Locus 6798

Sequence ID X_DroMel_CAF1
Location 16,922,516 – 16,922,627
Length 111
Max. P 0.500000
window11133

overview

Window 3

Location 16,922,516 – 16,922,627
Length 111
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 76.43
Mean single sequence MFE -37.45
Consensus MFE -18.36
Energy contribution -20.43
Covariance contribution 2.06
Combinations/Pair 1.16
Mean z-score -2.09
Structure conservation index 0.49
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16922516 111 + 22224390
GUGGGGGAGGCAGUGGGGCACAGGCUCCA-AGAGCCUCCAACACUUAAUAGCUGGCAAUGACGACAAUUCAGUCCGAUUGCUCAUCCAAUCUGCCAACUGCCUGCAAACU-GA
(..((((((((..((((((....))))))-...)))))).........(((.(((((.....(((......))).(((((......)))))))))).)))))..).....-.. ( -42.90)
>DroSec_CAF1 9383 110 + 1
GUGGGGGAGGCAGUGGGGCACAGGCUCCAAAGAGC---CAACACUAAAUGGCCGGCAAUGACGAAUAUUUAGUUUGAUUGCUCAUCCAAUCUGCCAACUGCCUGCGAACUCGA
.(((((.(((((((..((((..(((((....))))---)...((((((((..((.......))..))))))))..(((((......))))))))).))))))).)...)))). ( -40.40)
>DroSim_CAF1 10708 87 + 1
GUGGGGGAGGCAGUGGGGCACAGGCUCCAAAGAGC---CAACACUAAAUGGCCGGCAAUGACGACAAUUCAGUUCGAUUGCUCAUCCAAA-----------------------
...(((..((((((.((((...(((((....))))---).........((..((.......)).)).....)))).))))))..)))...----------------------- ( -27.30)
>DroEre_CAF1 9385 107 + 1
GUGGGGGAGGCGGUGGGGC-CGGGGUCCAA-AAGC---CGACAUUAAAUGGCUGGCAGUGACAACAAUUCAAUUCGAUUGCCCAUCCAAUCGGCCAACUGCCUUCGGGCU-AA
.....(((((((((..(((-((((((....-.(((---((........)))))((((((((............)).)))))).))))...))))).))))))))).....-.. ( -39.20)
>consensus
GUGGGGGAGGCAGUGGGGCACAGGCUCCAAAGAGC___CAACACUAAAUGGCCGGCAAUGACGACAAUUCAGUUCGAUUGCUCAUCCAAUCUGCCAACUGCCUGCGAACU_GA
.....(.((((((((((((....)))))....................(((..(((((((((.........)))..))))))...)))........))))))).)........ (-18.36 = -20.43 +   2.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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