Locus 5001

Sequence ID 3L_DroMel_CAF1
Location 13,758,416 – 13,758,528
Length 112
Max. P 0.999644
window7905

overview

Window 5

Location 13,758,416 – 13,758,528
Length 112
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 97.68
Mean single sequence MFE -32.30
Consensus MFE -30.56
Energy contribution -30.96
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.54
Structure conservation index 0.95
SVM decision value 3.83
SVM RNA-class probability 0.999644
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13758416 112 + 23771897
CCCGUGGCCUUUUGUCUGGGCAACUCAAAAGGCCACAGCAUGCAACACGUCAAAAGUUGAACGACAAGCGACCAGCUACAACAACCGAAGGGACAAGUGCAAGAGCAACAAC
...(((((((((((...((....))))))))))))).((.((((....(((...(((((..((.....))..)))))........(....))))...))))...))...... ( -34.60)
>DroSec_CAF1 4980 112 + 1
CCCGUAGCCUUUUGUCUGGGCAACUCAAAAGGCCACAGCAUGCAACACGUCAAAAGUUGAACGACAAGCAGCCAGCUACAACAACCGAAGGGACAAGUGCAAGAGCAACUAC
(((((.((((((((...((....)))))))))).))(((.(((....(((((.....)).)))....)))....)))............)))...(((((....)).))).. ( -28.10)
>DroSim_CAF1 1116 112 + 1
CCCGUGGCCUUUUGUCUGGGCAACUCAAAAGGCCACAGCAUGCAACACGUCAAAAGUUGAACGACAAGCGACCAGCUACAACAACCGAAGGGACAAGUGCAAGAGCAACAAC
...(((((((((((...((....))))))))))))).((.((((....(((...(((((..((.....))..)))))........(....))))...))))...))...... ( -34.60)
>DroEre_CAF1 4212 112 + 1
CCCGUGGCCUUUUGUCUGGCCAACUCAAAAGGCCACAGCAUGCAACACGUCAAAAGUUGAACGACAAGCGACCAGCUCCAACAACCGAAGGGACAAGUGCAAGAGCAACAAC
...(((((((((((...(.....).))))))))))).((.((((....(((...(((((..((.....))..)))))........(....))))...))))...))...... ( -31.80)
>DroYak_CAF1 1210 112 + 1
CCCGUGGCCUUUUGUCUGGCCAACUCAAAAGGCCACAGCAUGCAACACGUCAAAAGUUGAACGACAAGCGACCAGCUACAACAACCGAAGGGACAAGUGCAAGAGCAACAAC
...(((((((((((...(.....).))))))))))).((.((((....(((...(((((..((.....))..)))))........(....))))...))))...))...... ( -32.40)
>consensus
CCCGUGGCCUUUUGUCUGGGCAACUCAAAAGGCCACAGCAUGCAACACGUCAAAAGUUGAACGACAAGCGACCAGCUACAACAACCGAAGGGACAAGUGCAAGAGCAACAAC
...(((((((((((...((....))))))))))))).((.((((....(((...(((((..((.....))..)))))........(....))))...))))...))...... (-30.56 = -30.96 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:11 2006