Locus 9558

Sequence ID 3R_DroMel_CAF1
Location 25,252,966 – 25,253,067
Length 101
Max. P 0.736869
window15286

overview

Window 6

Location 25,252,966 – 25,253,067
Length 101
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 64.92
Mean single sequence MFE -23.07
Consensus MFE -6.59
Energy contribution -6.10
Covariance contribution -0.49
Combinations/Pair 1.62
Mean z-score -2.07
Structure conservation index 0.29
SVM decision value 0.44
SVM RNA-class probability 0.736869
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25252966 101 + 27905053
------------ACUUUUAAGCAUGCACUCAUCAGCUUAUUUAGAAUGUGCUU----AAGUGCCUUUGAAAUAU-AAUUGCUCUUCGUAAGCG-AGCGUUUUUGUUUGCAGUGCAU-GAA
------------.........((((((((....(((.(((((.(((.(..(..----..)..).))).))))).-....)))........(((-((((....))))))))))))))-).. ( -26.40)
>DroSec_CAF1 110251 98 + 1
------------ACUUUGAAACAUGCAUAAA---UCUCAUUUAGAAUGUGUUU----GAGUGCCUUUGGAAUAU-AAUUACUCUUCGUAAGCG-UACAUAUUUGUUUGCAGUGCAU-GGA
------------.........(((((((...---............(((((((----.((.....)).))))))-)..........(((((((-........))))))).))))))-).. ( -20.40)
>DroSim_CAF1 112391 98 + 1
------------AUUUUUAUACGUGCACUCA---GUUCAUUUAGAAUGUGUUU----GAGUGCCUUUGGAAUAU-AAUUACUAUUUGUAGGCA-AACUUAUUUGUUUCCAGUGCAC-GGA
------------.........((((((((..---...((..((((((((((((----.((.....)).))))))-.))).)))..))..((.(-(((......)))))))))))))-).. ( -23.90)
>DroEre_CAF1 127075 104 + 1
------------ACUUUUAAACAUGCAAAAA---UCUUAUUUAGAUUGUGCCUUUAGAAGUGCCCUUGUAAGCAAACUUACGCUUUGUGAGCA-AACGCAUUUGUUUACAGUGCACCUAA
------------(((((((((...(((..((---(((.....))))).))).)))))))))......(((((....)))))((.(((((((((-((....))))))))))).))...... ( -27.70)
>DroYak_CAF1 114509 100 + 1
------------AUUUUUAAACAUGCACAAA---UCUCAUUUAGAUUAUGUUU----AAGUGCCUUUGCAAUAUCACUUAAGCUUUGUAAGCA-AAUGUAUUUGUUUACAGUGCACUGCA
------------...........(((((.((---(((.....)))))..((((----(((((............)))))))))..((((((((-((....)))))))))))))))..... ( -24.70)
>DroAna_CAF1 106156 110 + 1
AUGUUUACUCAUAUUUUAAAACGUCCAUCAA---GCACCUAUAAUUUAUUCUU----AAA-GUUAAAGGGCUAA-AAAUUCUUUUAUUGAAAUUUCAAUAUUAUUUGGCAGUGCAG-CGA
.(((((((((....................(---((.(((.((((((......----.))-)))).))))))..-.........((((((....)))))).......).)))).))-)). ( -15.30)
>consensus
____________ACUUUUAAACAUGCACAAA___GCUCAUUUAGAAUGUGCUU____AAGUGCCUUUGGAAUAU_AAUUACUCUUUGUAAGCA_AACGUAUUUGUUUGCAGUGCAC_GGA
.......................(((((...............(((.((((((....)))))).)))...................(((((((.........))))))).)))))..... ( -6.59 =  -6.10 +  -0.49)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:37:07 2006