Locus 9561

Sequence ID 3R_DroMel_CAF1
Location 25,257,998 – 25,258,090
Length 92
Max. P 0.524681
window15290

overview

Window 0

Location 25,257,998 – 25,258,090
Length 92
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 82.18
Mean single sequence MFE -38.05
Consensus MFE -22.78
Energy contribution -23.28
Covariance contribution 0.50
Combinations/Pair 1.14
Mean z-score -1.93
Structure conservation index 0.60
SVM decision value -0.02
SVM RNA-class probability 0.524681
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25257998 92 + 27905053
AAUCCC--CCGGCUCCUUCG---A-UCCUGGACCGCCACGUGGAUUUCCGCUGGAGGCGUCUCACUUGGUAUCACCAGACGCCG------CCGCUGGUGGAACG
.....(--(.((.((....)---)-.)).)).(((((((((((....)))).((.(((((((.....((.....))))))))).------))).)))))).... ( -35.40)
>DroSec_CAF1 115163 101 + 1
AAUCCC--CCGGCUCCUGCCUUCC-UCCUGGACCGCCACGUGGAUUUCCGCUGGCGGCGUCUCACUUGGUAUCACCAGACGCCGCCGCCGCCGCUGGUGGAGCG
......--..(((....))).(((-....)))((((((.((((......((.((((((((((.....((.....))))))))))))))..)))))))))).... ( -45.40)
>DroSim_CAF1 117333 101 + 1
AAUCCU--CCGGCUCCUGCCUUCC-UCCUGGACCGCCACGUGGAUUUCCGCUGGCGGCGUCUCACUUGGUAUCACCAGACGCCGCCGCCGCCGCUGGUGGAGCG
......--..(((....))).(((-....)))((((((.((((......((.((((((((((.....((.....))))))))))))))..)))))))))).... ( -45.40)
>DroEre_CAF1 132166 86 + 1
AAUCC---CCGGUUCCCUCG---G-UCCUGGACCGCCACGUGGAUUUCCGCUGGCGGCGUCUCACUUGGUAUCACCAGACGCCGC------CGCUG-----GCG
.....---((((..((...)---)-..))))..((((((((((....)))).((((((((((.....((.....)))))))))))------)).))-----))) ( -40.70)
>DroYak_CAF1 119628 87 + 1
AAUCCC--CCGGUUCCUUCG---A-UCCUGGACCGCCACGUGGAUUUCCGCUGGCGGCGUCUCACUUGGUAUCACCAGACGCCGC------CGCUG-----GCG
......--..(((.((....---.-....)))))(((((((((....)))).((((((((((.....((.....)))))))))))------)).))-----)). ( -38.50)
>DroAna_CAF1 111713 99 + 1
AGUCCCUUCCAAUUCCUUCG---AUUCCUGCACCGGCACGUGGAUUUCCGCUGGCAUCGUUUCACUUGAUAUCACCAGACUCUGCCGCCGCCGCCGUUU--GCG
....................---......(((.((((..((((....)))).((((..((((....((....))..))))..))))......))))..)--)). ( -22.90)
>consensus
AAUCCC__CCGGCUCCUUCG___A_UCCUGGACCGCCACGUGGAUUUCCGCUGGCGGCGUCUCACUUGGUAUCACCAGACGCCGC_____CCGCUGGUG__GCG
.........((((.....................((((.((((....))))))))((((((.....(((.....))))))))).........))))........ (-22.78 = -23.28 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:37:11 2006