Locus 559

Sequence ID 3L_DroMel_CAF1
Location 1,606,799 – 1,606,917
Length 118
Max. P 0.929670
window855 window856

overview

Window 5

Location 1,606,799 – 1,606,917
Length 118
Sequences 3
Columns 118
Reading direction forward
Mean pairwise identity 95.45
Mean single sequence MFE -27.63
Consensus MFE -25.02
Energy contribution -25.80
Covariance contribution 0.78
Combinations/Pair 1.02
Mean z-score -2.60
Structure conservation index 0.91
SVM decision value 1.20
SVM RNA-class probability 0.929670
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1606799 118 + 23771897
AAUUGAUUUGAGCGUAUCGUUAUGUAAAUGCAAAAUAAUGUGAUAUUAUUAAAUGCAUUUCAUUGAUAUAUAGACAAAACCAAGAGGAUUUGUGUAUAUCCUUCAAAUCGGACCUUCA
..((((((((((.((((((..(((.(((((((...(((((......)))))..))))))))))))))))(((.(((((.((....)).))))).)))....))))))))))....... ( -28.70)
>DroSec_CAF1 2852 116 + 1
GAUUGAUUUGAGCGUAUCGUUAUGUAAAUGCAAAAUAAUGUGAUAUUAUUAAAUGCAUUUCAUUGAUA--UAGACAAAACCAAGAGGAUUUGUGUAGAUACUUCGAAUCGGACCUUCA
..((((((((((.(((((((((((.(((((((...(((((......)))))..))))))))).)))).--((.(((((.((....)).))))).)))))))))))))))))....... ( -30.70)
>DroSim_CAF1 2862 116 + 1
GAUUGAUUUCAGCGUAUCGUUAUGUAAAUGCAAAAUAAUGUGAUAUUAUUAAAUGCAUUUCAUUGAUA--UAGACAAAACCAAGAGGAUUUGUAUAGAUACUUCGAAUCGGACCUUCA
..(((((((.((.(((((((((((.(((((((...(((((......)))))..))))))))).)))).--...(((((.((....)).)))))...))))))).)))))))....... ( -23.50)
>consensus
GAUUGAUUUGAGCGUAUCGUUAUGUAAAUGCAAAAUAAUGUGAUAUUAUUAAAUGCAUUUCAUUGAUA__UAGACAAAACCAAGAGGAUUUGUGUAGAUACUUCGAAUCGGACCUUCA
..((((((((((.(((((((((((.(((((((...(((((......)))))..))))))))).))))...((.(((((.((....)).))))).)))))))))))))))))....... (-25.02 = -25.80 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 6

Location 1,606,799 – 1,606,917
Length 118
Sequences 3
Columns 118
Reading direction reverse
Mean pairwise identity 95.45
Mean single sequence MFE -25.47
Consensus MFE -20.33
Energy contribution -21.33
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -3.22
Structure conservation index 0.80
SVM decision value 0.62
SVM RNA-class probability 0.802788
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1606799 118 - 23771897
UGAAGGUCCGAUUUGAAGGAUAUACACAAAUCCUCUUGGUUUUGUCUAUAUAUCAAUGAAAUGCAUUUAAUAAUAUCACAUUAUUUUGCAUUUACAUAACGAUACGCUCAAAUCAAUU
.........(((((((.(((((((.(((((.((....)).)))))...)))))).((((((((((...((((((.....)))))).))))))).))).......)..))))))).... ( -27.30)
>DroSec_CAF1 2852 116 - 1
UGAAGGUCCGAUUCGAAGUAUCUACACAAAUCCUCUUGGUUUUGUCUA--UAUCAAUGAAAUGCAUUUAAUAAUAUCACAUUAUUUUGCAUUUACAUAACGAUACGCUCAAAUCAAUC
.........((((.((.(((((...(((((.((....)).)))))...--.....((((((((((...((((((.....)))))).))))))).)))...)))))..)).)))).... ( -25.00)
>DroSim_CAF1 2862 116 - 1
UGAAGGUCCGAUUCGAAGUAUCUAUACAAAUCCUCUUGGUUUUGUCUA--UAUCAAUGAAAUGCAUUUAAUAAUAUCACAUUAUUUUGCAUUUACAUAACGAUACGCUGAAAUCAAUC
.........((((((..(((((...(((((.((....)).)))))...--.....((((((((((...((((((.....)))))).))))))).)))...)))))..)).)))).... ( -24.10)
>consensus
UGAAGGUCCGAUUCGAAGUAUCUACACAAAUCCUCUUGGUUUUGUCUA__UAUCAAUGAAAUGCAUUUAAUAAUAUCACAUUAUUUUGCAUUUACAUAACGAUACGCUCAAAUCAAUC
.........((((.((.(((((...(((((.((....)).)))))..........((((((((((...((((((.....)))))).))))))).)))...)))))..)).)))).... (-20.33 = -21.33 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:20 2006