Locus 1561

Sequence ID 2R_DroMel_CAF1
Location 5,897,098 – 5,897,213
Length 115
Max. P 0.544390
window2620

overview

Window 0

Location 5,897,098 – 5,897,213
Length 115
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.91
Mean single sequence MFE -26.77
Consensus MFE -18.87
Energy contribution -19.15
Covariance contribution 0.28
Combinations/Pair 1.10
Mean z-score -1.58
Structure conservation index 0.71
SVM decision value 0.02
SVM RNA-class probability 0.544390
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5897098 115 - 20766785
ACGGCGAAUUCCUCAAAGGAAUUCGUGAAA-UUCGCAAAUGACUUCUGGCAUUCCGUAGUGGUCUUUGCUUUCGUCGUGGGCCGCAAUUCAUUUUUCCCCUC----ACACACCCAUAAAA
...(((((((((.....)))))))))((((-...(((((.((((.(((........))).)))))))))))))((.(((((..(.((......)).)..)))----)))).......... ( -28.40)
>DroSec_CAF1 33450 112 - 1
ACGGCGAAUUCCUCAAAGGAAUUCGUAAAA-UUCGCAAAUGACUUCUGGCAUUCCGUAGUGGUCUUUGCUUUC---GUGGGCCGCAUUUCAUUUUUCCCCUC----ACAUACCCAUACAG
...(((((((((.....)))))))))....-...(((((.((((.(((........))).)))))))))....---(((((.....................----.....))))).... ( -27.27)
>DroSim_CAF1 32209 112 - 1
ACGGCGAAUUCCUCAAAGGAAUUCGUGAAA-UUCGCAAAUGACUUCUGGCAUUCCGUAGUGGUCUUUGCUUUC---GUGGGCCGCAUUUCAUUUUUCCCCUC----GCAUACCCAUAAAA
...(((((((((.....)))))))))((((-...(((((.((((.(((........))).)))))))))))))---(((((..((.................----))...))))).... ( -29.93)
>DroEre_CAF1 31533 105 - 1
GCGGCGAAUUCCUCUAAGGAAUUUGUGAAA-UUCGCAAAUGACUUUUCGCAUUCCGUAGUGGUCUUUGCUUUC---AUGGCCCGCAUUUCAUCUU-UCCCUC----ACAUGCCC------
((((((((((((.....)))))))((((((-...(((((.((((...((.....))....)))))))))))))---)).).))))..........-......----........------ ( -26.20)
>DroYak_CAF1 31632 112 - 1
AAGGCGAAUUCCUCAAAGGAAUUUGUGAAA-UUCGCAAAUGACUUUUCGCAUUCCGUAGUGGUCUUUGCUUUC---AUGGACCGCAUUUCAUCUUUUCCCUU----ACAUGCCCAUAAAA
..(((((((.(...((((..(((((((...-..)))))))..))))..).))))....(((((((.((....)---).))))))).................----....)))....... ( -27.50)
>DroAna_CAF1 36837 117 - 1
CUGGCAAAUUCCUUGCCGGAAUCUAGAAAAUUUUGCAAAUGACUUUACGCAUUCCGAAGUGGUCUUUGCUUUC---AUCGGCAUCGUUUCAUUUUCCCCCACCAGAACAUUCUCAUAAAA
(((((((.....))))))).....((((..(((((.((((((....(((.((.((((.(.(((....)))..)---.)))).))))).))))))........)))))..))))....... ( -21.30)
>consensus
ACGGCGAAUUCCUCAAAGGAAUUCGUGAAA_UUCGCAAAUGACUUCUCGCAUUCCGUAGUGGUCUUUGCUUUC___AUGGGCCGCAUUUCAUUUUUCCCCUC____ACAUACCCAUAAAA
...(((((((((.....)))))))))........(((((.((((....((.....))...)))))))))................................................... (-18.87 = -19.15 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:33 2006