Locus 6493

Sequence ID 3R_DroMel_CAF1
Location 17,098,331 – 17,098,451
Length 120
Max. P 0.629655
window10564

overview

Window 4

Location 17,098,331 – 17,098,451
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.89
Mean single sequence MFE -50.42
Consensus MFE -34.52
Energy contribution -32.67
Covariance contribution -1.86
Combinations/Pair 1.35
Mean z-score -2.37
Structure conservation index 0.68
SVM decision value 0.20
SVM RNA-class probability 0.629655
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17098331 120 + 27905053
AAGUCCCGCUGGUAGUCCAAGCCGCAGGGGCCAAUCGCCACACACUCCUGCGCCUGGGCGAUGUGCUCCAGAUCGAACCACGUGGCCGGCUCUUCCACGAUGGACUUGGAGUCGUGCGGG
....(((((((((.(((((.((.(((((((..............))))))))).)))))(((.((...)).)))..))))......((((((((((.....)))...))))))).))))) ( -47.54)
>DroGri_CAF1 10551 120 + 1
AAGUCGCGCUGAUAGUCCAGGCCGCAUGGACCAACGGCAACGCAUUCCGGCGCCUGUGCAAUAUGCUCGAAGUCGAACCAUGUGGACGGCUCCUCCACAAUGGACUUCGAGUCGUGCGGA
...((((((.....(..(((((.((.((((....((....))...)))))))))))..).....((((((((((.(....((((((.(....))))))).).)))))))))).)))))). ( -52.20)
>DroWil_CAF1 11345 120 + 1
AAAUCCCGCUGAUAGUCCAGUCCGCAAGGACCCACAGCGACGCAUUCCUGGGCAAUGGCAAUGUGCUCGAAAUCAAACCAUGUGGACGGCUCCUCCACAAUGGAUUUCGAGUCGUGUGGA
...................((((....))))(((((.(((((((((((........)).))))))(((((((((......((((((.(....)))))))...))))))))))))))))). ( -45.20)
>DroMoj_CAF1 13579 120 + 1
AAAUCGCGCUGAUAGUCCAAGCCACAUGGACCAAUCGCCACGCACUCCUGCGCCUGUGCAAUAUGCUCAAAGUCGAACCAUGUGGACGGCUCCUCCACAAUCGACUUUGAGUCGUGCGGA
...((((((.(((.(((((.......)))))..)))((((((((....))))..)).)).....((((((((((((....((((((.(....))))))).)))))))))))).)))))). ( -46.40)
>DroAna_CAF1 10112 120 + 1
AAGUCGCGUUGGUAGUCCAGCCCACAGGGGCCCACUGCCACGCACUCCUGGGCCUGGGCAAUGUGCUCCAGGUCGUACCAUGUGGCCGGCUCCUCCACAAUGGACUUGGAGUCGUGCGGG
.(((.((((.((((((...((((....))))..)))))))))))))((..(((((((((.....)).)))))))..........((((((((((((.....)))...))))))).)))). ( -56.90)
>DroPer_CAF1 10247 120 + 1
AAGUCGCGUUGGUAGUCCAGGCCGCAUGGACCCACCGCGACGCACUCCUGUGCUUGGGCGAUGUGCUCCAAGUCAAACCAUGUGGACGGCUCCUCCACAAUGGACUUGGAGUCGUGUGGG
..((((((.(((..(((((.......)))))))).))))))((((....)))).....(.(..(((((((((((......((((((.(....)))))))...))))))))).))..).). ( -54.30)
>consensus
AAGUCGCGCUGAUAGUCCAGGCCGCAUGGACCAACCGCCACGCACUCCUGCGCCUGGGCAAUGUGCUCCAAGUCGAACCAUGUGGACGGCUCCUCCACAAUGGACUUGGAGUCGUGCGGA
.......((.(...((((.........))))...).))..(((((......((....)).....((((((((((......((((((.(....)))))))...)))))))))).))))).. (-34.52 = -32.67 +  -1.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:42 2006