Locus 2089

Sequence ID 2L_DroMel_CAF1
Location 5,624,051 – 5,624,159
Length 108
Max. P 0.979808
window3376 window3377

overview

Window 6

Location 5,624,051 – 5,624,159
Length 108
Sequences 3
Columns 114
Reading direction forward
Mean pairwise identity 80.99
Mean single sequence MFE -25.00
Consensus MFE -19.45
Energy contribution -20.23
Covariance contribution 0.78
Combinations/Pair 1.04
Mean z-score -2.05
Structure conservation index 0.78
SVM decision value 1.13
SVM RNA-class probability 0.919348
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5624051 108 + 22407834
UACAGGAAACGGUCGAAUAAACUGGUUUUUAUUUUGCAAUGCAAUGCAGUUUGUGCAGACAGCUUAAGACCUUGUUAAAAA-GUCUUAAGAUUUCUGUUUUAAAGAACA-----
.(((((((...(((..((((((((.........((((...))))..))))))))...)))..((((((((.((.....)).-)))))))).)))))))...........----- ( -25.90)
>DroSec_CAF1 68046 114 + 1
UACAAGAAACUGUCGAAUAAACUGGUUUUUAUUUUGCAAUGCAUUGCAGUUAGUACAGAAAGCUUAAGACCUUGUUAAAAACGUCUUAAGAUUUCUGUUUUAAAGUAUGCCUAG
..........(((.(((((((......))))))).)))..((((.((..((((.(((((((.((((((((.((......)).)))))))).))))))).)))).)))))).... ( -27.50)
>DroSim_CAF1 69809 98 + 1
UACA----------------ACUGGUUUUUAUUUUGCAAUGCAUUGCAGUUAGUGCAGAAAGCUUAAGAGCUUGUUAAAAACGUCUUAAGAUUUCUGUUUUAAAGUAGAUUUAG
....----------------.((((..((((((((((((....))))))((((.(((((((.(((((((..((......))..))))))).))))))).)))))))))).)))) ( -21.60)
>consensus
UACA_GAAAC_GUCGAAUAAACUGGUUUUUAUUUUGCAAUGCAUUGCAGUUAGUGCAGAAAGCUUAAGACCUUGUUAAAAACGUCUUAAGAUUUCUGUUUUAAAGUACA__UAG
.................................(((((......)))))((((.(((((((.((((((((.((......)).)))))))).))))))).))))........... (-19.45 = -20.23 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 5,624,051 – 5,624,159
Length 108
Sequences 3
Columns 114
Reading direction reverse
Mean pairwise identity 80.99
Mean single sequence MFE -21.17
Consensus MFE -16.33
Energy contribution -17.00
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.49
Structure conservation index 0.77
SVM decision value 1.85
SVM RNA-class probability 0.979808
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5624051 108 - 22407834
-----UGUUCUUUAAAACAGAAAUCUUAAGAC-UUUUUAACAAGGUCUUAAGCUGUCUGCACAAACUGCAUUGCAUUGCAAAAUAAAAACCAGUUUAUUCGACCGUUUCCUGUA
-----...........((((((((((((((((-(((.....)))))))))))..(((((((.....))))((((...))))...................))).)))).)))). ( -20.50)
>DroSec_CAF1 68046 114 - 1
CUAGGCAUACUUUAAAACAGAAAUCUUAAGACGUUUUUAACAAGGUCUUAAGCUUUCUGUACUAACUGCAAUGCAUUGCAAAAUAAAAACCAGUUUAUUCGACAGUUUCUUGUA
.(((((..........(((((((.((((((((.((......)).)))))))).)))))))......(((((....)))))............)))))....((((....)))). ( -24.70)
>DroSim_CAF1 69809 98 - 1
CUAAAUCUACUUUAAAACAGAAAUCUUAAGACGUUUUUAACAAGCUCUUAAGCUUUCUGCACUAACUGCAAUGCAUUGCAAAAUAAAAACCAGU----------------UGUA
.................((((((.(((((((.((((.....))))))))))).)))))).......(((((....)))))..............----------------.... ( -18.30)
>consensus
CUA__UAUACUUUAAAACAGAAAUCUUAAGACGUUUUUAACAAGGUCUUAAGCUUUCUGCACUAACUGCAAUGCAUUGCAAAAUAAAAACCAGUUUAUUCGAC_GUUUC_UGUA
.................((((((.((((((((.((......)).)))))))).)))))).......((((......)))).................................. (-16.33 = -17.00 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:19 2006