Locus 1613

Sequence ID 3L_DroMel_CAF1
Location 4,740,222 – 4,740,359
Length 137
Max. P 0.969246
window2493 window2494

overview

Window 3

Location 4,740,222 – 4,740,327
Length 105
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 98.08
Mean single sequence MFE -27.67
Consensus MFE -26.98
Energy contribution -26.98
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.55
Structure conservation index 0.97
SVM decision value 1.64
SVM RNA-class probability 0.969246
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4740222 105 + 23771897
AAAUGAGUCGCGAUGUUCAAACAGAAACCUCAGCCCAAAGUGAAUGUGAGUGUUAACAAUUAAAGUACACAUACACUCACACACGGGGUGUUGUUUUACAUAUGC
.........(((((((..((((((........((((...(((..(((((((((...................)))))))))))).)))).)))))).)))).))) ( -27.51)
>DroSec_CAF1 459 103 + 1
AAAUGUGUCGCGAUGUUCAAACAGAAACCUCAGCCCAAAGUGAAUGUGAGUGUUAACAAUUAAAGUACAC--ACACUCACACACGGGGUGUUGUUUUACAUAUGC
..(((((..(((((.(((.....)))......((((...(((..(((((((((..((.......))....--)))))))))))).)))))))))..))))).... ( -28.20)
>DroSim_CAF1 464 103 + 1
AAAUGAGUCGCGAUGUUCAAACAGAAACCUCAGCCCAAAGUGAAUGUGAGUGUUAACAAUUAAAGUACAC--ACACUCACACACGGGGUGUUGUUUUACAUAUGC
.........(((((((..((((((........((((...(((..(((((((((..((.......))....--)))))))))))).)))).)))))).)))).))) ( -27.30)
>consensus
AAAUGAGUCGCGAUGUUCAAACAGAAACCUCAGCCCAAAGUGAAUGUGAGUGUUAACAAUUAAAGUACAC__ACACUCACACACGGGGUGUUGUUUUACAUAUGC
.........(((((((..((((((........((((...(((..(((((((((...................)))))))))))).)))).)))))).)))).))) (-26.98 = -26.98 +  -0.00)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 4

Location 4,740,257 – 4,740,359
Length 102
Sequences 3
Columns 102
Reading direction forward
Mean pairwise identity 98.03
Mean single sequence MFE -26.50
Consensus MFE -25.14
Energy contribution -25.48
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.51
Structure conservation index 0.95
SVM decision value -0.04
SVM RNA-class probability 0.513480
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4740257 102 + 23771897
CAAAGUGAAUGUGAGUGUUAACAAUUAAAGUACACAUACACUCACACACGGGGUGUUGUUUUACAUAUGCUCGCAAUUAUGCCGUCUGUGGGCGAUGCAAUU
....(((..(((((((((...................))))))))))))...(((((((....((((.((..(((....))).)).)))).))))))).... ( -25.11)
>DroSec_CAF1 494 100 + 1
CAAAGUGAAUGUGAGUGUUAACAAUUAAAGUACAC--ACACUCACACACGGGGUGUUGUUUUACAUAUGCUCGCAAUUAUGCAGUCUGUGGGCGAUGCAAUU
....(((..(((((((((..((.......))....--))))))))))))...(((((((....((((.(((.(((....)))))).)))).))))))).... ( -27.20)
>DroSim_CAF1 499 100 + 1
CAAAGUGAAUGUGAGUGUUAACAAUUAAAGUACAC--ACACUCACACACGGGGUGUUGUUUUACAUAUGCUCGCAAUUAUGCAGUCUGUGGGCGAUGCAAUU
....(((..(((((((((..((.......))....--))))))))))))...(((((((....((((.(((.(((....)))))).)))).))))))).... ( -27.20)
>consensus
CAAAGUGAAUGUGAGUGUUAACAAUUAAAGUACAC__ACACUCACACACGGGGUGUUGUUUUACAUAUGCUCGCAAUUAUGCAGUCUGUGGGCGAUGCAAUU
....(((..(((((((((...................))))))))))))...(((((((....((((.(((.(((....)))))).)))).))))))).... (-25.14 = -25.48 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:53 2006