Locus 3268

Sequence ID X_DroMel_CAF1
Location 8,679,274 – 8,679,396
Length 122
Max. P 0.980147
window5357 window5358 window5359 window5360

overview

Window 7

Location 8,679,274 – 8,679,370
Length 96
Sequences 3
Columns 96
Reading direction forward
Mean pairwise identity 86.22
Mean single sequence MFE -21.10
Consensus MFE -16.15
Energy contribution -18.60
Covariance contribution 2.45
Combinations/Pair 1.07
Mean z-score -2.89
Structure conservation index 0.77
SVM decision value 1.18
SVM RNA-class probability 0.926862
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8679274 96 + 22224390
AAUACAGCCAGCCAAGGCUAUAUCGCAACUGACAUAUGCAUAAAAGGGUAUAUGAUAUAUAUGUAAAUAUGUGUAUAUAUGCCACCUAUGCGAUUG
.(((.((((......)))).))).............((((((....((((((((((((((((....)))))))).))))))))...)))))).... ( -26.00)
>DroSec_CAF1 115761 84 + 1
AAUACAGCCAGCCAAGGCUAUAUCGCAACUGACAUAUGCAUAA-AGGGUAU-------ACAUA----CAUAUAUAUAUAUGCCACCUAUACGAUUU
.....((((......))))..((((((.........)))....-..(((((-------(.(((----......))).))))))........))).. ( -13.80)
>DroSim_CAF1 80488 91 + 1
AAUACAGCCAGCCAAGGCUAUAUCGCAACUGACAUAUGCAUAA-AGGGUAUAUGUUAUAUAUA----CAUAUAUAUAUAUGCCACCUAUGCGAUUU
.(((.((((......)))).))).............((((((.-..(((((((((.(((((..----..))))))))))))))...)))))).... ( -23.50)
>consensus
AAUACAGCCAGCCAAGGCUAUAUCGCAACUGACAUAUGCAUAA_AGGGUAUAUG_UAUAUAUA____CAUAUAUAUAUAUGCCACCUAUGCGAUUU
.(((.((((......)))).))).............((((((....((((((((.(((((((......)))))))))))))))...)))))).... (-16.15 = -18.60 +   2.45)

alignment

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secondary structure

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dotplot

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Window 8

Location 8,679,274 – 8,679,370
Length 96
Sequences 3
Columns 96
Reading direction reverse
Mean pairwise identity 86.22
Mean single sequence MFE -26.13
Consensus MFE -21.77
Energy contribution -21.88
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -3.60
Structure conservation index 0.83
SVM decision value 1.85
SVM RNA-class probability 0.980147
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8679274 96 - 22224390
CAAUCGCAUAGGUGGCAUAUAUACACAUAUUUACAUAUAUAUCAUAUACCCUUUUAUGCAUAUGUCAGUUGCGAUAUAGCCUUGGCUGGCUGUAUU
...(((((..(.((((((((......((((......))))..((((........)))).)))))))).))))))(((((((......))))))).. ( -24.30)
>DroSec_CAF1 115761 84 - 1
AAAUCGUAUAGGUGGCAUAUAUAUAUAUG----UAUGU-------AUACCCU-UUAUGCAUAUGUCAGUUGCGAUAUAGCCUUGGCUGGCUGUAUU
.....(((((((.((.((((((((....)----)))))-------)).)).)-)))))).............(((((((((......))))))))) ( -24.90)
>DroSim_CAF1 80488 91 - 1
AAAUCGCAUAGGUGGCAUAUAUAUAUAUG----UAUAUAUAACAUAUACCCU-UUAUGCAUAUGUCAGUUGCGAUAUAGCCUUGGCUGGCUGUAUU
...(((((..(.((((((((.((((...(----(((((.....))))))...-.)))).)))))))).))))))(((((((......))))))).. ( -29.20)
>consensus
AAAUCGCAUAGGUGGCAUAUAUAUAUAUG____UAUAUAUA_CAUAUACCCU_UUAUGCAUAUGUCAGUUGCGAUAUAGCCUUGGCUGGCUGUAUU
...(((((..(.((((((((.((((.............................)))).)))))))).))))))(((((((......))))))).. (-21.77 = -21.88 +   0.11)

