Locus 1002

Sequence ID 3L_DroMel_CAF1
Location 2,980,305 – 2,980,395
Length 90
Max. P 0.789650
window1552

overview

Window 2

Location 2,980,305 – 2,980,395
Length 90
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 77.89
Mean single sequence MFE -23.72
Consensus MFE -17.38
Energy contribution -18.10
Covariance contribution 0.72
Combinations/Pair 1.07
Mean z-score -1.28
Structure conservation index 0.73
SVM decision value 0.58
SVM RNA-class probability 0.789650
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2980305 90 + 23771897
UUGCCAUUUU--UCCUACUGCCAACUC--GUGGCGGAAGGCCAAAAUGUGGAGCCACAAAAGGGCCAAAAACCAGAAGCCAGAAGCCACCCAGU
..((......--.....((((((....--.))))))..((((....((((....))))....))))...........))............... ( -22.90)
>DroSec_CAF1 14442 83 + 1
UUGCCAUUUU--UCCUACUGCCAACUC--GUGGCGGAAGGCCAAAAUGUGGAGCCACAAAAGGGCCAAAAACCAGA-------AGUCACCCAGU
........((--((...((((((....--.))))))..((((....((((....))))....))))........))-------))......... ( -22.90)
>DroSim_CAF1 14766 83 + 1
UUGCCAUUUU--UCCUACUGCCAACUC--GUGGCGGAAGGCCAAAAUGUGGAGCCACAAAAGGGCCAAAAACCAGA-------AGCCACCCAGU
..((......--.....((((((....--.))))))..((((....((((....))))....))))..........-------.))........ ( -22.90)
>DroEre_CAF1 16704 90 + 1
UUGCCAUUUU--UCCUACUGCCAACUC--GUGGCGGAAGGCCAAAAUGUGGAGGCACAAAAGGGCCAAAAGCCAGAACCCAGAAGCCUCCCAGC
....((((((--.(((.((((((....--.)))))).)))..)))))).((((((.......(((.....))).(....)....)))))).... ( -29.30)
>DroYak_CAF1 14654 83 + 1
UUGCCAUUUU--UCCCACUGCCAACUC--GUGGCGGAAGGCCAAAAUGUGGAGCCACAAAAGGGCCAAAAGCCA-------GAAGCCUCCCACU
..((......--.....((((((....--.))))))..((((....((((....))))....))))....))..-------............. ( -22.90)
>DroPer_CAF1 16247 75 + 1
UAGCUGUUUUUUUUCCGCAGCCAAAUCCGAAGGCGGAAGGCCAAG-UUCGGAGCCCGUCCGGGG------------------UGUCCUCCCAGU
..(((((.........)))))....(((((((((.....)))...-))))))((((.....)))------------------)........... ( -21.40)
>consensus
UUGCCAUUUU__UCCUACUGCCAACUC__GUGGCGGAAGGCCAAAAUGUGGAGCCACAAAAGGGCCAAAAACCAGA______AAGCCACCCAGU
.................((((((.......))))))..((((....((((....))))....))))............................ (-17.38 = -18.10 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:37 2006