Locus 5276

Sequence ID 3R_DroMel_CAF1
Location 13,766,740 – 13,766,834
Length 94
Max. P 0.882926
window8610

overview

Window 0

Location 13,766,740 – 13,766,834
Length 94
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 72.48
Mean single sequence MFE -22.48
Consensus MFE -8.38
Energy contribution -9.46
Covariance contribution 1.08
Combinations/Pair 1.12
Mean z-score -1.96
Structure conservation index 0.37
SVM decision value 0.92
SVM RNA-class probability 0.882926
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13766740 94 + 27905053
AUAAAAAAGAUAAAUGAAAAC---GGGGAAAUACAUAGGGCAUAUGGCUUCAAACAGAAAAACACCUGACU--GUGCCGCGUGUUGUUU------UCCCCACUGU
.....................---(((((((.(((....(((..((((..((..(((........)))..)--).))))..))))))))------)))))..... ( -24.50)
>DroSec_CAF1 39295 94 + 1
AAAAAAAAAAAAAAACAAAAC---GGGGAAAUACAUAGGGCAUAUGGCUUGAAACAGAAAAACACCUGACU--GUGCCGCGUGUUGUUU------UCCCCACUGU
.....................---(((((((.(((....(((..((((......(((........)))...--..))))..))))))))------)))))..... ( -23.20)
>DroSim_CAF1 38237 91 + 1
AUAAAAA---GAAAACAACAC---GGGGAAAUACAUAGGGCAUAUGGCUUGAAACAGAAAAACACCUGACU--GUGCCGCGUGUUGUUU------UCCCCACUGU
.......---(((((((((((---(.((.....((((((((.....))).....(((........))).))--))))).))))))))))------))........ ( -28.00)
>DroYak_CAF1 40379 81 + 1
AAAAAAA------------CC---GGGCAAAUACAUAGGGCAUAUGCCUCGAAACAGAAAAACACCUGACU--GUGCCGCGUGUUGUUU------UCC-CUCUGU
.......------------..---(((.((((((((.((((....))))((..((((............))--))..)).))).)))))------.))-)..... ( -16.80)
>DroAna_CAF1 40993 94 + 1
GAAAAAACAGCAUAUGAGUACAUAGAGCAUAUGCCUUGGCAG---AGCCUG--------AAACACCUGACUUUGUGCCGCGUGUUGUUCCUGUAAUACACUAUGU
.....(((((((..((.((((((((.((...(((....))).---.)))))--------...(....)....)))))))..)))))))................. ( -19.90)
>consensus
AAAAAAA____AAAACAAAAC___GGGGAAAUACAUAGGGCAUAUGGCUUGAAACAGAAAAACACCUGACU__GUGCCGCGUGUUGUUU______UCCCCACUGU
........................(((((........((((.....))))..........(((((.((.(.....).)).)))))..........)))))..... ( -8.38 =  -9.46 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:52 2006