Locus 6784

Sequence ID 3R_DroMel_CAF1
Location 17,909,977 – 17,910,080
Length 103
Max. P 0.753995
window11012

overview

Window 2

Location 17,909,977 – 17,910,080
Length 103
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 81.12
Mean single sequence MFE -29.95
Consensus MFE -19.46
Energy contribution -19.96
Covariance contribution 0.50
Combinations/Pair 1.29
Mean z-score -1.90
Structure conservation index 0.65
SVM decision value 0.48
SVM RNA-class probability 0.753995
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17909977 103 + 27905053
AACAGUUUUUAUGAAGUGCACUGCAAAUAUUAAUUUUUCAGGAGGCUUAAUGCUUUGGGCAAC---------AUCUUUAGAUUGCCCACAUCCUGGAGAGAA-CCCACACUGC
..((((..........(((...)))........(((((((((((((.....))).((((((..---------(((....)))))))))..))))))))))..-.....)))). ( -26.70)
>DroSec_CAF1 51121 113 + 1
AACAGUUUUUAUGAAGUGCACUGUAAAUAUUAAUUCUCUAGGAGGCUUUAUGCUUAGGGUAACCUCGGCAAUUUCUUAAAAUUGCGCACAUCCUGGGGAGAAGCUCGCACUGC
..............(((((...............(((((((((.((.........(((....)))..(((((((....)))))))))...)))))))))(.....)))))).. ( -30.20)
>DroSim_CAF1 54727 113 + 1
AACAGUUUUUAUGAAGUGCACUGUAAAUAUUAAUUCUCUAGGAGGCUUAAUGCUUAGGGCAACCUCGGCAAUUUCUUAAAAUUGCCCACAUCCUGGGGAGAAGCUCGCACUGC
..............(((((...............((((((((((((.....))).(((....))).((((((((....))))))))....)))))))))(.....)))))).. ( -33.70)
>DroYak_CAF1 54397 111 + 1
-AGUGGUUUUAUGAAGCGCACUGCAAAUAUUCAUUUCCAAGGAGGCAAAAUGCUUUGGGCAACCUCAGCAAUAUAUUAAAAUUUCCCACAUCCGGGGGAGAAA-CCGCAUCGC
-.((((((((.....((((...))..........(((....)))))....((((..((....))..))))...........(..(((......)))..)))))-))))..... ( -29.20)
>consensus
AACAGUUUUUAUGAAGUGCACUGCAAAUAUUAAUUCUCUAGGAGGCUUAAUGCUUAGGGCAACCUCGGCAAUAUCUUAAAAUUGCCCACAUCCUGGGGAGAAGCCCGCACUGC
..............(((((...............((((((((((((.....)))..((((((...................))))))...)))))))))(.....)))))).. (-19.46 = -19.96 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:49 2006