Locus 7421

Sequence ID X_DroMel_CAF1
Location 18,513,757 – 18,513,934
Length 177
Max. P 0.981870
window12169 window12170

overview

Window 9

Location 18,513,757 – 18,513,859
Length 102
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 71.93
Mean single sequence MFE -39.13
Consensus MFE -20.09
Energy contribution -22.87
Covariance contribution 2.78
Combinations/Pair 1.04
Mean z-score -2.13
Structure conservation index 0.51
SVM decision value 0.80
SVM RNA-class probability 0.855145
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18513757 102 - 22224390
UGCGUUGGAUAGUUGGCUUC--U----------------GUGGACUUUUGUGGGUAUAUUCCGCAAGGGCAAGGGCUGCAGCUUCCCAGCUGCUACGAGAUCUGACCAAGCUCUAGCCCA
..........((((.((...--.----------------)).)))).(((((((.....)))))))((((.((((((((((((....))))))...(....)......)))))).)))). ( -37.10)
>DroSec_CAF1 22065 102 - 1
UGCGUUGGAUAGUUGGCUUC--U----------------CUGGGCUUUUGUGGGUAUAUUCCGCAAGGGCAAGGGCUGCAGCUUCUCAGCUGCUGCGAGAUCUGGCCAAGAUAUUGCCCA
.......((((.((((((((--(----------------(...(((((((((((.....)))))))))))....((.((((((....)))))).))))))...))))))..))))..... ( -41.20)
>DroEre_CAF1 21821 111 - 1
UGUGUUGGCU-GUUAUCUUUUGUGGGCUUUUUGGGCUUUUUGGGCUUUUGUGGGCAUAUUCCGCAAGGGCAAGGGCUGCAGCUUCCU--------CAAGAUUCGAGCAAGAUACAGCCGA
....((((((-((.((((..(((..(..(((((((........(((((((((((.....)))))))))))..((((....)))).))--------)))))..)..))))))))))))))) ( -39.10)
>consensus
UGCGUUGGAUAGUUGGCUUC__U________________CUGGGCUUUUGUGGGUAUAUUCCGCAAGGGCAAGGGCUGCAGCUUCCCAGCUGCU_CGAGAUCUGACCAAGAUAUAGCCCA
...........................................(((((((((((.....)))))))))))..((((.(((((......)))))......((((.....))))...)))). (-20.09 = -22.87 +   2.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 18,513,837 – 18,513,934
Length 97
Sequences 4
Columns 116
Reading direction reverse
Mean pairwise identity 69.45
Mean single sequence MFE -30.45
Consensus MFE -21.80
Energy contribution -23.05
Covariance contribution 1.25
Combinations/Pair 1.21
Mean z-score -1.66
Structure conservation index 0.72
SVM decision value 1.90
SVM RNA-class probability 0.981870
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18513837 97 - 22224390
-GUCGGCUAACCAGAUCUUAAAGUUAAGAUCUCAGAUCGAGACCCUUCGUCUCAGUCGUGGGCAAUCAGCCAAGGUUGCGUUGGAUAGUUGGCUUC--U----------------G
-((((((((.((((((((((....)))))))((((((.(((((.....))))).))).)))((((((......))))))..))).))))))))...--.----------------. ( -35.60)
>DroSec_CAF1 22145 83 - 1
-GUCGGCUAACCAGAUCUUAAAGUUAAGAUCUCAGAUCGAGACCCUUCGUCUC--------------GCCCAAGGUUGCGUUGGAUAGUUGGCUUC--U----------------C
-((((((((.((((((((((....)))))))...(..((((((.....)))))--------------)..)..........))).))))))))...--.----------------. ( -27.20)
>DroEre_CAF1 21893 114 - 1
AGAUGCUUAACCAGAUCUUAGAGCUAAGACCUCAGAUCGAAACCCUUGGUCUCACUCGUGGACAAUCGC-CAAGGUUGUGUUGGCU-GUUAUCUUUUGUGGGCUUUUUGGGCUUUU
.............(((((..(((.......))))))))(((((((..((((.(((....(((.(((.((-(((.......))))).-))).)))...)))))))....))).)))) ( -27.40)
>DroYak_CAF1 22887 113 - 1
AGUCGGCUAACCAGAUCUUAAAGUUAAGAUCUCGGAACGAAACCCUUGGUCUUACUCAUAGAUAAUCACACAAGGUUGUCUUGGAUAGUUGGCUUC--UUGGCUUCUUGG-CUUCU
(((((((((.((((.......(((.((((((..((........))..)))))))))....(((((((......))))))))))).)))))))))..--..((((....))-))... ( -31.60)
>consensus
_GUCGGCUAACCAGAUCUUAAAGUUAAGAUCUCAGAUCGAAACCCUUCGUCUCACUCGUGGACAAUCACCCAAGGUUGCGUUGGAUAGUUGGCUUC__U________________U
.((((((((.((((((((((....))))))).......(((((.....)))))........((((((......))))))..))).))))))))....................... (-21.80 = -23.05 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:31 2006