L_DroMel_CAF1
Location 14,579,498 – 14,579,594
Length 96
Max. P 0.860034
window8351 window8352

overview

Window 1

Location 14,579,498 – 14,579,594
Length 96
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 86.34
Mean single sequence MFE -35.83
Consensus MFE -29.59
Energy contribution -29.59
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.97
Structure conservation index 0.83
SVM decision value 0.42
SVM RNA-class probability 0.727872
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14579498 96 + 23771897
GACCGAUCGAUCG---GAU---UGUUGGAUCGAUCGUAU-----------AGAUCGGAUCGAUGGAAGCACUUGUUGCGUGGUUGGUGGUUCUCCAUUAAAUCGCCUCCCAUC
((((((((.....---(((---((......)))))....-----------.)))))).))(((((..(((.....)))(((((((((((....))))).))))))...))))) ( -32.20)
>DroSec_CAF1 54296 96 + 1
GACCGAUCGAUCG---GAU---CAUUGGAUCGAUCGUAU-----------AGAUCGGAUCGAUGGAGGCACUUGUUGCGUGGUUGGUGGUUCUCCAUUAAAUCGCGUCCCAUC
..((.(((((((.---(((---(....))))((((....-----------.)))).))))))))).......((..(((((((((((((....))))).))))))))..)).. ( -34.80)
>DroYak_CAF1 56022 113 + 1
GACCGAUCGAUCGAUCGUUGGAUGUUGGAUCGAUCGUAUCGAAUCGGAACAGAUCGGAUCGAUGGAAGCACUUGUUGCGUGGUUGGUGGUUCUCCAUUAAAUCGCCUCCCAUC
((((((((((((((((...........))))))))((.(((...))).)).)))))).))(((((..(((.....)))(((((((((((....))))).))))))...))))) ( -40.50)
>consensus
GACCGAUCGAUCG___GAU___UGUUGGAUCGAUCGUAU___________AGAUCGGAUCGAUGGAAGCACUUGUUGCGUGGUUGGUGGUUCUCCAUUAAAUCGCCUCCCAUC
...(((((((((...............)))))))))........................(((((..(((.....)))(((((((((((....))))).))))))...))))) (-29.59 = -29.59 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 14,579,498 – 14,579,594
Length 96
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 86.34
Mean single sequence MFE -29.98
Consensus MFE -26.35
Energy contribution -26.13
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.00
Structure conservation index 0.88
SVM decision value 0.82
SVM RNA-class probability 0.860034
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14579498 96 - 23771897
GAUGGGAGGCGAUUUAAUGGAGAACCACCAACCACGCAACAAGUGCUUCCAUCGAUCCGAUCU-----------AUACGAUCGAUCCAACA---AUC---CGAUCGAUCGGUC
((((((((.........(((....))).....(((.......)))))))))))..........-----------...(((((((((.....---...---.)))))))))... ( -27.80)
>DroSec_CAF1 54296 96 - 1
GAUGGGACGCGAUUUAAUGGAGAACCACCAACCACGCAACAAGUGCCUCCAUCGAUCCGAUCU-----------AUACGAUCGAUCCAAUG---AUC---CGAUCGAUCGGUC
.(((((.((.((((..((((((...(((..............))).)))))).)))))).)))-----------)).(((((((((.....---...---.)))))))))... ( -27.54)
>DroYak_CAF1 56022 113 - 1
GAUGGGAGGCGAUUUAAUGGAGAACCACCAACCACGCAACAAGUGCUUCCAUCGAUCCGAUCUGUUCCGAUUCGAUACGAUCGAUCCAACAUCCAACGAUCGAUCGAUCGGUC
((((((((.........(((....))).....(((.......)))))))))))((.((((((.((..((...))..))((((((((...........)))))))))))))))) ( -34.60)
>consensus
GAUGGGAGGCGAUUUAAUGGAGAACCACCAACCACGCAACAAGUGCUUCCAUCGAUCCGAUCU___________AUACGAUCGAUCCAACA___AUC___CGAUCGAUCGGUC
(((.(((..(((.....(((((...(((..............))).)))))))).))).)))...............(((((((((...............)))))))))... (-26.35 = -26.13 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:17 2006