Locus 4783

Sequence ID 3R_DroMel_CAF1
Location 12,514,061 – 12,514,179
Length 118
Max. P 0.712788
window7847 window7848

overview

Window 7

Location 12,514,061 – 12,514,179
Length 118
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 93.84
Mean single sequence MFE -29.10
Consensus MFE -26.03
Energy contribution -26.03
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.96
Structure conservation index 0.89
SVM decision value 0.38
SVM RNA-class probability 0.712788
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12514061 118 + 27905053
UUCCAGCUUUCCCAUGCCCCAUCGAAAUGGAAAAUGGA-AAUGCCAACAGUUGCGACUGGGAAAACAACAGCAAGGAGGAGCAAGUGGAGCAAAACAAAACAAAGCUGAAAUGCGGAAA
((((.((((..((.((((((((((((.(((...((...-.)).)))....)).))).)))).........))).))..))))......................((......)))))). ( -28.10)
>DroSec_CAF1 3149 112 + 1
UUCCAGCUUUCCCAUGCCCCCUCGAAA-------UGGAAAAUGCCAACAGUUGCGACUGGGAAAACAACAGCAAGGAGGAGCAAGUGGAGCAAAACAAAACAAAGCUGAAAUGCGGAAA
((((.((((..(..(((..((((....-------(((......)))....((((...((......))...)))).)))).))).)..)))).............((......)))))). ( -27.90)
>DroSim_CAF1 3213 119 + 1
UUCCAGCUUUCCCAUGCUCCCUCGGAAUGGAAAAUGGAAAAUGCCAACAGUUGCGACUGGGAAAACAACAGCAAGGAGGAGCAAGUGGAGCAAAACAAAACAAAGCUGAAAUGCGGAAA
((((.((((..(..((((((..(...........(((......)))....((((...((......))...)))))..)))))).)..)))).............((......)))))). ( -31.30)
>consensus
UUCCAGCUUUCCCAUGCCCCCUCGAAAUGGAAAAUGGAAAAUGCCAACAGUUGCGACUGGGAAAACAACAGCAAGGAGGAGCAAGUGGAGCAAAACAAAACAAAGCUGAAAUGCGGAAA
((((.((((..(..(((.((..(...........(((......)))....((((...((......))...)))))..)).))).)..)))).............((......)))))). (-26.03 = -26.03 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 12,514,061 – 12,514,179
Length 118
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 93.84
Mean single sequence MFE -29.60
Consensus MFE -28.89
Energy contribution -28.67
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -1.35
Structure conservation index 0.98
SVM decision value 0.01
SVM RNA-class probability 0.539580
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12514061 118 - 27905053
UUUCCGCAUUUCAGCUUUGUUUUGUUUUGCUCCACUUGCUCCUCCUUGCUGUUGUUUUCCCAGUCGCAACUGUUGGCAUU-UCCAUUUUCCAUUUCGAUGGGGCAUGGGAAAGCUGGAA
........((((((((((.........((((.((.((((..((....((....))......))..)))).))..))))..-(((((.((((((....)))))).))))))))))))))) ( -29.50)
>DroSec_CAF1 3149 112 - 1
UUUCCGCAUUUCAGCUUUGUUUUGUUUUGCUCCACUUGCUCCUCCUUGCUGUUGUUUUCCCAGUCGCAACUGUUGGCAUUUUCCA-------UUUCGAGGGGGCAUGGGAAAGCUGGAA
........((((((((((((........))((((..((((((..(((((..(((......)))..))))....(((......)))-------....)..)))))))))))))))))))) ( -29.20)
>DroSim_CAF1 3213 119 - 1
UUUCCGCAUUUCAGCUUUGUUUUGUUUUGCUCCACUUGCUCCUCCUUGCUGUUGUUUUCCCAGUCGCAACUGUUGGCAUUUUCCAUUUUCCAUUCCGAGGGAGCAUGGGAAAGCUGGAA
........((((((((((((........))((((..((((((..(((((..(((......)))..))))....(((......)))...........)..)))))))))))))))))))) ( -30.10)
>consensus
UUUCCGCAUUUCAGCUUUGUUUUGUUUUGCUCCACUUGCUCCUCCUUGCUGUUGUUUUCCCAGUCGCAACUGUUGGCAUUUUCCAUUUUCCAUUUCGAGGGGGCAUGGGAAAGCUGGAA
........((((((((((((........))((((..((((((..(((((..(((......)))..))))....(((......)))...........)..)))))))))))))))))))) (-28.89 = -28.67 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:49 2006