Locus 9979

Sequence ID 3R_DroMel_CAF1
Location 26,701,783 – 26,701,886
Length 103
Max. P 0.530338
window15908

overview

Window 8

Location 26,701,783 – 26,701,886
Length 103
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 79.95
Mean single sequence MFE -33.86
Consensus MFE -21.60
Energy contribution -20.88
Covariance contribution -0.72
Combinations/Pair 1.26
Mean z-score -1.38
Structure conservation index 0.64
SVM decision value -0.01
SVM RNA-class probability 0.530338
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26701783 103 + 27905053
GAUUGCACACCUUCACCGCCUGGCGCUCCACCAUUUUGGGCGGCAAGCCCGUGUAGAAUUUUCCGUUCAGCAUGGUCGCCCAAUCUUCGCCGGAUUGGUGGUC
............((((((.((((((..........((((((((.....((((((.((((.....)))).))))))))))))))....))))))..)))))).. ( -35.74)
>DroPse_CAF1 9225 84 + 1
GGUUGUACACCUUGGCCCCCUGCCGCUCCACCAUCUUCGGGGGCAGGCCCGUGUAGAACUUUCCGUUCAACAUA-UC-----------GC-------GGGGUC
(((.....)))..(((((((((((.(((..........))))))))((..((((.((((.....)))).)))).-..-----------))-------)))))) ( -29.60)
>DroSec_CAF1 4929 103 + 1
GAUUGCACACCUUCACCGCCUGGCGCUCCACCAUUUUGGGCGGCAGGCCCGUGUAGAAUUUUCCGUUCAGCAUGGUCGCCCAAUCUUCGCCGGAUUGGUGGUC
..............((((((((.(((.(((......)))))).)))))((((((.((((.....)))).))))))....(((((((.....))))))).))). ( -38.70)
>DroEre_CAF1 4954 103 + 1
GAUUGCACACCUUCACCGCCUGGCGCUCCACCAUUUUGGGCGGCAGGCCCGUGUAGAAUUUUCCGUUCAGCAUGAUCGCCCAAUCUUCGCCGGAUUGGUGGUC
...(((.......(((.(((((.(((.(((......)))))).)))))..)))..((((.....)))).))).(((((((.(((((.....)))))))))))) ( -37.00)
>DroAna_CAF1 5506 91 + 1
GAUUGCACACCUUCACCGCCUGGCGCUCCACCAUUUUGGGCGGCAGGCCCGUGUAGAAUUUUCCAUUCAGCAUC---------UUUUGCCCGG---GGUGGUC
............((((((((((.(((.(((......)))))).)))))(((....((((.....)))).(((..---------...))).)))---))))).. ( -32.50)
>DroPer_CAF1 9260 84 + 1
GGUUGUACACCUUGGCCCCCUGCCGCUCCACCAUCUUCGGGGGCAGGCCCGUGUAGAACUUUCCGUUCAACAUA-UC-----------GC-------GGGGUC
(((.....)))..(((((((((((.(((..........))))))))((..((((.((((.....)))).)))).-..-----------))-------)))))) ( -29.60)
>consensus
GAUUGCACACCUUCACCGCCUGGCGCUCCACCAUUUUGGGCGGCAGGCCCGUGUAGAAUUUUCCGUUCAGCAUG_UC______UCUUCGCCGG___GGUGGUC
..............((((((.((.(((((.((......)).))..)))))((((.((((.....)))).)))).......................)))))). (-21.60 = -20.88 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:46:16 2006