Locus 6044

Sequence ID 3R_DroMel_CAF1
Location 15,912,627 – 15,912,720
Length 93
Max. P 0.793091
window9860

overview

Window 0

Location 15,912,627 – 15,912,720
Length 93
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.44
Mean single sequence MFE -28.35
Consensus MFE -19.41
Energy contribution -19.75
Covariance contribution 0.34
Combinations/Pair 1.26
Mean z-score -1.99
Structure conservation index 0.68
SVM decision value 0.59
SVM RNA-class probability 0.793091
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15912627 93 + 27905053
-------------------A----ACAGCGACCUUGAACAUAACUGUACU--GCGGCCACAAGGACAUGGCCC-G-CUCUUGGCCAUGUGACCAUCAACCACAUGAUUGUGUUCAUCAAU
-------------------.----..........(((((((((.......--(((((((........))).))-)-).......((((((.........)))))).)))))))))..... ( -24.90)
>DroSec_CAF1 30473 93 + 1
-------------------A----ACAGCGACCUUGAGCACAACUGUACC--ACGGCCACAAGGACAUUCCCC-G-CUCUUAGCCAUGUGGCCAUCAACCGCAUGAUUGUGUUCAUCAAU
-------------------.----..........(((((((((.......--..(((((((.((.....))..-(-(.....))..))))))).(((......))))))))))))..... ( -26.50)
>DroSim_CAF1 20081 93 + 1
-------------------A----ACAGCGACCUUGAGCACAACUGUACC--ACGGCCACAAGGACAUUCCCC-G-CUCUUGGCCUUGUGGCCAUCAACCGCAUGAUUGUGUUCAUCAAU
-------------------.----..........(((((((((.......--..((((((((((.((......-.-....)).)))))))))).(((......))))))))))))..... ( -31.60)
>DroEre_CAF1 19476 93 + 1
-------------------A----CCAGCGACCUUGAGCACAACUGUACU--ACGGCCACAAGGACACGCCCC-G-CUCCUGGCCAUGUGGCCAUCAACCGCAUGAUUGUGUUCAUCAAU
-------------------.----..........(((((((((.......--..(((((((.((.((.((...-)-)...)).)).))))))).(((......))))))))))))..... ( -27.30)
>DroYak_CAF1 21019 93 + 1
-------------------C----CCAGCGACCUUGAGCACAACUGUACU--ACGGGCACAAGGACACGCCCC-G-CUCUUGGCCAUGUGGCCAUCAACCGCAUGAUUGUGUUCAUCAAU
-------------------.----..........(((((((((..((...--..((((..........)))).-(-(...(((((....)))))......))))..)))))))))..... ( -27.40)
>DroAna_CAF1 13146 120 + 1
AAAAUGGAGUCCACCCACUCGCAGCUCGUGACCUUGAGCGCAACUGUACUCAAAGGCGGCAAGGACAUGCCCCCACUUCUGGGCCAUGUGACCAUCAACUGCAUGAUUGUGUUCAUCAAU
......((((......))))((((...(((.(((((..(((...((....))...))).)))))((((((((........))).)))))...)))...))))((((......)))).... ( -32.40)
>consensus
___________________A____ACAGCGACCUUGAGCACAACUGUACU__ACGGCCACAAGGACAUGCCCC_G_CUCUUGGCCAUGUGGCCAUCAACCGCAUGAUUGUGUUCAUCAAU
..................................(((((((((...........(((((...(((............))))))))((((((.......))))))..)))))))))..... (-19.41 = -19.75 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:13 2006