Locus 3436

Sequence ID 2L_DroMel_CAF1
Location 9,991,040 – 9,991,131
Length 91
Max. P 0.884193
window5441 window5442

overview

Window 1

Location 9,991,040 – 9,991,131
Length 91
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 86.35
Mean single sequence MFE -22.50
Consensus MFE -18.30
Energy contribution -18.30
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.47
Structure conservation index 0.81
SVM decision value 0.10
SVM RNA-class probability 0.584469
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9991040 91 + 22407834
-AAGACCGAAAAGCAAACGCAACCAAAC-----CAGGAGCAUUGCAAAUGGCACAUGGCAAUCCGCAGCUCACAGUUUGCAGUUCGCAAUC--------------CGCAAU
-......(((..((((((.....(....-----..)((((..(((.....((.....)).....)))))))...))))))..)))((....--------------.))... ( -19.90)
>DroSec_CAF1 22316 99 + 1
AAAGACCGAAAAGCAAACGAAAGCAAAC-----CAGGAGCGUUGCAAAUGGCACAUGGCAAUCCGCAGCUCACAGUUUGCAGUUCGCAAUCCGCAAU-------CCGCAAU
............((....(((.((((((-----...((((..(((.....((.....)).....)))))))...))))))..)))((.....))...-------..))... ( -23.40)
>DroSim_CAF1 25190 99 + 1
AAAGACCGAAAAGCAAACGAAAGCAAAC-----CAGGAGCGUUGCAAAUGGCACAUGGCAAUCCGCAGCUCACAGUUUGCAGUUCGCAAUCCGCAAU-------CCGCAAU
............((....(((.((((((-----...((((..(((.....((.....)).....)))))))...))))))..)))((.....))...-------..))... ( -23.40)
>DroYak_CAF1 23092 111 + 1
AAAGACAGAAAAGCAAACGAAACCAAACCAAACCAAGAGCGUUGCAAAUGGCACAUGGCUAUCCGCAGCUCACAGUUUGCAGUUCGCAAUCUGAAAUCCGCAAUCCACAAU
............((......................((((..(((..(((((.....)))))..))))))).(((.((((.....)))).)))......)).......... ( -23.30)
>consensus
AAAGACCGAAAAGCAAACGAAACCAAAC_____CAGGAGCGUUGCAAAUGGCACAUGGCAAUCCGCAGCUCACAGUUUGCAGUUCGCAAUCCGCAAU_______CCGCAAU
.......(((..(((((((....)............((((..(((.....)))....((.....)).))))...))))))..))).......................... (-18.30 = -18.30 +   0.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 9,991,040 – 9,991,131
Length 91
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 86.35
Mean single sequence MFE -33.38
Consensus MFE -23.08
Energy contribution -24.57
Covariance contribution 1.50
Combinations/Pair 1.00
Mean z-score -2.38
Structure conservation index 0.69
SVM decision value 0.93
SVM RNA-class probability 0.884193
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9991040 91 - 22407834
AUUGCG--------------GAUUGCGAACUGCAAACUGUGAGCUGCGGAUUGCCAUGUGCCAUUUGCAAUGCUCCUG-----GUUUGGUUGCGUUUGCUUUUCGGUCUU-
....((--------------((..((((((.((((((((.(((((((((((.((.....)).)))))))..)))).))-----))....))))))))))..)))).....- ( -31.00)
>DroSec_CAF1 22316 99 - 1
AUUGCGG-------AUUGCGGAUUGCGAACUGCAAACUGUGAGCUGCGGAUUGCCAUGUGCCAUUUGCAACGCUCCUG-----GUUUGCUUUCGUUUGCUUUUCGGUCUUU
.....((-------((..((((..((((((.((((((((.(((((((((((.((.....)).)))))))..)))).))-----))))))....))))))..)))))))).. ( -36.30)
>DroSim_CAF1 25190 99 - 1
AUUGCGG-------AUUGCGGAUUGCGAACUGCAAACUGUGAGCUGCGGAUUGCCAUGUGCCAUUUGCAACGCUCCUG-----GUUUGCUUUCGUUUGCUUUUCGGUCUUU
.....((-------((..((((..((((((.((((((((.(((((((((((.((.....)).)))))))..)))).))-----))))))....))))))..)))))))).. ( -36.30)
>DroYak_CAF1 23092 111 - 1
AUUGUGGAUUGCGGAUUUCAGAUUGCGAACUGCAAACUGUGAGCUGCGGAUAGCCAUGUGCCAUUUGCAACGCUCUUGGUUUGGUUUGGUUUCGUUUGCUUUUCUGUCUUU
.....(((..((((((....((...(((((..(((((((.(((((((((((.((.....)).)))))))..)))).))))))))))))...))))))))..)))....... ( -29.90)
>consensus
AUUGCGG_______AUUGCGGAUUGCGAACUGCAAACUGUGAGCUGCGGAUUGCCAUGUGCCAUUUGCAACGCUCCUG_____GUUUGCUUUCGUUUGCUUUUCGGUCUUU
..................((((..((((((.((((((...(((((((((((.((.....)).)))))))..))))........))))))....))))))..))))...... (-23.08 = -24.57 +   1.50)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:31 2006