Locus 5234

Sequence ID X_DroMel_CAF1
Location 13,660,936 – 13,661,040
Length 104
Max. P 0.830560
window8481

overview

Window 1

Location 13,660,936 – 13,661,040
Length 104
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 77.98
Mean single sequence MFE -33.17
Consensus MFE -24.08
Energy contribution -23.58
Covariance contribution -0.50
Combinations/Pair 1.24
Mean z-score -1.39
Structure conservation index 0.73
SVM decision value 0.71
SVM RNA-class probability 0.830560
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13660936 104 + 22224390
CCCAAUUAGAGUGGGAUAGAAACGAAUGG----GGUGCAGUACGAACCAUUUCCAUGAUCAGAUGGCCACAGAUGGCGCACUUUUCCGCCGUCUGCUGGAAGCCCGAG
((((.......)))).............(----(((..........((((((........))))))((((((((((((........))))))))).)))..))))... ( -33.40)
>DroSec_CAF1 3876 104 + 1
CCCAAUUAGAGCGGGAUGGAAACGAAUGA----AGUGCAGUACGUACCAUUUCCAUGAUCAGAUGGCCACAGAUGGCGCACUUUUCCGCCGUCUGCUGGAAGCCCGAG
...........((((((((((....(((.----.((((.....)))))))))))))..........((((((((((((........))))))))).)))...)))).. ( -33.50)
>DroEre_CAF1 3934 88 + 1
UCCAUUUAGAGUGGGAUAGAAAC--------------------GCACCAUUUCCAUGAUCAGGUGGCCGCAGAUGGCGCACUUUUCCGCCGUCUGCUGGAAGCCCGAG
..(((...((((((.........--------------------...))))))..))).((.(((..((((((((((((........)))))))))).))..))).)). ( -32.90)
>DroWil_CAF1 3857 96 + 1
-ACAGACAGAGAGAUAUAGAGA----------GA-GAGAAUACCAACCAUUUCCAUAAUUAAAUGCCCACAGAUGGCGCAUUUUUCCGCUGUUUGCUGGAAACCCGAG
-.(((((((.(.((....(.((----------((-..(........)..)))))......(((((((((....))).)))))).))).))))))).(((....))).. ( -18.10)
>DroYak_CAF1 3798 107 + 1
-CCAUUUAGAGUGGGAUGGCAACGAAUGGUACGAAUGCAGUACGAACCAUUUCCAUGAUCAGGUGGCCGCAGAUGGCGCACUUUUCCGCCGUCUGCUGGAAGCCCGAG
-((((.....)))).((((....(((((((.((.........)).)))))))))))..((.(((..((((((((((((........)))))))))).))..))).)). ( -40.60)
>DroAna_CAF1 3737 100 + 1
-UCAAAUAGAGGGGGAUGGAUA------GAGCGA-GGGAGUACUAACCAUUUCCAUGAUCAGGUGGCCGCAGAUGGCGCACUUUUCCGCCGUUUGCUGGAAGCCCGAG
-..........((..((((.((------(.((..-....)).))).))))..))....((.(((..((((((((((((........)))))))))).))..))).)). ( -40.50)
>consensus
_CCAAUUAGAGUGGGAUAGAAAC_____G____A_UGCAGUACGAACCAUUUCCAUGAUCAGAUGGCCACAGAUGGCGCACUUUUCCGCCGUCUGCUGGAAGCCCGAG
............(((...............................((((((........))))))((((((((((((........))))))))).)))...)))... (-24.08 = -23.58 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:54 2006