Locus 3209

Sequence ID 2L_DroMel_CAF1
Location 9,170,108 – 9,170,202
Length 94
Max. P 0.820000
window5099

overview

Window 9

Location 9,170,108 – 9,170,202
Length 94
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 81.11
Mean single sequence MFE -19.76
Consensus MFE -10.71
Energy contribution -11.27
Covariance contribution 0.56
Combinations/Pair 1.11
Mean z-score -2.65
Structure conservation index 0.54
SVM decision value 0.68
SVM RNA-class probability 0.820000
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9170108 94 + 22407834
AUGGCUGGCAAACAAUUUUCAAUUAAGCGCACAAUCACGAUAAAUAAAUCUCAUUGUGCAAAAAGCCAGU-UCAUCUACACG-----AGCUUAGC---UUAAC
(((((((((....(((.....)))....(((((((...(((......)))..))))))).....))))).-))))......(-----(((...))---))... ( -19.40)
>DroVir_CAF1 19389 93 + 1
CGGCCUUUCAAACAAUUUUCAAUUAAGCGCACAAUCACGAUAAAUAAAUCUCAUUGUGCA----GCGAACUUCAUCUUGGCC-----AGCUUACCCGGUAUA-
.((((.....................(((((((((...(((......)))..))))))).----))((......))..))))-----...............- ( -18.70)
>DroEre_CAF1 7000 99 + 1
AUG-CUGGCAAACAAUUUUCAAUUAAGCGCACAAUCACGAUAAAUAAAUCUCAUUGUGCAAAAAGCCAGUUUCAUCUACACGAGCCGAGCUGGGC---UUAAC
...-..................(((((((((((((...(((......)))..)))))))......(((((((..((.....))...)))))))))---)))). ( -24.40)
>DroWil_CAF1 17510 82 + 1
--------CAAACAAUUUUCAAUUAAGCGCACAAUCACGAUAAAUAAAUCUCAUUGUGCA----GCCAGGCUAACAUACAUA-----GGUUCAGC---UUAG-
--------...............((((((((((((...(((......)))..)))))))(----(((...............-----))))..))---))).- ( -15.76)
>DroYak_CAF1 7520 97 + 1
AUG-CUGGCAAACAAUUUUCAAUUAAGCGCACAAUCACGAUAAAUAAAUCUCAUUGUGCAAAAAGCCAGUUUCAUCUACACA--CGAAGCUUAGC---UUAAC
...-..................(((((((((((((...(((......)))..)))))))........((((((.........--.))))))..))---)))). ( -19.00)
>DroAna_CAF1 8716 94 + 1
CUG-CUCGCAAACAAUUUUCAAUUAAGCGCACAAUCACGAUAAAUAAAUCUCAUUGUGCAAAAAGCCAGUUUCAUCUACACG-----GGCUUAGC---UUAAC
...-..................(((((((((((((...(((......)))..)))))))...(((((.((.........)).-----))))).))---)))). ( -21.30)
>consensus
AUG_CUGGCAAACAAUUUUCAAUUAAGCGCACAAUCACGAUAAAUAAAUCUCAUUGUGCAAAAAGCCAGUUUCAUCUACACG_____AGCUUAGC___UUAAC
......................(((((((((((((...(((......)))..)))))))........((......))...........))))))......... (-10.71 = -11.27 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:00 2006