Locus 7931

Sequence ID X_DroMel_CAF1
Location 19,794,032 – 19,794,159
Length 127
Max. P 0.833497
window13013 window13014

overview

Window 3

Location 19,794,032 – 19,794,145
Length 113
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 82.97
Mean single sequence MFE -25.67
Consensus MFE -21.82
Energy contribution -23.60
Covariance contribution 1.78
Combinations/Pair 1.03
Mean z-score -1.77
Structure conservation index 0.85
SVM decision value 0.72
SVM RNA-class probability 0.833497
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19794032 113 - 22224390
GCAUUCCCCAUUCGCCAGAAGAUCUAUGUACAUAUAUGUAUGUAUGUAUGUAUCUCGACUUCUGGGGCAAACCAACAUGGGAGCACACCUUAACCCAAAAUGACCCCGGCCCG
.............((((((((.((...(((((((((((....)))))))))))...)))))))((((((.........(((......)))..........)).)))))))... ( -30.01)
>DroSec_CAF1 1720 91 - 1
ACAUUCCCCAUUCGCCAGAAGAUCUAU----------------------GUAUCUCGACUUCUGGGGCAAACCAACAUGGGAGCACACCUUAACCCAUGAUGACCCCGGCCCG
.............((((((((.((...----------------------.......)))))))((((.....((.((((((............)))))).)).)))))))... ( -23.80)
>DroSim_CAF1 5722 91 - 1
ACAUUCCCCAUUCGUCAGAAGAUCUAU----------------------GUAUCUCGACUUCUGGGGUAAACCAACAUGGGAGCACACCUUAACCCAUGAUGACCCCGGCCCG
.............((((((((.((...----------------------.......)))))))(((((....((.((((((............)))))).))))))))))... ( -23.20)
>consensus
ACAUUCCCCAUUCGCCAGAAGAUCUAU______________________GUAUCUCGACUUCUGGGGCAAACCAACAUGGGAGCACACCUUAACCCAUGAUGACCCCGGCCCG
.............((((((((.(((((((((((((......)))))))))))....)))))))((((.....((.((((((............)))))).)).)))))))... (-21.82 = -23.60 +   1.78)

alignment

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secondary structure

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dotplot

Postscript

Window 4

Location 19,794,069 – 19,794,159
Length 90
Sequences 3
Columns 90
Reading direction forward
Mean pairwise identity 77.42
Mean single sequence MFE -21.20
Consensus MFE -16.73
Energy contribution -16.29
Covariance contribution -0.44
Combinations/Pair 1.11
Mean z-score -1.16
Structure conservation index 0.79
SVM decision value 0.09
SVM RNA-class probability 0.577228
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19794069 90 + 22224390
GUUGGUUUGCCCCAGAAGUCGAGAUACAUACAUACAUACAUAUAUGUACAUAGAUCUUCUGGCGAAUGGGGAAUGCCGAGUCACAGUGCU
.(((((...(((((...((((((((...((..((((((....))))))..)).)))))..)))...)))))...)))))........... ( -26.80)
>DroSec_CAF1 1757 68 + 1
GUUGGUUUGCCCCAGAAGUCGAGAUAC----------------------AUAGAUCUUCUGGCGAAUGGGGAAUGUCGAGUCAGACUGCU
.(((..((((((((...((((((((..----------------------....)))))..)))...))))).....)))..)))...... ( -18.30)
>DroSim_CAF1 5759 68 + 1
GUUGGUUUACCCCAGAAGUCGAGAUAC----------------------AUAGAUCUUCUGACGAAUGGGGAAUGUCGAGUCAGGCUGCU
.........(((((...((((((((..----------------------....)))))..)))...)))))...(((......))).... ( -18.50)
>consensus
GUUGGUUUGCCCCAGAAGUCGAGAUAC______________________AUAGAUCUUCUGGCGAAUGGGGAAUGUCGAGUCAGACUGCU
.(((((...(((((...((((((((............................)))))..)))...)))))...)))))........... (-16.73 = -16.29 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:51:06 2006