Locus 250

Sequence ID 2R_DroMel_CAF1
Location 1,633,302 – 1,633,402
Length 100
Max. P 0.946902
window534 window535

overview

Window 4

Location 1,633,302 – 1,633,402
Length 100
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 95.00
Mean single sequence MFE -29.02
Consensus MFE -25.99
Energy contribution -26.68
Covariance contribution 0.69
Combinations/Pair 1.09
Mean z-score -2.30
Structure conservation index 0.90
SVM decision value 1.37
SVM RNA-class probability 0.946902
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1633302 100 + 20766785
UCUCCAGCUCGCUGUUCGUAUUUUAGUAAUACGAACCAAACAGAACGGAAAAUUCUGCCAGCAGAAAAAUUCGUUACGCCUCGAGUGAUGGAUUUGAGGA
..(((((((((..(((((((((.....))))))))).......((((((...(((((....)))))...))))))......)))))..))))........ ( -28.70)
>DroSec_CAF1 19092 100 + 1
UCUCCAGCUCGCUGUUCGUAUUUUAGUAAUACGAACCAAACAGAACGGAAAAUUCUGCCAGCUGAAAAAUUCGUUACGCCUCGAGUGAUGGAUUUGAGGA
(((((((((.((.(((((((((.....))))))))).....((((.......)))))).)))))..(((((((((((.......))))))))))))))). ( -31.80)
>DroSim_CAF1 17522 100 + 1
UCUCCAGCUCGCUGUUCGUAUUUUAGUAAUACGAACCAAACAGAACGGAAAAUUCUGCCAGCUGAAAAAUUCGUUACGCCUCGAGUGAUGGAUUUGAGGA
(((((((((.((.(((((((((.....))))))))).....((((.......)))))).)))))..(((((((((((.......))))))))))))))). ( -31.80)
>DroEre_CAF1 21580 100 + 1
UCGCCAGCUCCCUGUUCGUAUUUUAGUAAUACGAUUGAAACGGAACGGAAAAUUCUGCCAGUUGAAAAAUUCGUUACGCCUUGAGUGAUGGAUUUUAGGA
....(((((..(((((((((((.....))))))).....))))..((((....))))..))))).((((((((((((.......)))))))))))).... ( -23.80)
>consensus
UCUCCAGCUCGCUGUUCGUAUUUUAGUAAUACGAACCAAACAGAACGGAAAAUUCUGCCAGCUGAAAAAUUCGUUACGCCUCGAGUGAUGGAUUUGAGGA
(((((((((.((.(((((((((.....))))))))).....((((.......)))))).)))))..(((((((((((.......))))))))))))))). (-25.99 = -26.68 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 1,633,302 – 1,633,402
Length 100
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 95.00
Mean single sequence MFE -27.29
Consensus MFE -21.32
Energy contribution -23.07
Covariance contribution 1.75
Combinations/Pair 1.00
Mean z-score -2.12
Structure conservation index 0.78
SVM decision value 0.04
SVM RNA-class probability 0.554682
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1633302 100 - 20766785
UCCUCAAAUCCAUCACUCGAGGCGUAACGAAUUUUUCUGCUGGCAGAAUUUUCCGUUCUGUUUGGUUCGUAUUACUAAAAUACGAACAGCGAGCUGGAGA
........((((...(((((((((.((((.....(((((....))))).....)))).))))).(((((((((.....)))))))))..)))).)))).. ( -29.80)
>DroSec_CAF1 19092 100 - 1
UCCUCAAAUCCAUCACUCGAGGCGUAACGAAUUUUUCAGCUGGCAGAAUUUUCCGUUCUGUUUGGUUCGUAUUACUAAAAUACGAACAGCGAGCUGGAGA
.((((.............))))..........(((((((((.(((((((.....))))).....(((((((((.....))))))))).)).))))))))) ( -30.62)
>DroSim_CAF1 17522 100 - 1
UCCUCAAAUCCAUCACUCGAGGCGUAACGAAUUUUUCAGCUGGCAGAAUUUUCCGUUCUGUUUGGUUCGUAUUACUAAAAUACGAACAGCGAGCUGGAGA
.((((.............))))..........(((((((((.(((((((.....))))).....(((((((((.....))))))))).)).))))))))) ( -30.62)
>DroEre_CAF1 21580 100 - 1
UCCUAAAAUCCAUCACUCAAGGCGUAACGAAUUUUUCAACUGGCAGAAUUUUCCGUUCCGUUUCAAUCGUAUUACUAAAAUACGAACAGGGAGCUGGCGA
.........(((.(.(((.(((((.((((.....(((........))).....)))).)))))...(((((((.....)))))))...))).).)))... ( -18.10)
>consensus
UCCUCAAAUCCAUCACUCGAGGCGUAACGAAUUUUUCAGCUGGCAGAAUUUUCCGUUCUGUUUGGUUCGUAUUACUAAAAUACGAACAGCGAGCUGGAGA
.((((.............))))..........(((((((((((((((((.....))))))))..(((((((((.....)))))))))....))))))))) (-21.32 = -23.07 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:32 2006