Locus 7644

Sequence ID 3R_DroMel_CAF1
Location 20,472,827 – 20,472,933
Length 106
Max. P 0.597626
window12343

overview

Window 3

Location 20,472,827 – 20,472,933
Length 106
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 80.17
Mean single sequence MFE -41.47
Consensus MFE -24.65
Energy contribution -24.02
Covariance contribution -0.63
Combinations/Pair 1.34
Mean z-score -1.72
Structure conservation index 0.59
SVM decision value 0.13
SVM RNA-class probability 0.597626
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20472827 106 + 27905053
----------GGGAGCUGACCAGCUGGGCCAGCUCCUCCUCGCAAGGCGACACGUCCUCGUCAUCGAAGUCAGCCAGGUUCUUUUCAGAUUUGUUACUCAUCGGGGAUGAGUAACU
----------((((((((.((....))..))))))))(((.((..(((((.......)))))...(....).)).)))..............((((((((((...)))))))))). ( -37.40)
>DroPse_CAF1 22476 116 + 1
CGCCCCGCAUGGGAGUUGACCAGCUGGGCCAGCUCCUCCUCGCAGGGGGACACAUCCUCGUCGUCAAAGUCCGCGAGAUUCUUCUCCGACUUAUUGCUCAUCGGCGAGGAGUAGCU
.((((.((.(((.......))))).)))).((((.((((((((..((((((((......)).))).(((((.(.((((....))))))))))....)))....)))))))).)))) ( -49.90)
>DroGri_CAF1 30108 116 + 1
CGGCCCACAUGAGAAUUGACAAGUUGCGCCAAUUCCUCCUCGCACGGCGACACAUCCUCGUCAUCGAAGUCGGCAAGAUUCUUCUCCGAUUUAUUGCUCAUGGGCGAGGAAUAACU
.((((.((.((........)).)).).)))......(((((((..(((((.......)))))....(((((((..(((....))))))))))...........)))))))...... ( -32.70)
>DroMoj_CAF1 25607 116 + 1
CGUGCGCCAUGCGAAUUGACGAGCUGUGCCAGUUCCUCCUCGCAGGGCGAUACGUCCUCAUCGUCAAAGUCGGCCAGAUUCUUCUCUGAUUUGUUGCUCAUCGGCGACGAGUAGCU
((((((((.(((((...((.((((((...)))))).)).))))).)))).))))..(((.......(((((((..(((....))))))))))((((((....)))))))))..... ( -40.50)
>DroAna_CAF1 23096 106 + 1
----------GGGAGCUGACCAAUUGUGCCAGUUCCUCUUCGCAGGGCGACACAUCCUCGUCAUCGAAAUCAGCCAGGUUUUUCUCCGACUUGUUGCUCAUCGGCGAAGAAUAACU
----------.(((((((.((....).).)))))))(((((((.((((((((..((.(((....))).........((.......))))..))))))))....)))))))...... ( -33.90)
>DroPer_CAF1 23574 116 + 1
CGCCCGGCAUGGGAGUUGACCAGCUGGGCCAGCUCCUCCUCGCAGGGGGACACAUCCUCGUCGUCGAAGUCUGCGAGAUUCUUCUCCGACUUGUUGCUCAUCGGCGAGGAGUAGCU
.(((((((.(((.......)))))))))).((((.((((((((.(((.((((.....(((....)))((((.(.((((....))))))))))))).)))....)))))))).)))) ( -54.40)
>consensus
CG_CC__CAUGGGAGUUGACCAGCUGGGCCAGCUCCUCCUCGCAGGGCGACACAUCCUCGUCAUCGAAGUCAGCCAGAUUCUUCUCCGACUUGUUGCUCAUCGGCGAGGAGUAACU
...........(((((((.((.....)).)))))))(((((((..((.(((........))).)).(((((....(((....)))..)))))...........)))))))...... (-24.65 = -24.02 +  -0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:51:04 2006