Locus 618

Sequence ID X_DroMel_CAF1
Location 1,705,096 – 1,705,252
Length 156
Max. P 0.970154
window1000 window1001 window1002

overview

Window 0

Location 1,705,096 – 1,705,216
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 92.46
Mean single sequence MFE -36.93
Consensus MFE -29.90
Energy contribution -30.90
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.82
Structure conservation index 0.81
SVM decision value 0.73
SVM RNA-class probability 0.835751
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1705096 120 + 22224390
AUCUAAUCGCUGACCACGCACUCGACGCCCAAUGUACUCUGCCCAUAUGUACAUACAUAUGUACGUGAUGGACAUACACAUGUGGGUAUGUGGGUGCUCCUCUCACAUGUGCGAGUAUAC
........((.......))((((((((((((((((....((.((((((((((((....)))))))).)))).))...)))).)))))(((((((.......))))))))).))))).... ( -37.90)
>DroSec_CAF1 45047 118 + 1
AUCUAAUCGCUGACUACGCACUCGACGCCCCAUGUACUCUGCCCAUAUGUACAUACAUAUGUACGUGAUGGACAUACCCAUUUGGGUAUGUGGGUGCUCCUCUCACAUGUGCGAGU--AC
............(((.(((((............((((((...((((((((((((....)))))))).))))((((((((....))))))))))))))...........))))))))--.. ( -41.30)
>DroSim_CAF1 38967 110 + 1
AUCUAAUCGCUGACCACGCACUCGACGCCCCAUGUACUCUGCCCAUAUGUACAUACAUAUGUACGUGAUGGACAUACCCA--------UGUGGGUGCUCCUCUCACAUGUGCGAGU--AC
................(((((..(((((((((((.....((.((((((((((((....)))))))).)))).))....))--------)).))))).)).........)))))...--.. ( -31.60)
>consensus
AUCUAAUCGCUGACCACGCACUCGACGCCCCAUGUACUCUGCCCAUAUGUACAUACAUAUGUACGUGAUGGACAUACCCAU_UGGGUAUGUGGGUGCUCCUCUCACAUGUGCGAGU__AC
................(((((............((((((...((((((((((((....)))))))).))))((((((........))))))))))))...........)))))....... (-29.90 = -30.90 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 1,705,136 – 1,705,252
Length 116
Sequences 3
Columns 116
Reading direction forward
Mean pairwise identity 93.35
Mean single sequence MFE -35.41
Consensus MFE -31.47
Energy contribution -32.13
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -3.33
Structure conservation index 0.89
SVM decision value 1.65
SVM RNA-class probability 0.970154
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1705136 116 + 22224390
GCCCAUAUGUACAUACAUAUGUACGUGAUGGACAUACACAUGUGGGUAUGUGGGUGCUCCUCUCACAUGUGCGAGUAUACAAGUAUAGUACAUAUGUAAACCAUAACCCGAUCCAG
.....((((....(((((((((((((((.(((((..((((((....))))))..)).)))..)))).(((((..(....)..))))))))))))))))...))))........... ( -34.60)
>DroSec_CAF1 45087 114 + 1
GCCCAUAUGUACAUACAUAUGUACGUGAUGGACAUACCCAUUUGGGUAUGUGGGUGCUCCUCUCACAUGUGCGAGU--ACAAGUAUAGUACAUAUGUAAACCAUAACCCGAUCCAG
..((((((((((((....)))))))).))))((((((((....))))))))((((........((.((((((..((--(....))).)))))).)).........))))....... ( -38.43)
>DroSim_CAF1 39007 106 + 1
GCCCAUAUGUACAUACAUAUGUACGUGAUGGACAUACCCA--------UGUGGGUGCUCCUCUCACAUGUGCGAGU--ACAAGUAUAGUACAUAUGUAAACCAUAACCCGAUCCAG
.....((((....(((((((((((((((.(((..(((((.--------...))))).)))..)))).(((((....--....))))))))))))))))...))))........... ( -33.20)
>consensus
GCCCAUAUGUACAUACAUAUGUACGUGAUGGACAUACCCAU_UGGGUAUGUGGGUGCUCCUCUCACAUGUGCGAGU__ACAAGUAUAGUACAUAUGUAAACCAUAACCCGAUCCAG
.....((((....(((((((((((((((.(((..(((((((........))))))).)))..)))).(((((..(....)..))))))))))))))))...))))........... (-31.47 = -32.13 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 1,705,136 – 1,705,252
Length 116
Sequences 3
Columns 116
Reading direction reverse
Mean pairwise identity 93.35
Mean single sequence MFE -37.53
Consensus MFE -30.27
Energy contribution -30.60
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -3.27
Structure conservation index 0.81
SVM decision value 0.90
SVM RNA-class probability 0.877928
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1705136 116 - 22224390
CUGGAUCGGGUUAUGGUUUACAUAUGUACUAUACUUGUAUACUCGCACAUGUGAGAGGAGCACCCACAUACCCACAUGUGUAUGUCCAUCACGUACAUAUGUAUGUACAUAUGGGC
.(((((((.....)))))))(((((((((.((((.(((((.(((((....))))).(((.((..(((((......)))))..))))).....)))))...)))))))))))))... ( -37.60)
>DroSec_CAF1 45087 114 - 1
CUGGAUCGGGUUAUGGUUUACAUAUGUACUAUACUUGU--ACUCGCACAUGUGAGAGGAGCACCCACAUACCCAAAUGGGUAUGUCCAUCACGUACAUAUGUAUGUACAUAUGGGC
.(((((((.....)))))))(((((((((.((((.(((--((((((....))))((((.....))((((((((....))))))))...))..)))))...)))))))))))))... ( -39.20)
>DroSim_CAF1 39007 106 - 1
CUGGAUCGGGUUAUGGUUUACAUAUGUACUAUACUUGU--ACUCGCACAUGUGAGAGGAGCACCCACA--------UGGGUAUGUCCAUCACGUACAUAUGUAUGUACAUAUGGGC
.(((((((.....)))))))(((((((((.((((.(((--((((((....))))(((((..((((...--------.))))...))).))..)))))...)))))))))))))... ( -35.80)
>consensus
CUGGAUCGGGUUAUGGUUUACAUAUGUACUAUACUUGU__ACUCGCACAUGUGAGAGGAGCACCCACAUACCCA_AUGGGUAUGUCCAUCACGUACAUAUGUAUGUACAUAUGGGC
.(((((((.....)))))))(((((((((.((((.(((...(((((....))))).(((..(((((..........)))))...))).......)))...)))))))))))))... (-30.27 = -30.60 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:34 2006