Locus 2369

Sequence ID 3R_DroMel_CAF1
Location 6,728,719 – 6,728,811
Length 92
Max. P 0.958267
window3823

overview

Window 3

Location 6,728,719 – 6,728,811
Length 92
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 75.70
Mean single sequence MFE -38.90
Consensus MFE -17.78
Energy contribution -18.46
Covariance contribution 0.68
Combinations/Pair 1.10
Mean z-score -2.23
Structure conservation index 0.46
SVM decision value 1.49
SVM RNA-class probability 0.958267
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6728719 92 + 27905053
AAUUGAAAAACUGUUUUUCGCCGCUCCUCGCGUUUUGCAUAUAAAUCAGUGAAAACGAGGGGCG--GCGCCCGCUGCAACAGU--------------UCCAG------------CCAAGU
........(((((((....(((((((((((..(((..(..........)..))).)))))))))--))((.....))))))))--------------)....------------...... ( -32.80)
>DroSec_CAF1 12000 113 + 1
AAUUGAAAAACUGUUUUUCGCCGCUCCUCGCGUUUUGCAUAUAAAUCAGUUAAAACGAGGGGCG--GCGCCCGCUGCAACAGGGGGCC----CCCA-UCCAGGGGGGCCAUCCCCCAAGU
....(((((.....)))))(((((((((((..(((.((..........)).))).)))))))))--))((((.(((...))).)))).----....-....(((((.....))))).... ( -47.00)
>DroEre_CAF1 14702 109 + 1
AAUUGAAAAACUGUUUUUCGCCGCUCCUCGCGUUUUGCAUAUAAAUCAGUGAAAAAGAGGGGCG--GCGCCCGCUGCAACAGU--UCC----ACCAGAACAGGGGGGUGGUAU---GGGA
....(((((.....)))))((((((((((...(((..(..........)..)))..))))))))--)).((((.(((....(.--.((----.((......))))..).))))---))). ( -41.20)
>DroYak_CAF1 13404 105 + 1
AAUUGAAAAACUGUU-UUCGCCGCUCCGCGCGUUUUGCAUAUAAAUCAGUGAAAACGAGGGGCG--GCGCCCGCUGCAACAGU--UCC----ACCA-AAGAGGGGGGUAGUU-----GCU
....(((((....))-)))((((((((...((((((.(((........))))))))).))))))--)).......(((((.(.--.((----.((.-....))))..).)))-----)). ( -40.50)
>DroAna_CAF1 12895 114 + 1
AAUUGAAAAACUGUUUUUCGUCGCUCGUCGCGUUUUGCAUAUAAAUCAGUGAA-CCUAGGGGCGGGGCGCCCGCUGCAUCGGA--UUUUGGUGCUGGAGGAGGCUGUGCGGGU---GGGA
....(((((.....))))).(((((((.((((((((((((..(((((.(....-)...(.((((((...)))))).)....))--)))..)))).....))))).))))))))---)).. ( -33.00)
>consensus
AAUUGAAAAACUGUUUUUCGCCGCUCCUCGCGUUUUGCAUAUAAAUCAGUGAAAACGAGGGGCG__GCGCCCGCUGCAACAGU__UCC____ACCA_AACAGGGGGGUCGU_____AGGU
..........(((((....((((((((((...(((..(..........)..)))..))))))))..))((.....)))))))...................................... (-17.78 = -18.46 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:38 2006