alignment

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secondary structure

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dotplot

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Window 9

Location 8,679,295 – 8,679,396
Length 101
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 84.90
Mean single sequence MFE -19.89
Consensus MFE -13.09
Energy contribution -15.53
Covariance contribution 2.45
Combinations/Pair 1.08
Mean z-score -2.52
Structure conservation index 0.66
SVM decision value 0.53
SVM RNA-class probability 0.769671
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8679295 101 + 22224390
AUCGCAACUGACAUAUGCAUAAAAGGGUAUAUGAUAUAUAUGUAAAUAUGUGUAUAUAUGCCACCUAUGCGAUUGCAAGACCCUUCCACACGCCUGUCACU
........(((((..((((((....((((((((((((((((....)))))))).))))))))...))))))...((...............)).))))).. ( -23.76)
>DroSec_CAF1 115782 89 + 1
AUCGCAACUGACAUAUGCAUAA-AGGGUAU-------ACAUA----CAUAUAUAUAUAUGCCACCUAUACGAUUUCGAAACCCUUCCUCACGCCUGUCACU
........(((((..((....(-(((((..-------.....----(((((....))))).........((....))..)))))).....))..))))).. ( -14.10)
>DroSim_CAF1 80509 96 + 1
AUCGCAACUGACAUAUGCAUAA-AGGGUAUAUGUUAUAUAUA----CAUAUAUAUAUAUGCCACCUAUGCGAUUUCGAAACCCUUCCUCACGCCUGUCACU
........(((((..((((((.-..(((((((((.(((((..----..))))))))))))))...)))))).....(((....)))........))))).. ( -21.80)
>consensus
AUCGCAACUGACAUAUGCAUAA_AGGGUAUAUG_UAUAUAUA____CAUAUAUAUAUAUGCCACCUAUGCGAUUUCGAAACCCUUCCUCACGCCUGUCACU
........(((((...(((((....((((((((.(((((((......)))))))))))))))...)))))(....)..................))))).. (-13.09 = -15.53 +   2.45)

alignment

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secondary structure

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dotplot

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Window 0

Location 8,679,295 – 8,679,396
Length 101
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 84.90
Mean single sequence MFE -26.80
Consensus MFE -19.22
Energy contribution -21.00
Covariance contribution 1.78
Combinations/Pair 1.04
Mean z-score -2.52
Structure conservation index 0.72
SVM decision value 0.83
SVM RNA-class probability 0.860480
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8679295 101 - 22224390
AGUGACAGGCGUGUGGAAGGGUCUUGCAAUCGCAUAGGUGGCAUAUAUACACAUAUUUACAUAUAUAUCAUAUACCCUUUUAUGCAUAUGUCAGUUGCGAU
.(..((.((((((((((((((((((((....))).))(((..((((((............))))))..)))..)))))))....)))))))).))..)... ( -28.60)
>DroSec_CAF1 115782 89 - 1
AGUGACAGGCGUGAGGAAGGGUUUCGAAAUCGUAUAGGUGGCAUAUAUAUAUAUG----UAUGU-------AUACCCU-UUAUGCAUAUGUCAGUUGCGAU
..(((((.((((((((...((((....)))).....((((((((((((....)))----)))))-------.))))))-))))))...)))))........ ( -25.90)
>DroSim_CAF1 80509 96 - 1
AGUGACAGGCGUGAGGAAGGGUUUCGAAAUCGCAUAGGUGGCAUAUAUAUAUAUG----UAUAUAUAACAUAUACCCU-UUAUGCAUAUGUCAGUUGCGAU
.(..((.((((((..(((((((..((....)).....(((..((((((((....)----)))))))..)))..)))))-)).....)))))).))..)... ( -25.90)
>consensus
AGUGACAGGCGUGAGGAAGGGUUUCGAAAUCGCAUAGGUGGCAUAUAUAUAUAUG____UAUAUAUA_CAUAUACCCU_UUAUGCAUAUGUCAGUUGCGAU
..(((((.((((((...(((((...(..(((.....)))..).((((((((........))))))))......))))).))))))...)))))........ (-19.22 = -21.00 +   1.78)

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 10:55:17 2006