Locus 3292

Sequence ID 2L_DroMel_CAF1
Location 9,531,922 – 9,532,013
Length 91
Max. P 0.975322
window5232

overview

Window 2

Location 9,531,922 – 9,532,013
Length 91
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.92
Mean single sequence MFE -26.22
Consensus MFE -13.18
Energy contribution -13.73
Covariance contribution 0.56
Combinations/Pair 1.11
Mean z-score -2.49
Structure conservation index 0.50
SVM decision value 1.75
SVM RNA-class probability 0.975322
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9531922 91 + 22407834
-----GGGUAAAAUU-UAUAUUUGGCAAUUGGCCAGAAGAGAGACA----ACAUAAGUAACCCA----AAAAAGUUGGCUUUUUCGUCAUUC--------------UUUUUAUCC-UGGG
-----((((((((..-....((((((.....))))))((((.(((.----....(((((((...----.....))).))))....))).)))--------------)))))))))-.... ( -21.00)
>DroSec_CAF1 39315 91 + 1
-----GGGUAAAAUU-UAUAUUUGGCAAUUGGCCAGAAGAGUGGCA----AAGUAAGUAAACCA----AAAAAGUUGGCUUUUUCGUCAUUC--------------UUUUUAUCC-UGGG
-----((((((((..-....((((((.....))))))((((((((.----(((.((((.(((..----.....))).))))))).)))))))--------------)))))))))-.... ( -26.60)
>DroSim_CAF1 42444 95 + 1
-----GGGUAAAAUU-UAUAUUUGGCAAUUGGCCAGAAGAGUGGCAAGUAAAGUAAGUAAACCA----AAAAAGUUGGCUUUUUCGUCAUUC--------------UUUUUAUCC-UGGG
-----((((((((..-....((((((.....))))))((((((((....(((((.....(((..----.....))).)))))...)))))))--------------)))))))))-.... ( -25.40)
>DroEre_CAF1 43232 100 + 1
-----GGGUAGAAUA-UGUAUUUGGCAAUUGGCCAGAAGCGAAGCA----AAAUAAGUAAGCCA----AAAAAGUUGGCUCAUUCGUCAUUCCUCU-----GCUUCUUUUCAUCC-UGGU
-----((((.(((..-.((.((((((.....)))))).))((((((----..(..(((.(((((----(.....)))))).)))..)........)-----)))))..)))))))-.... ( -26.10)
>DroYak_CAF1 47289 93 + 1
-----GGGUAAAAUU-UGUAUUUGGCAAUUGGCCAGAAGCGAAGCA----AAA-AAAUAAGCCAACAUAAAAAGUUGGCUUUUUCGUCAUUC---------------UUUUAUCC-UGGG
-----((((((((((-(((.((((((.....)))))).)))))...----...-....((((((((.......))))))))...........---------------))))))))-.... ( -28.80)
>DroPer_CAF1 41914 111 + 1
CACAGGGGCAACAUUGUGUUUUUGGCAAUUGGCCAAAGAAAUGGCCA-UAAAAUAAG---GCCA----CAAAAGUUGGCUAUUUCAUCAUCCAUCUAUCCAGCCUC-UUUCAUCCAUGGA
...((((((...........((((((.....))))))((((((((((-.........---....----.......))))))))))................)))))-)............ ( -29.45)
>consensus
_____GGGUAAAAUU_UAUAUUUGGCAAUUGGCCAGAAGAGAGGCA____AAAUAAGUAAGCCA____AAAAAGUUGGCUUUUUCGUCAUUC______________UUUUUAUCC_UGGG
.....((((((((.......((((((.....))))))......................................((((......))))..................))))))))..... (-13.18 = -13.73 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:05 2006