Locus 5288

Sequence ID 3L_DroMel_CAF1
Location 14,603,149 – 14,603,245
Length 96
Max. P 0.888845
window8362

overview

Window 2

Location 14,603,149 – 14,603,245
Length 96
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.13
Mean single sequence MFE -32.48
Consensus MFE -15.97
Energy contribution -17.11
Covariance contribution 1.14
Combinations/Pair 1.10
Mean z-score -2.08
Structure conservation index 0.49
SVM decision value 0.95
SVM RNA-class probability 0.888845
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14603149 96 - 23771897
GCUGACGAUUCUUUUGGCUUUUGUUGUCAC-----------AGCAGUGGCUGCCGG--C----UGGGAGAU---CCCAUUUCUGUCAGCAUCGUCAGCUAAUUACGCGAAAU----UGCC
(((((((((.....((((..(..((((...-----------.))))..)..))))(--(----(((.(((.---......))).)))))))))))))).......(((....----))). ( -36.10)
>DroSec_CAF1 2222 96 - 1
GCUGACGAUUCUUUUGGCUUUUGUUGUCAC-----------AGCAGUGGCUGCCGG--C----UGGGAGAU---CCCAUUUCUGUCAGCAUCGUCAGCUAAUUACGCGAAAU----UGCC
(((((((((.....((((..(..((((...-----------.))))..)..))))(--(----(((.(((.---......))).)))))))))))))).......(((....----))). ( -36.10)
>DroEre_CAF1 5029 106 - 1
GCUGACGAUUCUUUUGGCUUUUGUUGUCACAGUC-----ACAGCAGCGGCUGGCUG--CCGCAUGGGAGAU---CCCAUUUCUGUCAGCAUCGUCAGCUAAUUACGCGAAAU----UGCC
(((((((((....(((((...((((((.......-----))))))(((((.....)--))))(((((....---)))))....))))).))))))))).......(((....----))). ( -39.30)
>DroYak_CAF1 4915 107 - 1
GCUGACGAUUCUUUUGGCCUUUGUUGUCACAGUCAUCCCACAGCAGCUGCUGCCUA--C----UGGGGGAU---CCCAUUUCUGUCAGCAUCGUCAGCUAAUUACGCGAAAU----UGCC
((((((((.((....))....(((((..((((..(((((.((((....))))((..--.----.)))))))---.......))))))))))))))))).......(((....----))). ( -31.60)
>DroAna_CAF1 3752 85 - 1
UCUGACGAUUC----GGCUUUUGUUGUCAC-----------AGCAGG-GCU------------UGGGAGAU---CCCAUUUCUGUCAGCAUCGUCAGCUAAUUACGCGAAAU----UGCC
.((((((((.(----(((.......)))..-----------.(((((-(..------------((((....---)))).))))))..).))))))))........(((....----))). ( -25.10)
>DroPer_CAF1 7634 98 - 1
GCUGACG----UUUUGCCUUUUGUUGUAGC-----------CUCAUUCCUCGCUCGUUC----CGAGGGAUACACACACUCGUGCGAGU---GUCGGCUAAUUGCGCGAUAUUUAUUCCC
.......----..((((.....((..((((-----------(..((((((((.......----))))))))....((((((....))))---)).)))))...))))))........... ( -26.70)
>consensus
GCUGACGAUUCUUUUGGCUUUUGUUGUCAC___________AGCAGUGGCUGCCGG__C____UGGGAGAU___CCCAUUUCUGUCAGCAUCGUCAGCUAAUUACGCGAAAU____UGCC
(((((((((......(((..(((((................)))))..))).............(((.......)))............)))))))))...................... (-15.97 = -17.11 +   1.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:26 2006