Locus 1970

Sequence ID 2L_DroMel_CAF1
Location 5,346,536 – 5,346,627
Length 91
Max. P 0.983716
window3186

overview

Window 6

Location 5,346,536 – 5,346,627
Length 91
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 76.79
Mean single sequence MFE -21.55
Consensus MFE -14.20
Energy contribution -13.87
Covariance contribution -0.33
Combinations/Pair 1.20
Mean z-score -2.43
Structure conservation index 0.66
SVM decision value 1.95
SVM RNA-class probability 0.983716
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5346536 91 + 22407834
UGUUGCCAAUGAAAAUGCAAAUUGUUGGUAACA----AAUAUUGGUAA-AAUGCGGA-GGCCGUA-----GGAAUUUGUGCAAUGCGAGUGCGAAGUGAAGG
(((((((((..(.........)..)))))))))----...........-..(((((.-..)))))-----....((((..(.......)..))))....... ( -20.50)
>DroVir_CAF1 24639 90 + 1
UGUUGCCAAUGAAAAUGCCAAUUGUUGGCAACAACAAAAUAUUGGUAG-AAUGCGGCGGGCCAGCAAA--AUAAAUUGUGCAAUGCAAAUGCA---------
.(((((((((.....((((((((((((....)))))....))))))).-..(((((....)).)))..--....)))).)))))((....)).--------- ( -27.30)
>DroPse_CAF1 17212 89 + 1
UGUUGCCAAUGAAAAUGCAAAUUGUUGGUAACA----AAUAUUGGUAA-AAUGCGGA-GGCCGAG-----AGUAUUUGUGCAAUGCGAGUGCGAAGCGAG--
(((((((((..(.........)..)))))))))----....(((((..-........-.))))).-----.((((((((.....))))))))........-- ( -22.50)
>DroGri_CAF1 18469 83 + 1
UGUUGCCAAUGAAAAUGCAAAUUGUUGGUAACA----AAUAUUGGUAA-AAUGCGGA-AGCCAACAAAUUGU----AGUGCAACGCGAAUGCA---------
.((((((..(....)(((((.((((((((..(.----..((((.....-))))..).-.)))))))).))))----)).)))))((....)).--------- ( -19.90)
>DroWil_CAF1 17537 82 + 1
UGUUGCCAAUGAAAAUGCAAAUUGUUGGUAACA----AAUAUUGGUAAAAAUGCGGA-GGCCAAA-----AGAAUGUGCGAAAU---------AAGCGAAC-
(((((((((..(.........)..)))))))))----....(((((...........-.))))).-----......(((.....---------..)))...- ( -16.60)
>DroPer_CAF1 17152 89 + 1
UGUUGCCAAUGAAAAUGCAAAUUGUUGGUAACA----AAUAUUGGUAA-AAUGCGGA-GGCCGAG-----AGUAUUUGUGCAAUGCGAGUGCGAAGCGAG--
(((((((((..(.........)..)))))))))----....(((((..-........-.))))).-----.((((((((.....))))))))........-- ( -22.50)
>consensus
UGUUGCCAAUGAAAAUGCAAAUUGUUGGUAACA____AAUAUUGGUAA_AAUGCGGA_GGCCAAA_____AGAAUUUGUGCAAUGCGAGUGCGAAGCGA___
(((((((((..(.........)..)))))))))........(((((.............)))))...................................... (-14.20 = -13.87 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:14 2006