Locus 1536

Sequence ID X_DroMel_CAF1
Location 4,446,607 – 4,446,712
Length 105
Max. P 0.916244
window2513

overview

Window 3

Location 4,446,607 – 4,446,712
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.05
Mean single sequence MFE -28.20
Consensus MFE -24.14
Energy contribution -23.98
Covariance contribution -0.16
Combinations/Pair 1.05
Mean z-score -1.83
Structure conservation index 0.86
SVM decision value 1.11
SVM RNA-class probability 0.916244
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4446607 105 + 22224390
UUGCCUGCCACCCUCGCAGCGACUCACCUGUGCACCC--CCUG---------CACC---CCCUGCACCAACGCCAACCCCCUU-UUUCUCCACUUGGCACGCAGCGGGGCCUUCAGUUAG
....(((....((((((.(((........(((((...--..))---------))).---............(((((.......-.........))))).))).))))))....))).... ( -27.29)
>DroSec_CAF1 48237 105 + 1
UUGCCUGCCACCCUCGCUGCGACUCACCUGUGCACCC--CCGG---------CACC---CCCUGCACCAACGCCAACCCCCUU-UUUCUCCACUUGGCACGCAGCGGGGCCUUCAGUUAG
....(((....((((((((((........(((((...--..((---------....---.)))))))....(((((.......-.........))))).))))))))))....))).... ( -31.89)
>DroSim_CAF1 49458 105 + 1
UUGCCUGCCACCCUCGCCGCGACUCACCUGUGCACCC--CCGG---------CACC---CCCUGCACCAACGCCAACCCCCUU-UUUCUCCACUUGGCACGCAGCGGGGCCUUCAGUUAG
....(((....((((((.(((........(((((...--..((---------....---.)))))))....(((((.......-.........))))).))).))))))....))).... ( -27.29)
>DroEre_CAF1 50075 114 + 1
UUGCCUGCCACCCUCGCCGCGACUCACCUGUGCACCCCC---UAACCCCCUACACC---CCCUGCACCACCGCCAACCCCCUUUUUUCUCCACCUGGCACGCAGCGGGGCCUUCAGUUAG
....(((....((((((.(((........(((((.....---..............---...)))))....((((...................)))).))).))))))....))).... ( -25.46)
>DroYak_CAF1 48832 119 + 1
UUGCCUGCCACCCUCGCCGCGGCUCACCUGUGCACCUCCCCUGCACCCCCAGCACCAGCACCAGCACCACCGCCAAUCCCCUU-UUUCUCCACCUGGCACGCAGCGGGGCCUUUAGUUAG
....(((....((((((.((((((.....(((((.......))))).....((....))...)))......((((........-..........)))).))).))))))....))).... ( -29.07)
>consensus
UUGCCUGCCACCCUCGCCGCGACUCACCUGUGCACCC__CCGG_________CACC___CCCUGCACCAACGCCAACCCCCUU_UUUCUCCACUUGGCACGCAGCGGGGCCUUCAGUUAG
....(((....((((((.(((........((((..............................))))....((((...................)))).))).))))))....))).... (-24.14 = -23.98 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:44 2006