Locus 8336

Sequence ID X_DroMel_CAF1
Location 20,684,567 – 20,684,774
Length 207
Max. P 0.960738
window13693 window13694

overview

Window 3

Location 20,684,567 – 20,684,659
Length 92
Sequences 3
Columns 92
Reading direction forward
Mean pairwise identity 85.14
Mean single sequence MFE -16.67
Consensus MFE -11.63
Energy contribution -11.63
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.85
Structure conservation index 0.70
SVM decision value -0.04
SVM RNA-class probability 0.510756
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20684567 92 + 22224390
CCGGCACGACGACAGACAUCUGUCGAUGGCUUCUCAACAGUCAUUUUCCGACGAAUACUAAAUUGCCUCUAAUCUACUUUAUCAUCGACACC
..((((...((((((....))))))((((((.......))))))...................))))......................... ( -18.70)
>DroEre_CAF1 81030 76 + 1
----------------CAUCUGUCGAUGGCUUCUCAACAGUCAUUUUCCGACGAAUACUAAAUUGCCUCUAAUCUACUCCAACAUCGACACC
----------------....((((((((...........(((.......)))((.............)).............)))))))).. ( -11.72)
>DroYak_CAF1 82547 92 + 1
CCGGGACGACGACAGACAUCUGUCGAUGGCUUCUCAACAGUCAUUUUCCGACGAAUGCUAAAUUGCCUCUAAUCUACUUUAUCAUCGACACC
.(((((...((((((....))))))((((((.......)))))).))))).(((..((......))...(((......)))...)))..... ( -19.60)
>consensus
CCGG_ACGACGACAGACAUCUGUCGAUGGCUUCUCAACAGUCAUUUUCCGACGAAUACUAAAUUGCCUCUAAUCUACUUUAUCAUCGACACC
....................((((((((...........(((.......))).(((.....)))..................)))))))).. (-11.63 = -11.63 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 20,684,659 – 20,684,774
Length 115
Sequences 3
Columns 116
Reading direction forward
Mean pairwise identity 73.41
Mean single sequence MFE -25.22
Consensus MFE -13.17
Energy contribution -12.73
Covariance contribution -0.43
Combinations/Pair 1.33
Mean z-score -2.46
Structure conservation index 0.52
SVM decision value 1.52
SVM RNA-class probability 0.960738
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20684659 115 + 22224390
AGGAAACAGACAGAGAGCCUAGGCAAGUGCUGGAGAAUGAGAAAGAGGCAAUUUCCAUUAACCACUUUGAAAAAUAAUGUAGUGUGGAUGAUG-AGAAAGUGUACAUUUUCAAAAC
.(....)...(((...((....)).....)))(((((((........(((.(((((((((.((((..................)))).)))))-.)))).))).)))))))..... ( -24.77)
>DroEre_CAF1 81106 105 + 1
AGGAAACAGACAGGGAGCCCCGGCGAAAGUUGGAGAAAAAGCCAGGGGCAAUUUCCAUUAACUAGUUUGAACAAUAAUGUAGUGGAGAUGAUA-AGAAAUGGGAAA----------
.(....).........((((((((....)))((........)).))))).((((((((((....(((........))).))))))))))....-............---------- ( -27.60)
>DroYak_CAF1 82639 109 + 1
AGGAAAUAGACAGGGAGCCUCAGCGAAAGUUGCAGAAACAGUA-AGGGCAAUUUCCAUUAACCACUUUGAACAAUAAUGUUG-----AUGAUGGAGUAAGUGGAAAUU-AGAAAAC
................((((((((....))))...........-.))))((((((((((..(((...(.((((....)))).-----)...)))....))))))))))-....... ( -23.30)
>consensus
AGGAAACAGACAGGGAGCCUCGGCGAAAGUUGGAGAAAAAGAAAGGGGCAAUUUCCAUUAACCACUUUGAACAAUAAUGUAGUG__GAUGAUG_AGAAAGUGGAAAUU___AAAAC
.((((((.....)...((((((((....)))).............))))..))))).....(((((((............................)))))))............. (-13.17 = -12.73 +  -0.43)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:31 2006