Locus 9120

Sequence ID 3R_DroMel_CAF1
Location 24,349,477 – 24,349,577
Length 100
Max. P 0.562883
window14592

overview

Window 2

Location 24,349,477 – 24,349,577
Length 100
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 73.98
Mean single sequence MFE -27.95
Consensus MFE -17.25
Energy contribution -17.95
Covariance contribution 0.70
Combinations/Pair 1.25
Mean z-score -1.24
Structure conservation index 0.62
SVM decision value 0.06
SVM RNA-class probability 0.562883
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24349477 100 + 27905053
AGACCCGCCCGCUGUAUAUG--UUACCUUUAGCCGAGCCCACUCU------CGGUUCACGACCAGCCAGACAAACAGUCUGGCACUCGAACAAAUCGCUGAAACGGUU
.((((........(((....--.))).((((((.(((((......------.))))).(((...(((((((.....)))))))..)))........))))))..)))) ( -29.10)
>DroVir_CAF1 156946 92 + 1
-----------CUAUCGUUG--UUACCUUUGGCCGCACCCGAAGG---CUGUGGCUCGCGGCCGGCCAGACAAACCGUUUGACACUCAUAGAGAUCGUUGAAACGGUU
-----------.........--.....((((((((...(((..((---(....)))..))).))))))))..(((((((((((..((.....))..))).)))))))) ( -30.40)
>DroGri_CAF1 153600 95 + 1
-----------CAAUUUUUG--UUACCUUUAGCCGUACCCAAGGGGGACUGUGGCUCGCGACCCGCAACACAAACCGUUUCACACUCAUAUAUAUCGUUGAAGCGGUU
-----------.......((--((......((((((((((....)))..))))))).(((...)))))))..((((((((((.((...........)))))))))))) ( -23.40)
>DroSec_CAF1 172011 100 + 1
AGACCCGCCCCCUGUUUAUG--UUACCUUUAGCCGAGCCCACUCU------CGGUUCACGACCGGCCAGGCAAACUGUCUGGCACUCGAACAAAUCGCUGAAACGGUU
....................--..(((((((((.(((((......------.))))).(((...(((((((.....)))))))..)))........))))))..))). ( -28.60)
>DroEre_CAF1 183691 100 + 1
AGACCCGCCCGCUGUAUAUG--UUACCUUUAGCCGAGCCCACUCU------CGGUUCACGACCGGCCAGGCAAACUGUCUGGCACUCGAAUAGAUCGCUGAAACGGUU
.((((........(((....--.))).((((((.(((((......------.))))).(((...(((((((.....)))))))..)))........))))))..)))) ( -29.90)
>DroYak_CAF1 177676 102 + 1
AGACCCGCCCGCUCUAUAUAGUUUACCUUUAGUCGAGCCCACUCU------CAGUUCACGACCGGCCAGGCAAACCGUCUGGCACUCGUACAAAUCACUGAAACGGUU
.((((.....((((..((.((.....)).))...))))......(------((((..((((...(((((((.....)))))))..)))).......)))))...)))) ( -26.30)
>consensus
AGACCCGCCCGCUGUAUAUG__UUACCUUUAGCCGAGCCCACUCU______CGGUUCACGACCGGCCAGACAAACCGUCUGGCACUCGAACAAAUCGCUGAAACGGUU
........................(((((((((.(((((.............))))).(((...(((((((.....)))))))..)))........))))))..))). (-17.25 = -17.95 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:27:00 2006