Locus 7166

Sequence ID 2L_DroMel_CAF1
Location 20,047,216 – 20,047,332
Length 116
Max. P 0.717647
window11444

overview

Window 4

Location 20,047,216 – 20,047,332
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.41
Mean single sequence MFE -26.58
Consensus MFE -19.68
Energy contribution -19.44
Covariance contribution -0.24
Combinations/Pair 1.14
Mean z-score -1.99
Structure conservation index 0.74
SVM decision value 0.39
SVM RNA-class probability 0.717647
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20047216 116 + 22407834
CACCAGAUGACCUUUUUCGCACAGCGAAAUAAAAAUUGUUGAAUAAAAGGCAAAUAAAAUUUGUGUGUCACACAAAUAAGG-GGCGAAA---AGCCUCGUCAAAGUCUCGACAUGAGCAC
.....(((((..((((((((.((((((........)))))).................(((((((.....)))))))....-.))))))---))..)))))...(.(((.....)))).. ( -27.70)
>DroSec_CAF1 229589 116 + 1
CACCAGAUGACCUUUUUCGCACAGCGAAAUAAAAAUUGUUGAAUAAAAGGAAAAUAAAAUUUGUGUGUCACACAAAUAAGGGGGCGAAA---AGCCUCGUCAAAGUCUCGACAUGAGCA-
.....(((((..((((((((.((((((........)))))).................(((((((.....)))))))......))))))---))..)))))...(.(((.....)))).- ( -27.70)
>DroEre_CAF1 224320 116 + 1
CGCCAGAUGACCUUUUUCGCACAGCGAAAUAAAAAUUGUUAAAUAAAAGGCAAAUAAAAUUUGUGUGUCACACAAAUAAGGGGGCGAAA---AGCCUCGUCAAAGUCUCGACGUGAGCA-
((((......((((((((((...))))))......(((((........))))).....(((((((.....))))))))))).))))...---.(((.((((........)))).).)).- ( -29.00)
>DroYak_CAF1 223383 116 + 1
CACCAGAUGACCUUUUUCGCAGAGCGAAAUAAAAAUUGUUAAAUAAAAGGCAAAUAAAAUUUGUGUGUCACACAAAUAAGGGGGCGAAA---AGCCUCGUCAAAGUCUCGACAUGAGCA-
.....((.(((...((((((...))))))...................(((.......(((((((.....)))))))...(((((....---.))))))))...)))))..........- ( -26.20)
>DroAna_CAF1 240695 115 + 1
CCGCAGAUGACCUUUUUCGCAC----AAAUAAAAAUUGUUAAAUAAAAGGCAAAUAAAAUUUGUGUGUCACACAUGUAUAAGAGUGAAAAAGAGCCUCGUCAAAGUCUCGACAUGGGUA-
(((..(((((.(((((((((((----((((.....(((((........))))).....)))))))))((((.(........).)))).))))))..)))))...((....)).)))...- ( -22.30)
>consensus
CACCAGAUGACCUUUUUCGCACAGCGAAAUAAAAAUUGUUAAAUAAAAGGCAAAUAAAAUUUGUGUGUCACACAAAUAAGGGGGCGAAA___AGCCUCGUCAAAGUCUCGACAUGAGCA_
.....(((((.((.((((((...............(((((........))))).....(((((((.....)))))))......))))))...))..)))))...(.(((.....)))).. (-19.68 = -19.44 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:07 2006