Locus 3856

Sequence ID 3R_DroMel_CAF1
Location 10,505,632 – 10,505,729
Length 97
Max. P 0.751927
window6177

overview

Window 7

Location 10,505,632 – 10,505,729
Length 97
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 72.74
Mean single sequence MFE -24.10
Consensus MFE -18.58
Energy contribution -18.50
Covariance contribution -0.08
Combinations/Pair 1.20
Mean z-score -0.75
Structure conservation index 0.77
SVM decision value 0.48
SVM RNA-class probability 0.751927
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10505632 97 - 27905053
------------------AAAGAUGAGCGAAGGUUCAUUUCAAGUUAAUUUGUAUAGUAUUUUUGGCCAAGUGUAUAUAAGUCACUUGUCACUUUCCUUGUGGGCCUUUCCGUAG
------------------..((((((((....))))))))........................(((((((((.........)))))..(((.......)))))))......... ( -22.00)
>DroSec_CAF1 154293 97 - 1
------------------AAAGAUGAACGAAUGUUCAUUUCAAGUUAAUUUGUAUAGUCAUUUUGGCCAAGUGUAUGUUAGUCACUUGUCACUUUCCUUGUGGGCCUUUCCAUAG
------------------..((((((((....))))))))...(((((..((......))..)))))((((((.((....))))))))..........((((((....)))))). ( -19.40)
>DroSim_CAF1 52220 84 - 1
------------------AAGGAUGAACGAAGGUUCAUUUCAAGUUAAUU-------------UGGCCAAGUGUAUAUUAGUCACUUGUCACUUUCGUUGUGGGCCUUUCCGUAG
------------------..((((((((....))))).............-------------.(((((((((.........)))))..(((.......)))))))..))).... ( -22.80)
>DroEre_CAF1 52590 113 - 1
UGUAAGAAGCAUUCCCGUGCGAGUGAGCGAAGGUUAACUUCAAGUUAAUUUGCACAGUU-UUUUGGCCAAGUGUAUACUGGCCACUUGUCACUUUC-UUGUGGGCCUUUCCGCAG
...((((((.......((((((((.(((((((.....))))..))).))))))))....-...((((((.((....))))))))........))))-))(((((....))))).. ( -32.50)
>DroYak_CAF1 52471 114 - 1
UGCAAGAUGCAUUGCCAUGCAGAUAAACAAAUGCUCCUUUCAAGUUAAUUGGCACCGUC-UUUUGGCCAAGUGCAUAUUGUUCACUUGUCACUUUCGCUGUGGGCCUUUCCGUAG
(((((((((...(((((.(((..........)))...............))))).))))-))..(((((((((.(......))))))..(((.......))))))).....))). ( -23.79)
>consensus
__________________AAAGAUGAACGAAGGUUCAUUUCAAGUUAAUUUGCACAGUC_UUUUGGCCAAGUGUAUAUUAGUCACUUGUCACUUUCCUUGUGGGCCUUUCCGUAG
....................((((((((....))))))))........................(((((((((.........)))))..(((.......)))))))......... (-18.58 = -18.50 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:45 2006