Locus 245

Sequence ID X_DroMel_CAF1
Location 836,646 – 836,816
Length 170
Max. P 0.904383
window368 window369 window370 window371

overview

Window 8

Location 836,646 – 836,738
Length 92
Sequences 4
Columns 92
Reading direction forward
Mean pairwise identity 88.77
Mean single sequence MFE -19.15
Consensus MFE -14.94
Energy contribution -16.25
Covariance contribution 1.31
Combinations/Pair 1.00
Mean z-score -1.51
Structure conservation index 0.78
SVM decision value 0.13
SVM RNA-class probability 0.600103
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 836646 92 + 22224390
UUCGCUACGCACAUUCAUGAAAAUCUCAUCGCAUAUAAUCAGUGCCACAUUCAGCGCAAAUCUCCAGGUACCACGCCCACUUCGCGGGCUUA
..((((..........((((.....)))).((((.......)))).......))))..................((((.......))))... ( -14.40)
>DroSec_CAF1 37523 92 + 1
CGCCCUACGCACAUUCAUGAAAAUCUCAUGGCAUAUAAUCAGUGCCACAUUCAGCGCAAAUCUCCAGGUGCCACGCCCACCCCGCGGGCUUA
.((((...((((..((((((.....))))))..........((((........))))..........))))...((.......))))))... ( -23.60)
>DroSim_CAF1 33938 92 + 1
CGCCCUACGCACAUUCAUGAAAAUCUCAUGGCAUAUAAUCAGUGCCACAUUCAGCGCAAAUCUCCAGGUGCCACGCCCACCCCGCGGGCUUA
.((((...((((..((((((.....))))))..........((((........))))..........))))...((.......))))))... ( -23.60)
>DroYak_CAF1 34348 78 + 1
CUCCCUACGCACAUUCAUGAAAAUCUCAUGGCAUAUAAUCAGUGCCACAUUCAGCGCAAAUCUCCAGGUGCC--------------GGCUUA
...((...((((..((((((.....))))))..........((((........))))..........)))).--------------)).... ( -15.00)
>consensus
CGCCCUACGCACAUUCAUGAAAAUCUCAUGGCAUAUAAUCAGUGCCACAUUCAGCGCAAAUCUCCAGGUGCCACGCCCACCCCGCGGGCUUA
........((((..((((((.....))))))..........((((........))))..........))))...((((.......))))... (-14.94 = -16.25 +   1.31)

alignment

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secondary structure

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dotplot

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Window 9

Location 836,682 – 836,777
Length 95
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 89.35
Mean single sequence MFE -23.35
Consensus MFE -18.09
Energy contribution -18.52
Covariance contribution 0.44
Combinations/Pair 1.00
Mean z-score -1.53
Structure conservation index 0.77
SVM decision value 0.12
SVM RNA-class probability 0.593394
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 836682 95 + 22224390
AAUCAGUGCCACAUUCAGCGCAAAUCUCCAGGUACCACGCCCACUUCGCGGGCUUAUUC-CCACCCGCUAAGGCGGCAAACGCAUUACAUAUGCCA
.....((((........)))).................(((..(((.(((((.......-...))))).)))..)))....((((.....)))).. ( -24.40)
>DroSec_CAF1 37559 95 + 1
AAUCAGUGCCACAUUCAGCGCAAAUCUCCAGGUGCCACGCCCACCCCGCGGGCUUAUUC-CCACCCGCUAAGGCGGCAAACGCAUUACAUAUGCCA
......((((.......((((..........))))...(((......(((((.......-...)))))...)))))))...((((.....)))).. ( -24.60)
>DroSim_CAF1 33974 95 + 1
AAUCAGUGCCACAUUCAGCGCAAAUCUCCAGGUGCCACGCCCACCCCGCGGGCUUACUC-CCACCCGCUAAGGCGGCAAACGCAUUACAUAUGCCA
......((((.......((((..........))))...(((......(((((.......-...)))))...)))))))...((((.....)))).. ( -24.60)
>DroYak_CAF1 34384 82 + 1
AAUCAGUGCCACAUUCAGCGCAAAUCUCCAGGUGCC--------------GGCUUAUCCCCCGCCCGCUAAGGCGGCAAACGCAUUACAUAUGCCA
.....((((........))))...........((((--------------(.((((.(........).)))).)))))...((((.....)))).. ( -19.80)
>consensus
AAUCAGUGCCACAUUCAGCGCAAAUCUCCAGGUGCCACGCCCACCCCGCGGGCUUAUUC_CCACCCGCUAAGGCGGCAAACGCAUUACAUAUGCCA
.....((((........)))).........((((((.(((.......))))))...........((((....))))................))). (-18.09 = -18.52 +   0.44)

