Locus 1249

Sequence ID 3L_DroMel_CAF1
Location 3,553,834 – 3,553,929
Length 95
Max. P 0.769121
window1958

overview

Window 8

Location 3,553,834 – 3,553,929
Length 95
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 76.58
Mean single sequence MFE -31.22
Consensus MFE -13.27
Energy contribution -14.09
Covariance contribution 0.82
Combinations/Pair 1.18
Mean z-score -2.24
Structure conservation index 0.42
SVM decision value 0.52
SVM RNA-class probability 0.769121
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3553834 95 - 23771897
GGCACUGAGGUGUUAAUACUUUG--GGGUGGCUAUCCCUAAAAAAAUGGGGGUAGAACU-GGGAU-GGGUGCUCGCAUUAAAAUGCCGCCAACGCA-AGU
(((.(..(((((....)))))..--)(((..(((((((((......))))))))).)))-((.((-.((((....))))...)).))))).((...-.)) ( -33.50)
>DroGri_CAF1 97335 75 - 1
GGCAACGACGUGUUAAG----------GCUGCUGCC---A---------GAGCUGAGCU-GGGCU-GGUGGGUGGCAUUAAAAUGCCGCAAACGCA-AGU
(....)...(((((...----------.(..(((((---.---------.(((...)))-.))).-))..)(((((((....))))))).))))).-... ( -26.60)
>DroSec_CAF1 83840 95 - 1
GGCACUGAGGUGUUAAUACUUUG--GGGUGGCUAUCCCUA-AAAAAUGGGGGUAGAACG-GGGUUGGGGUGCUCGCAUUAAAAUGCCGCCAACGCA-AGU
(((.(..(((((....)))))..--).((..(((((((((-.....))))))))).))(-(.(((..((((....))))..))).))))).((...-.)) ( -35.00)
>DroEre_CAF1 102132 95 - 1
GGCACCGAGGUGUUAAUACU-UG--GGGUGGCCAUCCCUA-AAAAAUGAGGCUAGAAGGUGGAUAGGGGUGCUCGCAUUAAAAUGCCGCCAACGCA-AGU
(((((....)))))...(((-((--.(.((((((((((((-......................))))))))...((((....)))).)))).).))-))) ( -28.75)
>DroYak_CAF1 87245 95 - 1
GGCACCGAGGUGUUAAUACU-UG--GGGUGGCUAUCCCUA-AAAAAUGAGGGUGGAAUGUGGAUAGGGGUGCUCGCAUUAAAAUGCCGCCAACGCA-AGU
.((.(((((.........))-))--)((((((...((((.-.......))))...((((((..((....))..)))))).....))))))...)).-... ( -30.10)
>DroAna_CAF1 95122 98 - 1
GGCACAGAGGUGUUAAUACUUGGGGGGGUGGCUACCCCCA-AAAA-GGCGGAAAAAAAGCGAGGAGGGGUGCUUGCAUUAAAAUGCCGCCAACGCAAAGU
.........(((((.....(((((((........))))))-)...-(((((.......(((((........))))).........))))))))))..... ( -33.39)
>consensus
GGCACCGAGGUGUUAAUACU_UG__GGGUGGCUAUCCCUA_AAAAAUGAGGGUAGAACG_GGGUAGGGGUGCUCGCAUUAAAAUGCCGCCAACGCA_AGU
(((((....)))))............((((((((((((...........................)))))).............)))))).......... (-13.27 = -14.09 +   0.82)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:04 2006