Locus 7215

Sequence ID 3R_DroMel_CAF1
Location 18,988,169 – 18,988,278
Length 109
Max. P 0.643740
window11676

overview

Window 6

Location 18,988,169 – 18,988,278
Length 109
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 75.49
Mean single sequence MFE -32.79
Consensus MFE -18.72
Energy contribution -21.38
Covariance contribution 2.67
Combinations/Pair 1.14
Mean z-score -1.54
Structure conservation index 0.57
SVM decision value 0.23
SVM RNA-class probability 0.643740
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18988169 109 - 27905053
UAUUUGCAUUAUUUUCACGCCAUU---------CCCGCUGUUCACACAGCUGUUGGCCAUUUGGAUGGGGGCCAGUUCUCUGGCAGACCAUAAAGAUUGGCUAGAACAAGAACCAAAG
..((((.......(((........---------...(((((....)))))...((((((.((..((((..(((((....)))))...))))...)).))))))))).......)))). ( -31.54)
>DroVir_CAF1 9367 100 - 1
-ACCGGCCACAGCUGUUUGCCAUUCUCAUCUG--GCGCGGUGC--ACGGAUUUUUGUCUUUUGGAUGUAAGCCAAUU-UCAAAUAGACCAUAAAAUAC-------ACAAG-A----AG
-.(((((....(((((..((((........))--)))))))))--.)))(((((.((((((((((...........)-))))).))))...)))))..-------.....-.----.. ( -21.50)
>DroSec_CAF1 1825 108 - 1
UAUUUGCAUUAUUUUCACGCCAUU---------CCCGCUGUUCUCGCAGCUGUUGGCCAUUUGGAUGGUGGCCAGUUCUCUGGCAGACCAUAUAGAAUGGCUAGAACAAG-ACCAAAG
..((((..................---------...(((((....)))))..((((((((((..(((((.(((((....)))))..)))))...))))))))))......-..)))). ( -35.40)
>DroSim_CAF1 1807 108 - 1
UAUUUGCAUUAUUUUCACGCCAUU---------CCCGCUGUUCUCGCAGCUGUUGGCCAUUUGGAUGGUGGCCAGUUCUCUGGCAGACCAUCUAGAAUGGCUAGAACAAG-ACCAAAG
..((((..................---------...(((((....)))))..(((((((((((((((((.(((((....)))))..))))))))).))))))))......-..)))). ( -38.30)
>DroEre_CAF1 1828 107 - 1
UAUUUGCAUUAUUUUCACGGCUUU---------CCCGCUGUUCUCGCAGCUGUUGGCCAUUUGGACGGGGGCCAGUUCUCUGGCAGACCAGAAAGUAUGGCUAGAACAAG-AC-CAAG
.........(((((((..((((..---------(..(((((....))))).)..))))........((..(((((....)))))...)).)))))))(((((......))-.)-)).. ( -32.80)
>DroYak_CAF1 1799 117 - 1
UAUGUUCAUUAUUUUCACGCCUUUCCCGUGUUUCCCGCUGCUCGCGCAGCUGUUGGCCAUUUGGAUGGGGGCCAGUUCUCUGGCAGACCAGAAACUUUGGCUAGAACAAG-ACCCAAG
..(((((........((((.......))))......(((((....)))))...((((((......(((..(((((....)))))...))).......)))))))))))..-....... ( -37.22)
>consensus
UAUUUGCAUUAUUUUCACGCCAUU_________CCCGCUGUUCUCGCAGCUGUUGGCCAUUUGGAUGGGGGCCAGUUCUCUGGCAGACCAUAAAGAAUGGCUAGAACAAG_ACCAAAG
....................................(((((....)))))..((((((((....((((..(((((....)))))...)))).....)))))))).............. (-18.72 = -21.38 +   2.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:22 2006