Locus 1980

Sequence ID 3R_DroMel_CAF1
Location 5,598,023 – 5,598,114
Length 91
Max. P 0.967558
window3241

overview

Window 1

Location 5,598,023 – 5,598,114
Length 91
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 76.92
Mean single sequence MFE -32.16
Consensus MFE -17.47
Energy contribution -19.03
Covariance contribution 1.56
Combinations/Pair 1.24
Mean z-score -2.43
Structure conservation index 0.54
SVM decision value 1.61
SVM RNA-class probability 0.967558
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5598023 91 - 27905053
CAGCACCGCCACCAAUGCCAGUUUUUGGCGCGGGAGGCGCUCCUCCUCCACCACCGCCUCCAUCAA------GUGGCAUGGCCGGCGUUCCACCACC
......((((.(((.(((((.((..(((.((((((((.......)))).....))))..)))..))------.))))))))..)))).......... ( -32.20)
>DroPse_CAF1 3259 97 - 1
CGCCGCCACCCCCAAUGCCGGCUGCAACUACAUCUGGUGGUCCACCACCACCACCACCGCCGCCGAUGCCAGCUUUAACCGCGGGCGGACCUCCAAG
..(((((...........((((.((.........((((((....))))))........)).))))......((.......)).)))))......... ( -30.13)
>DroSec_CAF1 3463 91 - 1
CACCGCCGCCACCAAUGCCAGUCUUAGGCGCGGGAGGCGUUCCUCCUCCACCACCGCCUCCACCAA------GUGGCAUGGCCGGCGUUCCCCAACC
...((((((((....(((((..(((.((....(((((((...............))))))).))))------))))))))).))))).......... ( -33.76)
>DroSim_CAF1 3730 91 - 1
CACCGCCGCCACCAAUGCCAGUCUUAGGCGCGGGAGGCGUUCCUCCUCCACCACCGCCUCCACCAA------GUGGCAUGGCCGGCGUUCCACAACC
...((((((((....(((((..(((.((....(((((((...............))))))).))))------))))))))).))))).......... ( -33.76)
>DroEre_CAF1 3374 88 - 1
CACCACCGCCUCCAAUGCCCGUUUUAGCUACGG---GCGCUCCACCUCCACCGCCACCUCCACCAG------GUGGCAUAGCCGGCGUUCCACCACC
......((((......((((((.......))))---))..............(((((((.....))------)))))......)))).......... ( -31.00)
>DroYak_CAF1 3370 91 - 1
CACCACCGCCUCCAAUGCCAGUUUCAGGAGCGGGAGGUGCUCCUCCUCCACCGCCGCCUCCACCAA------GUGGAAUGGCCGGCGUUCCACCACC
..........................(((((((((((....)))))).....(((((((((((...------)))))..)).)))))))))...... ( -32.10)
>consensus
CACCACCGCCACCAAUGCCAGUUUUAGGCGCGGGAGGCGCUCCUCCUCCACCACCGCCUCCACCAA______GUGGCAUGGCCGGCGUUCCACCACC
......((((....((((((............(((((((...............)))))))............))))))....)))).......... (-17.47 = -19.03 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:17 2006