Locus 7073

Sequence ID 2L_DroMel_CAF1
Location 19,804,013 – 19,804,131
Length 118
Max. P 0.999936
window11278 window11279

overview

Window 8

Location 19,804,013 – 19,804,131
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.77
Mean single sequence MFE -37.65
Consensus MFE -33.95
Energy contribution -34.27
Covariance contribution 0.32
Combinations/Pair 1.21
Mean z-score -3.06
Structure conservation index 0.90
SVM decision value 4.66
SVM RNA-class probability 0.999936
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19804013 118 + 22407834
GGGGGUAGUUGCGCUAUUACCAAAGGGUUGCUCAAGAAUUUCGGGUAGAUUGAGCAAUUAGCG-AAGAAAUAGCUUAAUGGAAAGUGUUCUUGAG-GGAAUCAAGAAGCGACUGGUCCUU
((((.(((((((((((((.......((((((((((..............))))))))))....-....)))))).............(((((((.-....)))))))))))))).)))). ( -39.00)
>DroSec_CAF1 70627 118 + 1
GGGGGUAGUUGCGCUAUUACCAAAGGGUUGCUCAAGGAAUUCGGGUAGAUUGAGCAAUUAGCG-AAGAAAUAGCUUAAUGGAAAGCGUUCUUCGG-GGAAUCAAGAAGCGACUGGUCUCU
((((.((((((((((.(((((...(((((.(....).))))).)))))....)))......((-(((((...((((......)))).))))))).-...........))))))).)))). ( -40.50)
>DroSim_CAF1 71858 118 + 1
GGGGGUAGUUGCGCUAUUACCAAAGGGUUGCUCAAGGAAUUCGGGUAGAUUGAGCAAUUAGCG-AAGAAAUAGCUUAAUGGAAAGUGUUCUUGGG-GGAAUCAAGAAGCGGCUGGUCUCU
((((.(((((((((((((.......((((((((((..............))))))))))....-....)))))).............(((((((.-....)))))))))))))).)))). ( -37.20)
>DroEre_CAF1 72069 120 + 1
GGGGGUAGUUGCGCUAUUACCAAAGGGUUGCUCAAGGAAUUCGGGUAGAUUGAGCAAUUAGGGAAAGAAAUAGCUUAAUGGAAAGUGUUCCUGUGGGGAAUCGGGAUGCGACUUGCCUGG
..((((((((((((((((.((....((((((((((..............))))))))))..)).....))))))..............(((((........))))).))))).))))).. ( -36.04)
>DroYak_CAF1 73675 119 + 1
GGGGGUAGUUGCGCUAUUACCAAAGGGUUGCUCCAGGAAUUCGGGUAGAUUGAGCAAUUAAGGAAAGAAAUAGCUUAAUGGAAAGUGUUCUUGAG-GGAAUCAAGAAGCGACUUGCCUGG
..(((((((((((((.(((((...(((((.(....).))))).)))))(((((((.(((.........))).)))))))....))).(((((((.-....)))))))))))).))))).. ( -35.50)
>consensus
GGGGGUAGUUGCGCUAUUACCAAAGGGUUGCUCAAGGAAUUCGGGUAGAUUGAGCAAUUAGCG_AAGAAAUAGCUUAAUGGAAAGUGUUCUUGAG_GGAAUCAAGAAGCGACUGGUCUCU
((((.(((((((((((((.......((((((((((..............)))))))))).........)))))).............(((((((......)))))))))))))).)))). (-33.95 = -34.27 +   0.32)

alignment

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secondary structure

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dotplot

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Window 9

Location 19,804,013 – 19,804,131
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.77
Mean single sequence MFE -24.10
Consensus MFE -20.06
Energy contribution -20.54
Covariance contribution 0.48
Combinations/Pair 1.04
Mean z-score -2.70
Structure conservation index 0.83
SVM decision value 2.96
SVM RNA-class probability 0.997896
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19804013 118 - 22407834
AAGGACCAGUCGCUUCUUGAUUCC-CUCAAGAACACUUUCCAUUAAGCUAUUUCUU-CGCUAAUUGCUCAAUCUACCCGAAAUUCUUGAGCAACCCUUUGGUAAUAGCGCAACUACCCCC
..((...(((.(((((((((....-.))))))).............((((((.((.-......((((((((..............))))))))......)).)))))))).)))...)). ( -25.76)
>DroSec_CAF1 70627 118 - 1
AGAGACCAGUCGCUUCUUGAUUCC-CCGAAGAACGCUUUCCAUUAAGCUAUUUCUU-CGCUAAUUGCUCAAUCUACCCGAAUUCCUUGAGCAACCCUUUGGUAAUAGCGCAACUACCCCC
.......(((.((...........-..((((((.((((......))))...)))))-)((((..(((((((..............)))))))(((....)))..)))))).)))...... ( -26.04)
>DroSim_CAF1 71858 118 - 1
AGAGACCAGCCGCUUCUUGAUUCC-CCCAAGAACACUUUCCAUUAAGCUAUUUCUU-CGCUAAUUGCUCAAUCUACCCGAAUUCCUUGAGCAACCCUUUGGUAAUAGCGCAACUACCCCC
...........((((((((.....-..)))))).............((((((.((.-......((((((((..............))))))))......)).)))))))).......... ( -21.46)
>DroEre_CAF1 72069 120 - 1
CCAGGCAAGUCGCAUCCCGAUUCCCCACAGGAACACUUUCCAUUAAGCUAUUUCUUUCCCUAAUUGCUCAAUCUACCCGAAUUCCUUGAGCAACCCUUUGGUAAUAGCGCAACUACCCCC
...((..(((.((................((((....)))).....((((((.((........((((((((..............))))))))......)).)))))))).)))..)).. ( -23.38)
>DroYak_CAF1 73675 119 - 1
CCAGGCAAGUCGCUUCUUGAUUCC-CUCAAGAACACUUUCCAUUAAGCUAUUUCUUUCCUUAAUUGCUCAAUCUACCCGAAUUCCUGGAGCAACCCUUUGGUAAUAGCGCAACUACCCCC
...((.((((.(.(((((((....-.)))))))))))).)).....((((((.....((....((((((..................))))))......)).))))))............ ( -23.87)
>consensus
ACAGACCAGUCGCUUCUUGAUUCC_CCCAAGAACACUUUCCAUUAAGCUAUUUCUU_CGCUAAUUGCUCAAUCUACCCGAAUUCCUUGAGCAACCCUUUGGUAAUAGCGCAACUACCCCC
.......(((.((.(((((........)))))..............((((((.((........((((((((..............))))))))......)).)))))))).)))...... (-20.06 = -20.54 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:38 2006