Locus 5804

Sequence ID X_DroMel_CAF1
Location 15,048,306 – 15,048,405
Length 99
Max. P 0.980589
window9417 window9418

overview

Window 7

Location 15,048,306 – 15,048,405
Length 99
Sequences 3
Columns 102
Reading direction forward
Mean pairwise identity 82.94
Mean single sequence MFE -26.60
Consensus MFE -20.22
Energy contribution -19.67
Covariance contribution -0.55
Combinations/Pair 1.15
Mean z-score -2.93
Structure conservation index 0.76
SVM decision value 1.87
SVM RNA-class probability 0.980589
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15048306 99 + 22224390
GGGCGGGGAAAAUUGUUGCCGCUUUCAGUGGUUGAAAAAAAA--AGAAUCCGAGAAGGAAAAAAAAACUGCGAGCAGAGAAAACUCAGCGGAA-AACCCGCU
.((((((........((((.((((.((((..((....))...--....(((.....))).......)))).)))).(((....))).))))..-..)))))) ( -26.40)
>DroSec_CAF1 4222 94 + 1
AAGCGGGGAAAAUUGUUGCCGCUUUUAGUGGUUUAAAAAAAA---AACCCCGAGAAGGAA----AAACUGCGAGCAGAGAAAACUCAGCGGAA-AACCCGCU
.((((((........((((.((((.(((((((((.......)---))))((.....))..----..)))).)))).(((....))).))))..-..)))))) ( -27.00)
>DroEre_CAF1 3991 97 + 1
GGGCGGGGAAAACUGUUGCCGUUUUCAGUGGUUUAAAGAAGAAAAAAAGCGGAGUAGGA-----AAGCUGCGAGCAGUGAAAACUCAGCGGAAAAACGCGCU
.((((((....((((((((.((((((..(.((((............)))).).....))-----)))).)).)))))).....))).(((......)))))) ( -26.40)
>consensus
GGGCGGGGAAAAUUGUUGCCGCUUUCAGUGGUUUAAAAAAAA__AAAACCCGAGAAGGAA____AAACUGCGAGCAGAGAAAACUCAGCGGAA_AACCCGCU
.((((((.....((...(((((.....)))))....)).............................(((((((.........))).)))).....)))))) (-20.22 = -19.67 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 15,048,306 – 15,048,405
Length 99
Sequences 3
Columns 102
Reading direction reverse
Mean pairwise identity 82.94
Mean single sequence MFE -22.23
Consensus MFE -14.50
Energy contribution -14.83
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.55
Structure conservation index 0.65
SVM decision value 0.92
SVM RNA-class probability 0.883025
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15048306 99 - 22224390
AGCGGGUU-UUCCGCUGAGUUUUCUCUGCUCGCAGUUUUUUUUUCCUUCUCGGAUUCU--UUUUUUUUCAACCACUGAAAGCGGCAACAAUUUUCCCCGCCC
.(((((..-.......(((....)))(((.(((..........(((.....)))....--.....(((((.....))))))))))).........))))).. ( -23.30)
>DroSec_CAF1 4222 94 - 1
AGCGGGUU-UUCCGCUGAGUUUUCUCUGCUCGCAGUUU----UUCCUUCUCGGGGUU---UUUUUUUUAAACCACUAAAAGCGGCAACAAUUUUCCCCGCUU
((((((..-....((.(((....))).))..((.((((----((((.....))((((---(.......)))))...)))))).))..........)))))). ( -25.70)
>DroEre_CAF1 3991 97 - 1
AGCGCGUUUUUCCGCUGAGUUUUCACUGCUCGCAGCUU-----UCCUACUCCGCUUUUUUUCUUCUUUAAACCACUGAAAACGGCAACAGUUUUCCCCGCCC
...(((.......((.((((.....(((....)))...-----....)))).))......................(((((((....).))))))..))).. ( -17.70)
>consensus
AGCGGGUU_UUCCGCUGAGUUUUCUCUGCUCGCAGUUU____UUCCUUCUCGGAUUUU__UUUUUUUUAAACCACUGAAAGCGGCAACAAUUUUCCCCGCCC
.(((((.......((.((((.......)))))).................................................(....).......))))).. (-14.50 = -14.83 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:46 2006