Locus 7343

Sequence ID 3L_DroMel_CAF1
Location 19,703,747 – 19,703,882
Length 135
Max. P 0.961577
window11925 window11926

overview

Window 5

Location 19,703,747 – 19,703,853
Length 106
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.55
Mean single sequence MFE -30.62
Consensus MFE -21.74
Energy contribution -23.26
Covariance contribution 1.52
Combinations/Pair 1.06
Mean z-score -2.51
Structure conservation index 0.71
SVM decision value 1.10
SVM RNA-class probability 0.915083
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19703747 106 - 23771897
UACAUAUU--------UAUGUAGUUAU------AGUCCAUCAAAUGUGGGCUACGAAUCUUUUUUUAGUCGCUCGCACAGCCGCGGCUUUGGCAUGUGUAGACACUAAACUUAUUAAUAA
(((((...--------.))))).(..(------(((((((.....))))))))..).......((((((..((.(((((((((......)))).)))))))..))))))........... ( -26.60)
>DroSec_CAF1 17824 109 - 1
UACAUACGUA-----GUAUGUAGUUAU------AGUCCAUCAAAUGUGGGCUACGAAUCUUUUUUUAGUCGCUCGCACAGCCGUGGCUUUGGCAUGUGUAGGCACUAAACUUAUUAAUAA
(((((((...-----))))))).(..(------(((((((.....))))))))..).......((((((.(((..((((((((......)))).))))..)))))))))........... ( -35.60)
>DroSim_CAF1 19981 114 - 1
UACAUAUGUGUGUAUGUAUGUAGUUAU------AGUCCAUCAAAUGUGGGCUACGAAUCUUUUUUUAGUCGCUCGCACAGCCGUGGCUUUGGCAUGUGUAGACACUAAACUUAUUAAUAA
(((((((((....))))))))).(..(------(((((((.....))))))))..).......((((((..((.(((((((((......)))).)))))))..))))))........... ( -31.00)
>DroEre_CAF1 18728 104 - 1
--GGUAU--------GUAUGUAGUGAUAUUCGUAGUCCAUCAAAUGUGGGCUACGAAUCUUU-UUUAGUCGCUCG-----CCGAAGCUUUGGCAUGUGUAGACACUAAACUUAUUAAUAA
--((((.--------((...(((((..(((((((((((((.....)))))))))))))....-......(((..(-----((((....)))))..)))....))))).)).))))..... ( -31.50)
>DroYak_CAF1 18322 112 - 1
UACAUAU--------GUAUGUAGUAAUACGCGCAGUCCAUCAAAUGUGGGCUACGAAUCUUUUUUUAGUCGCUCGCACAGCCGGAGCUUUGGCAUGUGUAGACACUAAACUUAUUAAUAA
.......--------(..((((....))))..)(((((((.....)))))))...........((((((..((.((((((((((....))))).)))))))..))))))........... ( -28.40)
>consensus
UACAUAU________GUAUGUAGUUAU______AGUCCAUCAAAUGUGGGCUACGAAUCUUUUUUUAGUCGCUCGCACAGCCGUGGCUUUGGCAUGUGUAGACACUAAACUUAUUAAUAA
(((((((........)))))))...........(((((((.....)))))))...........((((((..((.(((((((((......)))).)))))))..))))))........... (-21.74 = -23.26 +   1.52)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 6

Location 19,703,787 – 19,703,882
Length 95
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 76.95
Mean single sequence MFE -30.40
Consensus MFE -16.45
Energy contribution -18.83
Covariance contribution 2.37
Combinations/Pair 1.04
Mean z-score -2.51
Structure conservation index 0.54
SVM decision value 1.53
SVM RNA-class probability 0.961577
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19703787 95 - 23771897
GAG-----------CUGGCCGAGCUGAUAUAUACGUAGUAUACAUAUU--------UAUGUAGUUAU------AGUCCAUCAAAUGUGGGCUACGAAUCUUUUUUUAGUCGCUCGCACAG
...-----------(((..(((((.(((...(((((((.........)--------)))))).(..(------(((((((.....))))))))..)...........))))))))..))) ( -25.70)
>DroSec_CAF1 17864 109 - 1
GAGCUGGCAGAGCGCUGGCCGAGCUGAUAUAUACGUAGUAUACAUACGUA-----GUAUGUAGUUAU------AGUCCAUCAAAUGUGGGCUACGAAUCUUUUUUUAGUCGCUCGCACAG
...(((((.(((((((((...((((.(((((((((((.......))))).-----)))))))))).(------(((((((.....))))))))...........)))).))))))).))) ( -33.90)
>DroSim_CAF1 20021 107 - 1
-------CAGAGCGCUGGCCGAGCUGAUAUAUACGUAGUAUACAUAUGUGUGUAUGUAUGUAGUUAU------AGUCCAUCAAAUGUGGGCUACGAAUCUUUUUUUAGUCGCUCGCACAG
-------.......(((..(((((...((((((((((.(((((....))))))))))))))).(..(------(((((((.....))))))))..)..............)))))..))) ( -33.20)
>DroYak_CAF1 18362 87 - 1
GAGC--------------------UGCUAUAUAC-----AUACAUAU--------GUAUGUAGUAAUACGCGCAGUCCAUCAAAUGUGGGCUACGAAUCUUUUUUUAGUCGCUCGCACAG
((((--------------------((((((((((-----((....))--------)))))))))).....((.(((((((.....))))))).))...............))))...... ( -28.80)
>consensus
GAG___________CUGGCCGAGCUGAUAUAUACGUAGUAUACAUAUG_______GUAUGUAGUUAU______AGUCCAUCAAAUGUGGGCUACGAAUCUUUUUUUAGUCGCUCGCACAG
..............(((..(((((.(((............(((((((........)))))))...........(((((((.....)))))))...............))))))))..))) (-16.45 = -18.83 +   2.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:29 2006