Locus 2479

Sequence ID X_DroMel_CAF1
Location 6,594,856 – 6,594,989
Length 133
Max. P 0.917108
window4058 window4059

overview

Window 8

Location 6,594,856 – 6,594,968
Length 112
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 73.11
Mean single sequence MFE -27.60
Consensus MFE -15.55
Energy contribution -17.92
Covariance contribution 2.37
Combinations/Pair 1.04
Mean z-score -2.00
Structure conservation index 0.56
SVM decision value 1.11
SVM RNA-class probability 0.917108
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6594856 112 + 22224390
AGUCGAAUCUGGAAGAUAUCAGCCAUCCAUACAUCCAUUUAAUCGCUUUAACCGCUUGAUUUGCAUUUGUCGAACAAGCGGAGACGACGUAAUUACCCGUAAUUCGGGUUAU
.((((....((((.(........).))))......................(((((((.(((((....).)))))))))))...))))......(((((.....)))))... ( -29.20)
>DroSim_CAF1 7218 112 + 1
AGUCGAGUCUGGAAGAUGCCAGGCAUCCAUCCAUCCAUUUAAUCGCUUUAACCGCUUGAUUUGCAUUUGUCGAACAAGCGGAGACGACGUAAUUANNNNNNNNNNNNNNNNN
.((((.(..((((.(((((...)))))..))))..)...............(((((((.(((((....).)))))))))))...))))........................ ( -29.00)
>DroEre_CAF1 10517 102 + 1
CGUCGACUCCUAAAGAUGCCAGCCAUCC--------AUUUUAUCG--UCAUCCGCUUGAUUUGCAUUUGUCGAACAAGCGGAGACGACGUAAUUACCCGUAAUUCGGGUUAU
((((..........((((.....)))).--------........(--((.((((((((.(((((....).))))))))))))))))))).....(((((.....)))))... ( -32.90)
>DroYak_CAF1 9749 87 + 1
AGUCGAAUCUGGAAGAUAGCAGCCAACC--------AUUU-----------------AAUUUGCAUUUGUCGAACAAGCGGAGACGACGUAAUUACCCGUAAUUCGGGUUAU
.((((..((((.......((((......--------....-----------------...)))).((((.....))))))))..))))......(((((.....)))))... ( -19.32)
>consensus
AGUCGAAUCUGGAAGAUACCAGCCAUCC________AUUUAAUCG__UUAACCGCUUGAUUUGCAUUUGUCGAACAAGCGGAGACGACGUAAUUACCCGUAAUUCGGGUUAU
.((((.(((.....)))..................................(((((((.(((((....).)))))))))))...))))......(((((.....)))))... (-15.55 = -17.92 +   2.37)

alignment

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secondary structure

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dotplot

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Window 9

Location 6,594,888 – 6,594,989
Length 101
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 90.43
Mean single sequence MFE -29.17
Consensus MFE -24.02
Energy contribution -24.47
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -2.52
Structure conservation index 0.82
SVM decision value 0.71
SVM RNA-class probability 0.828794
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6594888 101 + 22224390
AUCCAUUUAAUCGCUUUAACCGCUUGAUUUGCAUUUGUCGAACAAGCGGAGACGACGUAAUUACCCGUAAUUCGGGUUAUACAGACCGACAGCCAGUCAUU
..........(((((....(((((((.(((((....).))))))))))))).))).(((...(((((.....)))))..))).....(((.....)))... ( -26.80)
>DroSec_CAF1 10444 101 + 1
AUCCAUUAAAUCGCCUUAACCGCUGGAUUUGCAUUUGUCGAACAAGCGGAGACGACGUAAUUACCCGUAAUUCGGGUUAUACAGUCCGACAGCCAGUCAUU
.....................(((((........((((((.((..(((....)).)(((...(((((.....)))))..))).)).))))))))))).... ( -26.10)
>DroEre_CAF1 10545 95 + 1
----AUUUUAUCG--UCAUCCGCUUGAUUUGCAUUUGUCGAACAAGCGGAGACGACGUAAUUACCCGUAAUUCGGGUUAUACGGUCCGACAGCCAGUUAUU
----......(((--((.((((((((.(((((....).))))))))))))))))).(((...(((((.....)))))..)))(((......)))....... ( -34.60)
>consensus
AUCCAUUUAAUCGC_UUAACCGCUUGAUUUGCAUUUGUCGAACAAGCGGAGACGACGUAAUUACCCGUAAUUCGGGUUAUACAGUCCGACAGCCAGUCAUU
...................(((((((.(((((....).)))))))))))....((((((...(((((.....)))))..))).))).(((.....)))... (-24.02 = -24.47 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:53 2006