Locus 2034

Sequence ID 3L_DroMel_CAF1
Location 5,600,075 – 5,600,206
Length 131
Max. P 0.987061
window3177 window3178

overview

Window 7

Location 5,600,075 – 5,600,166
Length 91
Sequences 6
Columns 91
Reading direction reverse
Mean pairwise identity 97.95
Mean single sequence MFE -21.58
Consensus MFE -21.18
Energy contribution -20.90
Covariance contribution -0.28
Combinations/Pair 1.08
Mean z-score -0.70
Structure conservation index 0.98
SVM decision value 0.17
SVM RNA-class probability 0.618199
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5600075 91 - 23771897
UUUUCUCUGUUUGCCUGUCAGUCUGCGUUCGCCUGUCCGUCUGUUUGUCUUAGUAAUAGACACCUGUACAGGUCAAAUUGGUCGGCUGUCU
............(((..(((((.((.....((((((.((..(((((((.......)))))))..)).)))))))).)))))..)))..... ( -21.90)
>DroSec_CAF1 19280 91 - 1
UUUUCUCUGUUUGCCUGUCAGUCUGCGUUCGCCUGUCCGUCUGUUUGUCUUAGUAAUAGACACCUGUACAGGUCAAAUUGGUCGGCUGUCU
............(((..(((((.((.....((((((.((..(((((((.......)))))))..)).)))))))).)))))..)))..... ( -21.90)
>DroSim_CAF1 18515 91 - 1
UUUUCUCUGUUUGCCUGUCAGUCUGCGUUCGCCUGUCCGUCUGUUUGUCUUAGUAAUAGACACCUGUACAGGUCAAAUUGGUCGGCUGUCU
............(((..(((((.((.....((((((.((..(((((((.......)))))))..)).)))))))).)))))..)))..... ( -21.90)
>DroEre_CAF1 20467 91 - 1
UUUUCUCUGUUUGCCUGUCAGUCUGCGUUCGCCUAUCCGUCUGUUUGUCUUAGUAAUAGACACCUGUACAGGUCAAAUUGGUCGGCUGUCU
.....((.(((((((((((((...((....))......(((((((.........)))))))..))).))))).))))).)).......... ( -21.30)
>DroYak_CAF1 18741 91 - 1
UUUUCUCUGUUUGCCUGUCAGUCUGCGUUCGCCUAUCCGUCUGUUUGUCUUAGUAAUAGACACCUGUACGGGUCAAAUUGGUCGGCUGUCU
.....((.(((((((((((((...((....))......(((((((.........)))))))..))).))))).))))).)).......... ( -20.60)
>DroAna_CAF1 19742 91 - 1
UUUUCUCUGUUUGCCUGUCAGUCUGUGCUCGCCUGUCCGUCUGUUUGUCGUAGUAAUAGACACCUGUACAGGUCAAAUUGGUCGGCUGUCU
............(((..(((((.((.....((((((.((..(((((((.......)))))))..)).)))))))).)))))..)))..... ( -21.90)
>consensus
UUUUCUCUGUUUGCCUGUCAGUCUGCGUUCGCCUGUCCGUCUGUUUGUCUUAGUAAUAGACACCUGUACAGGUCAAAUUGGUCGGCUGUCU
.....((.(((((((((((((...((....))......(((((((.........)))))))..))).))))).))))).)).......... (-21.18 = -20.90 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 8

Location 5,600,105 – 5,600,206
Length 101
Sequences 5
Columns 101
Reading direction reverse
Mean pairwise identity 93.66
Mean single sequence MFE -33.96
Consensus MFE -29.76
Energy contribution -29.84
Covariance contribution 0.08
Combinations/Pair 1.12
Mean z-score -1.87
Structure conservation index 0.88
SVM decision value 2.06
SVM RNA-class probability 0.987061
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5600105 101 - 23771897
UAGAAUCGGGCGGAGAAAGACGGGGAGACAAAGUGAAUGCUUUUCUCUGUUUGCCUGUCAGUCUGCGUUCGCCUGUCCGUCUGUUUGUCUUAGUAAUAGAC
..((..((((((.(((..((((((.(((((.((.(((....))))).))))).))))))..))).))))))....)).(((((((.........))))))) ( -33.90)
>DroSec_CAF1 19310 101 - 1
UAGAAUCGGGCGGAGAAAGACAGAGAGGCAAAGUGAAUGCUUUUCUCUGUUUGCCUGUCAGUCUGCGUUCGCCUGUCCGUCUGUUUGUCUUAGUAAUAGAC
......((((((((...((((.((.((((((((.(((.....))).))..)))))).)).))))...))))))))...(((((((.........))))))) ( -36.10)
>DroSim_CAF1 18545 101 - 1
UAGAAUCGGGCGGAGAAAGACGGGGAGGCAAAGUGAAUGCUUUUCUCUGUUUGCCUGUCAGUCUGCGUUCGCCUGUCCGUCUGUUUGUCUUAGUAAUAGAC
......((((((((...((((.((.((((((((.(((.....))).))..)))))).)).))))...))))))))...(((((((.........))))))) ( -35.90)
>DroEre_CAF1 20497 101 - 1
GAGAAUCGGGCGGAGAAAGACGGGGAGACAAAGUGAAUGCUUUUCUCUGUUUGCCUGUCAGUCUGCGUUCGCCUAUCCGUCUGUUUGUCUUAGUAAUAGAC
((....((((((.(((..((((((.(((((.((.(((....))))).))))).))))))..))).))))))....)).(((((((.........))))))) ( -34.40)
>DroAna_CAF1 19772 99 - 1
GAGAAACGAACGG-GAUGGACG-GGAGACAAAGUGAAUGCUUUUCUCUGUUUGCCUGUCAGUCUGUGCUCGCCUGUCCGUCUGUUUGUCGUAGUAAUAGAC
.....((((((((-.(((((((-(((((((.(.(((..((............))...))).).))).))).)).))))))))))))))............. ( -29.50)
>consensus
UAGAAUCGGGCGGAGAAAGACGGGGAGACAAAGUGAAUGCUUUUCUCUGUUUGCCUGUCAGUCUGCGUUCGCCUGUCCGUCUGUUUGUCUUAGUAAUAGAC
......((((((.(((..((((((.(((((.((.(((....))))).))))).))))))..))).)))))).......(((((((.........))))))) (-29.76 = -29.84 +   0.08)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:54 2006