Locus 63

Sequence ID 2R_DroMel_CAF1
Location 1,318,700 – 1,318,820
Length 120
Max. P 0.591227
window119

overview

Window 9

Location 1,318,700 – 1,318,820
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 89.58
Mean single sequence MFE -43.75
Consensus MFE -35.03
Energy contribution -35.27
Covariance contribution 0.25
Combinations/Pair 1.11
Mean z-score -1.49
Structure conservation index 0.80
SVM decision value 0.12
SVM RNA-class probability 0.591227
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1318700 120 + 20766785
AGAUGCGCAAAUGAAAUGUGUCCCUGGCUGUGAGUCUGUAACUAGGAGAAGGACGAGGCACUUGUGUUGGCUCUGCGCACUUGGCCCAUAGUGAGGGGCGGUAGCCGAAACGGCAGUUGC
......((((........(((((((.((((((.(((........((((.((.(((((...))))).))..))))........))).)))))).)))))))...((((...))))..)))) ( -41.49)
>DroSec_CAF1 37220 120 + 1
AGAGGCGCAAAUGAAAUGUGUCCCUCGCUGGGAGUGUGUAACUAGGAGAAGGACGAAGCACUUGUGUUGGCUCUGCGCACUUGGCCCACAGUGAGGGGCUGUAGCCGAAACGGCAGUUGU
......((((.........((((((((((((((((((((.....((((.((.((((.....)))).))..)))))))))))....)).)))))))))))....((((...))))..)))) ( -43.60)
>DroSim_CAF1 16327 120 + 1
GGAGGCGCAAAUGAAAUGCGUCCCUCGCUGGGAGUGUGUAACUAGGAGAAGGACGAAGCACUUGUGUUGGCUCUGCGCACUUGGCCCACAGUGAGGGGCUGUAGCCGAAACGGCAGUUGU
...((((((.......)))((((((((((((((((((((.....((((.((.((((.....)))).))..)))))))))))....)).)))))))))))....)))..(((....))).. ( -45.40)
>DroYak_CAF1 4810 113 + 1
AGAGGCGCAAGUGAAAUGUGUCCCUGGUUGGGAGUGUGUAACUAGGAGAAGGACAAAGCACUUGUGUUGGCUCUGCGCACUUGGGCUACAGUGAGGGGCUGUUGCCGAGCCGG-------
...((((((((((...(((.((((((((((.(....).)))))))).))...)))...))))))))))(((((....(....)(((.(((((.....))))).))))))))..------- ( -44.50)
>consensus
AGAGGCGCAAAUGAAAUGUGUCCCUCGCUGGGAGUGUGUAACUAGGAGAAGGACGAAGCACUUGUGUUGGCUCUGCGCACUUGGCCCACAGUGAGGGGCUGUAGCCGAAACGGCAGUUGU
...((((((.......)))(((((((((((.((((((((.....((((.((.((((.....)))).))..))))))))))))......)))))))))))....))).............. (-35.03 = -35.27 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:25:14 2006