Locus 1190

Sequence ID 3R_DroMel_CAF1
Location 3,583,275 – 3,583,429
Length 154
Max. P 0.999913
window1948 window1949

overview

Window 8

Location 3,583,275 – 3,583,389
Length 114
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 92.31
Mean single sequence MFE -29.84
Consensus MFE -25.94
Energy contribution -26.22
Covariance contribution 0.28
Combinations/Pair 1.07
Mean z-score -2.94
Structure conservation index 0.87
SVM decision value 3.97
SVM RNA-class probability 0.999732
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3583275 114 + 27905053
UCUUCUGCUUC-CAUUUACAUCACUACUUAUGGCAAGCUGCAUCGCAUGAAAUGCAAAUGUUUAUCUGCAAGGACUCAAAGUCGCUGGGGAUGAACAUACAAAUUUCAUGGUAAA
......(((((-(((..............)))).)))).......((((((((....((((((((((.((..(((.....)))..)).))))))))))....))))))))..... ( -32.54)
>DroSec_CAF1 34125 114 + 1
UCUUCGGCUUC-CAUUUACAUCACUACUUAUGGCAAGCUGCAUCGCAUGAAAUGCAAAUGUUUAUCUGCAAGGACUCAAAGUCACUGGGGAUGAACAUACAAAUUUCAUGGUAAA
....(((((((-(((..............)))).)))))).....((((((((....((((((((((.((..(((.....)))..)).))))))))))....))))))))..... ( -36.04)
>DroSim_CAF1 34820 114 + 1
UCUCCUCCUUC-CAUUUAAAUCACUACUUAUGGCAAGCUGCAUCGCUUGAAAUGCAAAUGUUUAUCUGCAAGGACUCAAAGUCGCUGGGGAUGAACAUACAAAUUUCAUGGUAAA
..........(-(((.............(((..(((((......)))))..)))...((((((((((.((..(((.....)))..)).)))))))))).........)))).... ( -26.50)
>DroEre_CAF1 39478 114 + 1
UCUUCUUUUCU-UUUUUACAUCACUACUUAUGGCAAGCUGCAUCUCAUGAAAUGCAAAUGUUUAUCUGCAACGACUCAAAGUCGCUGGGGAUGAACAUACAAAUUUCAUGGUAAA
...........-..(((((.............((.....))....((((((((....((((((((((.((.((((.....)))).)).))))))))))....))))))))))))) ( -32.10)
>DroYak_CAF1 26538 115 + 1
UCUUCUUUUCUCUUUUUACAUCACUACUUAUGGCAAGCUGCAUCUCAUGAAAUGCAAAUGUAUAUCUGUAAGGACUCAAAGUCGCUGUGGAUGAACAUACAAAUUUUAUGGUAAA
..............(((((.............((.....))....((((((((....((((.((((..((..(((.....)))..))..)))).))))....))))))))))))) ( -22.00)
>consensus
UCUUCUGCUUC_CAUUUACAUCACUACUUAUGGCAAGCUGCAUCGCAUGAAAUGCAAAUGUUUAUCUGCAAGGACUCAAAGUCGCUGGGGAUGAACAUACAAAUUUCAUGGUAAA
..............(((((.............((.....))....((((((((....((((((((((.((..(((.....)))..)).))))))))))....))))))))))))) (-25.94 = -26.22 +   0.28)

alignment

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secondary structure

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dotplot

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Window 9

Location 3,583,309 – 3,583,429
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.67
Mean single sequence MFE -33.19
Consensus MFE -30.26
Energy contribution -29.50
Covariance contribution -0.76
Combinations/Pair 1.21
Mean z-score -2.78
Structure conservation index 0.91
SVM decision value 4.52
SVM RNA-class probability 0.999913
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3583309 120 + 27905053
AGCUGCAUCGCAUGAAAUGCAAAUGUUUAUCUGCAAGGACUCAAAGUCGCUGGGGAUGAACAUACAAAUUUCAUGGUAAACUCUCUGAUCGCUCCUGCAAUUGGGAUAAAAGGAAGCAAG
...(((.((.((((((((....((((((((((.((..(((.....)))..)).))))))))))....))))))))......((.(..((.((....)).))..)))......)).))).. ( -35.60)
>DroSec_CAF1 34159 120 + 1
AGCUGCAUCGCAUGAAAUGCAAAUGUUUAUCUGCAAGGACUCAAAGUCACUGGGGAUGAACAUACAAAUUUCAUGGUAAACUCUUUGAUCGCUCCAACAAUUUGGAUAAAAGGAAGCAAG
.(((......((((((((....((((((((((.((..(((.....)))..)).))))))))))....))))))))......(((((......(((((....)))))...))))))))... ( -35.40)
>DroSim_CAF1 34854 120 + 1
AGCUGCAUCGCUUGAAAUGCAAAUGUUUAUCUGCAAGGACUCAAAGUCGCUGGGGAUGAACAUACAAAUUUCAUGGUAAACUCUUUGAUCGCUCCAACAAUUUGGAUAAAAGGAAGCAAG
.(((.....(((((((((....((((((((((.((..(((.....)))..)).))))))))))....)))))).)))....(((((......(((((....)))))...))))))))... ( -31.90)
>DroEre_CAF1 39512 120 + 1
AGCUGCAUCUCAUGAAAUGCAAAUGUUUAUCUGCAACGACUCAAAGUCGCUGGGGAUGAACAUACAAAUUUCAUGGUAAACUCUCUGAUCUCUCCAGCAAUUUGGAUAAAAGGAAGCGAA
.(((.....(((((((((....((((((((((.((.((((.....)))).)).))))))))))....))))))))).......(((......(((((....))))).....))))))... ( -36.80)
>DroYak_CAF1 26573 119 + 1
AGCUGCAUCUCAUGAAAUGCAAAUGUAUAUCUGUAAGGACUCAAAGUCGCUGUGGAUGAACAUACAAAUUUUAUGGUAAACUCUCUGAUCGCUUCAAUAAUUUAGAUAAA-GGGAGCAAA
...(((...(((((((((....((((.((((..((..(((.....)))..))..)))).))))....))))))))).....(((((.(((..............)))..)-))))))).. ( -26.24)
>consensus
AGCUGCAUCGCAUGAAAUGCAAAUGUUUAUCUGCAAGGACUCAAAGUCGCUGGGGAUGAACAUACAAAUUUCAUGGUAAACUCUCUGAUCGCUCCAACAAUUUGGAUAAAAGGAAGCAAG
...(((.((.((((((((....((((((((((.((..(((.....)))..)).))))))))))....)))))))).................(((((....)))))......)).))).. (-30.26 = -29.50 +  -0.76)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:14 2006