Locus 6420

Sequence ID 3R_DroMel_CAF1
Location 16,800,842 – 16,800,949
Length 107
Max. P 0.852833
window10462

overview

Window 2

Location 16,800,842 – 16,800,949
Length 107
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 87.57
Mean single sequence MFE -33.60
Consensus MFE -28.52
Energy contribution -29.12
Covariance contribution 0.60
Combinations/Pair 1.14
Mean z-score -1.70
Structure conservation index 0.85
SVM decision value 0.80
SVM RNA-class probability 0.852833
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16800842 107 - 27905053
GGGCCUAGGUAUCGGUAAUGGUAUCUGUAUCUGAAUCUCGAUAUCGACAUCGGGGGACUUAAUCCCACCGAAUCUCGGCAUCGGUUC------UUUUGGGCUUAAAUGCACAC
((((((((((((((....))))))).......((((..((((..(((..((((((((.....)))).))))...)))..))))))))------...))))))).......... ( -35.00)
>DroSec_CAF1 1940 107 - 1
GGGCCUAGGUAUCGGUAAUGGUAUCUGUAUCUGAAUCUCGAUAUCGACAUCGGGGGACUUAACCCCACCGAAUCUCGGCAUCGGUUC------UUUUGGGCUUAAAUGCACAC
((((((((((((((....))))))).......((((..((((..(((..(((((((.......))).))))...)))..))))))))------...))))))).......... ( -33.70)
>DroEre_CAF1 1937 107 - 1
GGGCCUAGGUAUCGGUAAUGGUAUCUGUAUCUGAAUCUCGAUAUCGACAUCGGGGGACUUAACCCCACCGAAUCUCGGCAUCGAUUC------UUUUGGGCUUAAAUGCACAC
((((((((((((((....))))))).......(((..(((((..(((..(((((((.......))).))))...)))..))))))))------...))))))).......... ( -34.20)
>DroYak_CAF1 1903 107 - 1
GGGCCUAGGUAUCGGUAAUGGUAUCUGUAUCUGAAUCUCGAUAUCGACAUCGGGGGACUUAACCCCACCGAAUCUCGGCAUCGGUUC------UUUUGGGCUUAAAUGCACAC
((((((((((((((....))))))).......((((..((((..(((..(((((((.......))).))))...)))..))))))))------...))))))).......... ( -33.70)
>DroAna_CAF1 2098 99 - 1
GGGCUUAGGUAUCGGUAACGGUAU--------------CGAUAUCGAUCUCGGGGGUCUUAACCCCUCCGUAUCUCUGCAUUUGUUUUUGGUUUUUCGGGCUUAAAUGCACAC
.......((((((((((....)))--------------)))))))(((..((((((........)))))).)))..((((((((..(((((....)))))..))))))))... ( -31.40)
>consensus
GGGCCUAGGUAUCGGUAAUGGUAUCUGUAUCUGAAUCUCGAUAUCGACAUCGGGGGACUUAACCCCACCGAAUCUCGGCAUCGGUUC______UUUUGGGCUUAAAUGCACAC
((((((((((((((....))))))))...........(((((..(((..(((((((.......))).))))...)))..))))).............)))))).......... (-28.52 = -29.12 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:03 2006