Locus 6539

Sequence ID 3R_DroMel_CAF1
Location 17,246,554 – 17,246,674
Length 120
Max. P 0.500000
window10643

overview

Window 3

Location 17,246,554 – 17,246,674
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 92.79
Mean single sequence MFE -30.27
Consensus MFE -26.14
Energy contribution -26.33
Covariance contribution 0.19
Combinations/Pair 1.04
Mean z-score -1.36
Structure conservation index 0.86
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17246554 120 - 27905053
CUUGCUUAAAGCCGCUUAUCUGGCCGGCUAUAUCGAUAAACAUAAAUUAUGCGAUAUUGUCGUUGUCGCCCCAAACCGGCGACUACAAGCUGAAAACUGCCAACUGCCAAGUGCCAACUG
..........(.((((....((((.(((.((((((((((.......)))).)))))).)))((.((((((.......)))))).))..((........)).....)))))))).)..... ( -29.60)
>DroSec_CAF1 42940 116 - 1
CUUGCUUAAAGCCGCUUAUCUGGCCGGCUAUAUCGAUAAACAUAAAUUAUGCGAUAUUGUCGUUGUCGCCCCAAACCGGCGACUACAAGCUGAAAACUGCCAACUGCCAAGUGCCA----
..........(.((((....((((.(((.((((((((((.......)))).)))))).)))((.((((((.......)))))).))..((........)).....)))))))).).---- ( -29.60)
>DroSim_CAF1 43628 116 - 1
CUUGCUUAAAGCCGCUUAUCUGGCCGGCUAUAUCGAUAAGCAUAAAUUAUGUGAUAUUGUCGUUGUCGCCCCAAACCGGCGACUACAAGCUGAAAACUGCCAACUGCCAAGUGCCA----
...((((..(((((((.....)).))))).....(((((.((((.....))))...)))))((.((((((.......)))))).))))))........((..(((....)))))..---- ( -30.20)
>DroEre_CAF1 43694 120 - 1
CUUGCUUAAAGCCGCUUAUCUGGCCGGCUAUAUCGAUAAACAUAAAUUAUGCGAUAUUGUCGUUGUCGCCCCAAACCGGCGACUACAAGCUGAAAACUGCCAACUGCCAAGUGCCAAUUG
..........(.((((....((((.(((.((((((((((.......)))).)))))).)))((.((((((.......)))))).))..((........)).....)))))))).)..... ( -29.60)
>DroYak_CAF1 65748 120 - 1
CUUGCUUAAAGCCGCUUAUCUGGCCGGCUAUAUCGAUAAACAUAAAUUAUGCGAUAUUGUCGUUGUCGCCCCAAACCGGCGACUACAAGCUGAAAACUGCCAACUGCAAACUGCAAACUG
.((((.....((((......))))(((((((((((((((.......)))).))))))....((.((((((.......)))))).)).))))).....(((.....)))....)))).... ( -30.50)
>DroAna_CAF1 34755 115 - 1
CCUGCUUAAAGCCGCUUAUCUGGCCGGCUAUAUCGAUAAACAUAAAUAAAACGAUAUUGUCGUUGUCGCCCCAAACCGGCGACUGGGA-CUACAGCCUGCCAACUGCAAACUGCCA----
...((.....)).((.....((((.((((((((((................)))))).(((.(.((((((.......)))))).).))-)...)))).))))...)).........---- ( -32.09)
>consensus
CUUGCUUAAAGCCGCUUAUCUGGCCGGCUAUAUCGAUAAACAUAAAUUAUGCGAUAUUGUCGUUGUCGCCCCAAACCGGCGACUACAAGCUGAAAACUGCCAACUGCCAAGUGCCA____
...((.....)).((.....((((((((.((((((((((.......)))).)))))).))))..((((((.......))))))...............))))...))............. (-26.14 = -26.33 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:56 2006