alignment

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secondary structure

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dotplot

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Window 0

Location 836,716 – 836,816
Length 100
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 89.88
Mean single sequence MFE -20.45
Consensus MFE -17.73
Energy contribution -18.48
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.90
Structure conservation index 0.87
SVM decision value 1.04
SVM RNA-class probability 0.904383
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 836716 100 + 22224390
CCACGCCCACUUCGCGGGCUUAUUC-CCACCCGCUAAGGCGGCAAACGCAUUACAUAUGCCAAUUUAUUCAUUAUAUUCAUAUUGUGCUGUCUCUCUCGUC
.((((((..(((.(((((.......-...))))).)))..)))....((((.....))))........................))).............. ( -21.90)
>DroSec_CAF1 37593 100 + 1
CCACGCCCACCCCGCGGGCUUAUUC-CCACCCGCUAAGGCGGCAAACGCAUUACAUAUGCCAAUUUAUUCAUUAUAUUCAUAUUGUGCUGUCUCUCUCGUC
..(((........(((((.......-...)))))..((((((((...((((.....))))((((.................))))))))))))....))). ( -21.43)
>DroSim_CAF1 34008 100 + 1
CCACGCCCACCCCGCGGGCUUACUC-CCACCCGCUAAGGCGGCAAACGCAUUACAUAUGCCAAUUUAUUCAUUAUAUUCAUAUUGUGCUGUCUCUCUCGUC
..(((........(((((.......-...)))))..((((((((...((((.....))))((((.................))))))))))))....))). ( -21.43)
>DroYak_CAF1 34418 87 + 1
CC--------------GGCUUAUCCCCCGCCCGCUAAGGCGGCAAACGCAUUACAUAUGCCAAUUUAUUCAUUAUAUUCAUAUUGUGCUGUCUCGCUCGUC
..--------------(((.........))).((..((((((((...((((.....))))((((.................)))))))))))).))..... ( -17.03)
>consensus
CCACGCCCACCCCGCGGGCUUAUUC_CCACCCGCUAAGGCGGCAAACGCAUUACAUAUGCCAAUUUAUUCAUUAUAUUCAUAUUGUGCUGUCUCUCUCGUC
.............(((((...........)))))..((((((((...((((.....))))((((.................))))))))))))........ (-17.73 = -18.48 +   0.75)

alignment

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secondary structure

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dotplot

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Window 1

Location 836,716 – 836,816
Length 100
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 89.88
Mean single sequence MFE -30.02
Consensus MFE -22.67
Energy contribution -23.05
Covariance contribution 0.38
Combinations/Pair 1.11
Mean z-score -2.45
Structure conservation index 0.76
SVM decision value 0.97
SVM RNA-class probability 0.892610
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 836716 100 - 22224390
GACGAGAGAGACAGCACAAUAUGAAUAUAAUGAAUAAAUUGGCAUAUGUAAUGCGUUUGCCGCCUUAGCGGGUGG-GAAUAAGCCCGCGAAGUGGGCGUGG
..(....)......(((.......................((((.(((.....))).))))((((..((((((..-......)))))).....))))))). ( -30.10)
>DroSec_CAF1 37593 100 - 1
GACGAGAGAGACAGCACAAUAUGAAUAUAAUGAAUAAAUUGGCAUAUGUAAUGCGUUUGCCGCCUUAGCGGGUGG-GAAUAAGCCCGCGGGGUGGGCGUGG
.(((....((((.(((..(((((....((((......)))).)))))....))))))).(((((((.((((((..-......))))))))))))).))).. ( -32.50)
>DroSim_CAF1 34008 100 - 1
GACGAGAGAGACAGCACAAUAUGAAUAUAAUGAAUAAAUUGGCAUAUGUAAUGCGUUUGCCGCCUUAGCGGGUGG-GAGUAAGCCCGCGGGGUGGGCGUGG
.(((....((((.(((..(((((....((((......)))).)))))....))))))).(((((((.((((((..-......))))))))))))).))).. ( -32.50)
>DroYak_CAF1 34418 87 - 1
GACGAGCGAGACAGCACAAUAUGAAUAUAAUGAAUAAAUUGGCAUAUGUAAUGCGUUUGCCGCCUUAGCGGGCGGGGGAUAAGCC--------------GG
..((.((......(((..(((((....((((......)))).)))))....)))((((.((((((....)))))).))))..)))--------------). ( -25.00)
>consensus
GACGAGAGAGACAGCACAAUAUGAAUAUAAUGAAUAAAUUGGCAUAUGUAAUGCGUUUGCCGCCUUAGCGGGUGG_GAAUAAGCCCGCGGGGUGGGCGUGG
.............(((..(((((....((((......)))).)))))....)))((((.((((((....)))))).))))..((((((...)))))).... (-22.67 = -23.05 +   0.38)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:51 2006