Locus 703

Sequence ID X_DroMel_CAF1
Location 1,929,586 – 1,929,747
Length 161
Max. P 0.716792
window1128 window1129

overview

Window 8

Location 1,929,586 – 1,929,679
Length 93
Sequences 3
Columns 93
Reading direction reverse
Mean pairwise identity 97.85
Mean single sequence MFE -25.59
Consensus MFE -24.39
Energy contribution -24.72
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.76
Structure conservation index 0.95
SVM decision value 0.39
SVM RNA-class probability 0.716792
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1929586 93 - 22224390
UGGAAACAAACACCUGCCACUGUGGAACCACUCAAGGCGCGCACCAUUCGAACUGGUCCGGCAGCACUGGCCAGACGUAAACAAGCGAACUUU
((....)).......(((...(((....)))....))).(((......((..((((.((((.....)))))))).)).......)))...... ( -24.12)
>DroSec_CAF1 989 93 - 1
UGGAAACAAACACCUGCCACUGUGGAAACACUCAAGGCGCUCACCAUUCGAACUGGUCCGGCAGCACUGGCCAGACGUAAACAAGCAAACUUU
((....)).......(((...(((....)))....)))(((.......((..((((.((((.....)))))))).))......)))....... ( -26.32)
>DroSim_CAF1 1257 93 - 1
UGGAAACAAACACCUGCCACUGUGGAAACACUCAAGGCGCUCACCAUUCGAACUGGUCCGGCAGCACUGGCCAGACGUAAACAAGCAAACUUU
((....)).......(((...(((....)))....)))(((.......((..((((.((((.....)))))))).))......)))....... ( -26.32)
>consensus
UGGAAACAAACACCUGCCACUGUGGAAACACUCAAGGCGCUCACCAUUCGAACUGGUCCGGCAGCACUGGCCAGACGUAAACAAGCAAACUUU
((....)).......(((...(((....)))....)))(((.......((..((((.((((.....)))))))).))......)))....... (-24.39 = -24.72 +   0.33)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 9

Location 1,929,639 – 1,929,747
Length 108
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 81.29
Mean single sequence MFE -37.80
Consensus MFE -25.20
Energy contribution -25.82
Covariance contribution 0.62
Combinations/Pair 1.17
Mean z-score -1.68
Structure conservation index 0.67
SVM decision value 0.15
SVM RNA-class probability 0.605481
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1929639 108 - 22224390
AGCUCCAUUUCACUCGAUU-----------GGGACGGCACACU-GUGAUCCGGGCAGUGUGCCCGACGCUCGCGUUUGCUUGGAAACAAACACCUGCCACUGUGGAACCACUCAAGGCGC
.(..(((..((....)).)-----------))..)((((((((-((.......)))))))))).((((....))))((.(((....))).))...(((...(((....)))....))).. ( -36.50)
>DroSec_CAF1 1042 108 - 1
AGCUUCAUUUUACUCUACU-----------GAGACGGCACACU-GCGAUCCGGGCAGUGUGCCCGUCGCUCGCGUUUGCUUGGAAACAAACACCUGCCACUGUGGAAACACUCAAGGCGC
(((..........((....-----------))(((((((((((-((.......)))))))).)))))))).((...((.(((....))).))...(((...(((....)))....))))) ( -40.50)
>DroSim_CAF1 1310 108 - 1
AGCUUCAUUUUACUCGACU-----------GAGACGGCACACU-GCGAUCCGGGCAGUGUGCCCGUCGCUCGCGUUUGCUUGGAAACAAACACCUGCCACUGUGGAAACACUCAAGGCGC
.((........((.(((..-----------..(((((((((((-((.......)))))))).)))))..))).)).((.(((....))).))...(((...(((....)))....))))) ( -40.60)
>DroEre_CAF1 1142 114 - 1
AGCUCCAUUUCACUCUAUUGGAUUCCAAUUGGAACGCCGCACCAGGGAUACGAGCAGUGUGCCCAUC--UCCCGUUUGCCAGGGA----ACACCUGCCACUGUGGUCCCACUCAAAGCGC
.(((...............((.((((....))))..))......(((((....((((((.((.....--((((........))))----......)))))))).)))))......))).. ( -33.60)
>consensus
AGCUCCAUUUCACUCGACU___________GAGACGGCACACU_GCGAUCCGGGCAGUGUGCCCGUCGCUCGCGUUUGCUUGGAAACAAACACCUGCCACUGUGGAAACACUCAAGGCGC
.(((...............................((((.....((((..(((((.....)))))....))))(((((........)))))...))))...(((....)))....))).. (-25.20 = -25.82 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:34 2006