Locus 3756

Sequence ID 2L_DroMel_CAF1
Location 10,907,046 – 10,907,141
Length 95
Max. P 0.999284
window5913 window5914

overview

Window 3

Location 10,907,046 – 10,907,141
Length 95
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 55.66
Mean single sequence MFE -29.50
Consensus MFE -16.83
Energy contribution -18.07
Covariance contribution 1.23
Combinations/Pair 1.30
Mean z-score -1.96
Structure conservation index 0.57
SVM decision value 3.48
SVM RNA-class probability 0.999284
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10907046 95 + 22407834
AUUCAUUAAUAUGAAUAUA-CAAAUU---------UUGACUCACCGCGGUUACCAUGGUGGGCAAUGCCAACUUGGCCACGGUGGUGGCCGGCGACAGCGUGGUC
((((((....))))))...-......---------..(((.(((..((((((((((.((((.(((.......))).)))).))))))))))((....)))))))) ( -37.90)
>DroVir_CAF1 49690 100 + 1
GUUCAUUUAAAUAAUUAAACUUAAUU-----CUAAAUUACCCACCAAAGGGACCAAAGAGCCUAAGACAAUGUUCGCCACAAAUGUGGCCGGCGCAAUGCUGGUG
..........................-----........(((......)))((((....(((...((......))(((((....))))).)))((...)))))). ( -20.40)
>DroYak_CAF1 226 96 + 1
--AGACUAA------GAUA-UUAGUUUUUUUUUAAGUAACUCACCCCCUUUAUCAUGGUGGGCAGAGUCAGCUUGGCCACGGUGGUGGCCGGGGACAAAGUGGUC
--(((((((------....-)))))))...........((((.(((((........)).)))..))))...(((((((((....)))))))))(((......))) ( -30.20)
>consensus
_UUCAUUAA_AU_A_UAUA_UUAAUU______UAAAUAACUCACCACAGUUACCAUGGUGGGCAAAGCCAACUUGGCCACGGUGGUGGCCGGCGACAAAGUGGUC
..........................................(((((((((((....))))))........(((((((((....)))))))))......))))). (-16.83 = -18.07 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 10,907,046 – 10,907,141
Length 95
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 55.66
Mean single sequence MFE -28.20
Consensus MFE -12.32
Energy contribution -13.10
Covariance contribution 0.78
Combinations/Pair 1.15
Mean z-score -2.11
Structure conservation index 0.44
SVM decision value 1.84
SVM RNA-class probability 0.979518
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10907046 95 - 22407834
GACCACGCUGUCGCCGGCCACCACCGUGGCCAAGUUGGCAUUGCCCACCAUGGUAACCGCGGUGAGUCAA---------AAUUUG-UAUAUUCAUAUUAAUGAAU
((((((((.((..((((((((....))))))..((.(((...))).))...))..)).)).))).)))..---------......-...((((((....)))))) ( -32.70)
>DroVir_CAF1 49690 100 - 1
CACCAGCAUUGCGCCGGCCACAUUUGUGGCGAACAUUGUCUUAGGCUCUUUGGUCCCUUUGGUGGGUAAUUUAG-----AAUUAAGUUUAAUUAUUUAAAUGAAC
((((((((..(.(((.(((((....)))))((......))...))).)..))......))))))..........-----......((((((....)))))).... ( -21.80)
>DroYak_CAF1 226 96 - 1
GACCACUUUGUCCCCGGCCACCACCGUGGCCAAGCUGACUCUGCCCACCAUGAUAAAGGGGGUGAGUUACUUAAAAAAAAACUAA-UAUC------UUAGUCU--
(((............((((((....))))))(((.((((((.((((.((........))))))))))))))).............-....------...))).-- ( -30.10)
>consensus
GACCACCAUGUCGCCGGCCACCACCGUGGCCAAGAUGGCAUUGCCCACCAUGGUAACCGCGGUGAGUAAAUUA______AAUUAA_UAUA_U_AU_UUAAUGAA_
..........(((((((((((....))))))..((.......))................)))))........................................ (-12.32 = -13.10 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:17 2006