Locus 1234

Sequence ID 3R_DroMel_CAF1
Location 3,715,334 – 3,715,449
Length 115
Max. P 0.616636
window2016

overview

Window 6

Location 3,715,334 – 3,715,449
Length 115
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 81.43
Mean single sequence MFE -34.60
Consensus MFE -22.92
Energy contribution -24.15
Covariance contribution 1.23
Combinations/Pair 1.25
Mean z-score -1.60
Structure conservation index 0.66
SVM decision value 0.17
SVM RNA-class probability 0.616636
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3715334 115 - 27905053
CGGCCACGACAUUAUACCAUUCUCAUUCGCCGAUUC---GUUAUCUCGAUUUUUUCCAGCUGCUCUUCCCGCUGCAAUUUAGCGAGCUGCUGGGCAAAGUCGAUGUGGAGGCCAACGU
.((((.(.(((....................(((..---...)))((((((((.((((((.((((.....((((.....)))))))).)))))).))))))))))).).))))..... ( -39.40)
>DroPse_CAF1 2175 109 - 1
CGGUGGCCCCAC-------UUUUCAUUCGUUCUUCCUCUGUGGUCU-GUUCU-UUUCAGCUGCUCUUCCCGCUGAACUACAGCGAAUUGCUGGGUAAAGUCGAUGUGGAGGCCAAUGU
...(((((((((-------.......(((..((((((..(..((((-((...-.((((((..........))))))..))))...))..).)))..))).))).)))).))))).... ( -31.80)
>DroSim_CAF1 2205 114 - 1
CGGCCACGACAUUAUACCAUUCUCAUUCGCCGAUUC---GUUAUCUCGAUUU-UUCCAGCUGCUCUUCCCGCUGCAAUUUAGCGAGCUGCUGGGCAAAGUCGAUGUGGAGGCCAACGU
.((((.(.(((....................(((..---...)))(((((((-(((((((.((((.....((((.....)))))))).)))))).))))))))))).).))))..... ( -38.60)
>DroEre_CAF1 7304 114 - 1
CGGCCACGACAUUAUACCAUUCUCAUUCGCCGAUUC---GUUAUCUCGAUUU-UUCCAGUUGCUCUUCCCGCUGCAAUUUAGCGAGCUGCUGGGCAAAGUCGAUGUGGAGGCCAACGU
.((((.(.(((....................(((..---...)))(((((((-(((((((.((((.....((((.....)))))))).)))))).))))))))))).).))))..... ( -37.00)
>DroYak_CAF1 2221 114 - 1
CGGCCACAAUAUUAUACCAUUCUCAUUCGCCGAUUC---GUUAUCUCGAUUU-UUCCAGUUGCUCUUCCCGCUGCAAUUUAGCGAGCUGCUUGGCAAAGUCGAUGUGGAGGCUAACGU
...(((((.......................(((..---...)))(((((((-(.(((((.((((.....((((.....)))))))).)).))).)))))))))))))..((....)) ( -27.60)
>DroPer_CAF1 2174 109 - 1
CGGUGGCCCCAC-------UUUUCAUACGUGCUUCCUCUGUGGUCU-GUUCU-UUUCAGCUGCUCUUCCCGCUGAACUACAGCGAAUUGCUGGGCAAAGUCGAUGUGGAGGCCAAUGU
...(((((((((-------...((.....(((((.....(..(.((-(....-...))))..)......(((((.....))))).......))))).....)).)))).))))).... ( -33.20)
>consensus
CGGCCACGACAUUAUACCAUUCUCAUUCGCCGAUUC___GUUAUCUCGAUUU_UUCCAGCUGCUCUUCCCGCUGCAAUUUAGCGAGCUGCUGGGCAAAGUCGAUGUGGAGGCCAACGU
.((((.(.(((....................(((........)))(((((((..((((((.((((.....((((.....)))))))).))))))..)))))))))).).))))..... (-22.92 = -24.15 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:17 2006