Locus 7584

Sequence ID 3R_DroMel_CAF1
Location 20,329,393 – 20,329,495
Length 102
Max. P 0.880120
window12240

overview

Window 0

Location 20,329,393 – 20,329,495
Length 102
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 77.43
Mean single sequence MFE -20.95
Consensus MFE -9.46
Energy contribution -10.85
Covariance contribution 1.39
Combinations/Pair 1.11
Mean z-score -2.42
Structure conservation index 0.45
SVM decision value 0.91
SVM RNA-class probability 0.880120
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20329393 102 - 27905053
CCAAAAACGCUAAUGACCCAAACUGAACUUAAGUUUAGUUUGAACUGAGGCACGCCUCCAGCUCAAACUG----CA-CAACUUCG----UGUCAAGUUUUUCAAUUUUUAA
..(((((((((.......((((((((((....))))))))))....((((....)))).))).......(----((-(......)----)))...)))))).......... ( -25.10)
>DroGri_CAF1 176672 87 - 1
CCA-GCACGCUAAUGAGCCAAACUCGAAUGAACUUUAGCAUCAACUUGGCUGC----------------------C-CAACUUUGCCGCAGGCAAGUUUUUCAAUUUUUAU
...-....(((((((((.....))))........)))))...((((((.((((----------------------.-..........)))).))))))............. ( -17.50)
>DroSim_CAF1 146291 106 - 1
CCAAAAACGCUAAUGAGCCAAACUGAACUUAAGUUUAGUUUGAACUGAGGCACGCCUCCAGCUCAAACUCCACCCA-CAACUUCA----AGUCAAGUUUUUCAAUUUUUAA
..((((((.....(((((((((((((((....))))))))))....((((....))))..)))))...........-..((....----.))...)))))).......... ( -24.70)
>DroEre_CAF1 141395 102 - 1
CCAAAAACGCUAAUGAGCCAAACUGAACUUGAGUUUAGUUUGAACUGAGCCACGCCUCCAACUCCAGCUC----CA-CAACUUCG----ACUCAAGUUUUUCAAUUUUUAA
..((((((.....((((.((((((((((....))))))))))....((((................))))----..-........----.)))).)))))).......... ( -18.79)
>DroYak_CAF1 145495 103 - 1
CCAAAAACGCUAAUGAGCCAAACUGAACUUGAGUUUAGUUUGAACUGAGGCACGCCUCCAACUCAAACUC----CAGCAACUUCG----AGUCAAGUUUUUCAAUUUUUAA
..((((((.....((((.((((((((((....))))))))))....((((....))))...)))).((((----..........)----)))...)))))).......... ( -24.00)
>DroAna_CAF1 142844 90 - 1
CCAAAAACGCUAAUGAGCCAAACUCAACUUAACUUUAGUUUGAACGGCUCCGCGC----AGCUC-------------CAACUUCG----ACUGAAGUUUUUCAAUUUUUAU
.......(((....(((((....((((((.......)).))))..))))).))).----.....-------------.((((((.----...))))))............. ( -15.60)
>consensus
CCAAAAACGCUAAUGAGCCAAACUGAACUUAAGUUUAGUUUGAACUGAGCCACGCCUCCAGCUCAAACUC____CA_CAACUUCG____AGUCAAGUUUUUCAAUUUUUAA
..(((((((((....)))((((((((((....)))))))))).....................................................)))))).......... ( -9.46 = -10.85 +   1.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:28 2006