Locus 5210

Sequence ID 3R_DroMel_CAF1
Location 13,646,231 – 13,646,341
Length 110
Max. P 0.797671
window8499

overview

Window 9

Location 13,646,231 – 13,646,341
Length 110
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 80.37
Mean single sequence MFE -27.62
Consensus MFE -19.96
Energy contribution -20.63
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.64
Structure conservation index 0.72
SVM decision value 0.61
SVM RNA-class probability 0.797671
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13646231 110 + 27905053
UCAACUAGCUUUUAGCCAAGAGGCGGCUCAUUUCACUCGACGCCUCAUGAAGCAACGGGCAUUGGCCCAAACGCCAC-----UCCGCCGGCAUACAUUCCACACACACACACUCC
.......((((.....((.((((((...............)))))).))))))...((((....))))....(((..-----......)))........................ ( -26.26)
>DroSec_CAF1 11340 108 + 1
UCAACUAGCUUUUAGCCAAGAGGCGGCUCAUUUCACUCGACGCCUCAUGAAGCAACGGGCAUUGGCCCAAACGCCAC-----UCCGCCGGCACGCAUUCCACACA--CGCACUCC
.......((..........((((((...............))))))..(((((...((((....))))....(((..-----......)))..)).)))......--.))..... ( -28.76)
>DroSim_CAF1 10962 95 + 1
UCAACUAGCUUUUAGCCAAGAGGCGGCUCAUUUCACUCGACGCCUCAUGAAGCAACGGGCAUUGGCCCAAACGCCAC-----UCCGCCGGCAUGCAUU---------------CC
(((....((.....))...((((((...............)))))).))).(((..((((....))))....(((..-----......))).)))...---------------.. ( -28.06)
>DroEre_CAF1 11081 101 + 1
UCAACUAGCUUUUAGCCAAGAGGCGGCUCAUUUCACUCGACGCCUCAUGAAGCAACGGGCAUUGGCCCAAACGCCAC-----UCCG---GCGCACAUUCCA------CACACUCC
.......((((.....((.((((((...............)))))).))))))...((((....))))...((((..-----...)---))).........------........ ( -27.56)
>DroAna_CAF1 7995 106 + 1
---ACUAGCUUUUAGCCAAGAGGCGGCUCAUUUCACUCGACGCCUCAUGGAACAGCGGGCAUUGGCCCAAAAGCCGCCUCUCUCCUCUGG-UUGCAUUCCAAGC-----CAUCCC
---....((((.((((((((((((((((..............((....))......((((....))))...))))))))))......)))-)))......))))-----...... ( -34.00)
>DroPer_CAF1 11042 93 + 1
UCAACUAGCAUUUAGCCAAGAGGCGGCUCAUUUCACUCGACGCAUCAUGAAACAACGGGCAUUGGCCCAAC-----------UCCAGCUGC-UGCUCU---------CUCCCU-C
.......((.....))..(((((((((...(((((...((....)).)))))....((((....))))...-----------.......))-))).))---------))....-. ( -21.10)
>consensus
UCAACUAGCUUUUAGCCAAGAGGCGGCUCAUUUCACUCGACGCCUCAUGAAGCAACGGGCAUUGGCCCAAACGCCAC_____UCCGCCGGCAUGCAUUCCA______C_CACUCC
..............(((..((((((...............))))))..........((((....))))....................)))........................ (-19.96 = -20.63 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:06 2006