Locus 7280

Sequence ID 3L_DroMel_CAF1
Location 19,493,871 – 19,493,978
Length 107
Max. P 0.571144
window11833

overview

Window 3

Location 19,493,871 – 19,493,978
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.55
Mean single sequence MFE -33.20
Consensus MFE -19.69
Energy contribution -19.67
Covariance contribution -0.03
Combinations/Pair 1.08
Mean z-score -1.62
Structure conservation index 0.59
SVM decision value 0.07
SVM RNA-class probability 0.571144
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19493871 107 + 23771897
-CCCCUGACUACAUUCAAUGUCGUCGGUCGGAGGCGGCGCCUAAUCUAGAAAAUUGUAAAUUAUUUAAUUGGGAGCGCUG-U----GAAACGCCUCUGCAA-UCGCUUUUAGCU------
-...(((((.((((...)))).))))).((((((((((.((((((.((((.(((.....))).)))))))))).))....-.----....))))))))...-..((.....)).------ ( -28.10)
>DroPse_CAF1 2178 106 + 1
-------ACUACGUUCAAUGUCGGCUAUCGGAGGCGGCGCCUAAUCUAGAAGAUUGUAAAUUAUUUAAUUGGGAGCGUUAGCGUUUCCAACGCCUCUGCACAUUGGAUG-CACU------
-------....((((((((((..((....(((((((.....(((((.....)))))............(((((((((....))))))))))))))))))))))))))))-....------ ( -37.00)
>DroEre_CAF1 4593 107 + 1
-CCCCUGACUACGUUCAAUGUCGUUGGUCGGAGGCGGCGCCUAAUCUAGAAAAUUGUAAAUUAUUUAAUUGGGAGCGCUG-C----GAAACGCCUCUGCAA-UCGCAUUUAGCU------
-...........(((.(((((.((((..((((((((.(((....(((....(((((.........))))).))).....)-)----)...)))))))))))-).))))).))).------ ( -29.90)
>DroYak_CAF1 4667 107 + 1
-CCCCUGACUACGUUCAAUGUCGUUGGUCGGAGGCGGCGCCUAAUCUAGAAAAUUGUAAAUUAUUUAAUUGGGAGCGCUG-C----GAAACGCCUCUGCAA-UCGCUUUCAGCU------
-.....(((((((........)).)))))(((((((((.((((((.((((.(((.....))).)))))))))).))((.(-(----(...)))....))..-.)))))))....------ ( -28.00)
>DroAna_CAF1 2197 109 + 1
GCCUCCGUGUACGUUCAAUGUCGUUCGACGGAGGCGGCGCCUAAUCUAUAAGAUUGUAAAUUAUUUAAUUGGGAGCGCUG-G----CAAACGCCUCUGCAC-U-----UCGGCGAAGUCA
(((((((((.(((........))).).))))))))..(((((((((.....)))))...............((((.((.(-(----(....)))...)).)-)-----))))))...... ( -39.20)
>DroPer_CAF1 2024 106 + 1
-------ACUACGUUCAAUGUCGGCUAUCGGAGGCGGCGCCUAAUCUAGAAGAUUGUAAAUUAUUUAAUUGGGAGCGUUAGCGUUUCCAACGCCUCUGCACAUUGGAUG-CACU------
-------....((((((((((..((....(((((((.....(((((.....)))))............(((((((((....))))))))))))))))))))))))))))-....------ ( -37.00)
>consensus
_CCCCUGACUACGUUCAAUGUCGUCGGUCGGAGGCGGCGCCUAAUCUAGAAAAUUGUAAAUUAUUUAAUUGGGAGCGCUG_C____CAAACGCCUCUGCAA_UCGCAUU_AGCU______
............................((((((((((.((((((.((((.(((.....))).)))))))))).))(....)........))))))))...................... (-19.69 = -19.67 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:58 2006