Locus 2131

Sequence ID 2R_DroMel_CAF1
Location 7,964,494 – 7,964,654
Length 160
Max. P 0.930339
window3533 window3534

overview

Window 3

Location 7,964,494 – 7,964,614
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 92.89
Mean single sequence MFE -35.98
Consensus MFE -35.20
Energy contribution -34.82
Covariance contribution -0.39
Combinations/Pair 1.21
Mean z-score -1.12
Structure conservation index 0.98
SVM decision value 1.20
SVM RNA-class probability 0.930339
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7964494 120 + 20766785
UCUGCUCUGUUUGCCACAAGGAAAACUUCACCGGGUUUCGUUAUCGCUGUCAGCGGUGUCACGCCUACCAGUUGUGUCAGGAGUGCUUCUGGCACGGCAAGACAUCGCUGAAUCACCAGA
.....((((...((...((.((((.((......)))))).))...))..(((((((((((..(.....).((((((((((((....))))))))))))..))))))))))).....)))) ( -40.30)
>DroVir_CAF1 818 120 + 1
UCUGUUCUGUUUGCCAUAAGGAAAACUUUACCGGAUUUCGUUAUCGUUGUCAGCGGUGUCACGCCUACCAAUUGUGCCAGGAGUGCUUUUGGCAUGGCAAGACAUCACUGAACCAUCAGA
.....((((...((.((((.((((.((.....)).)))).)))).))..((((.((((((..(((........(((((((((....))))))))))))..)))))).)))).....)))) ( -34.90)
>DroGri_CAF1 423 120 + 1
UCUGUUCUGUUUGCCAUAAGGAAAACUUUACUGGAUUUCGUUAUCGUUGUCAGCGCUGUCACGCCUACCAGUUGUGCCAGGAGUGCUUUUGGCAUGGCAAGACAUCGCUGAACCACCAAA
...((...((((.((....)).))))...))(((....((....))...((((((.((((..(((........(((((((((....))))))))))))..)))).))))))....))).. ( -34.70)
>DroWil_CAF1 19306 120 + 1
UCUGUUCUGUUUGCCACAAGGAAAAUUUCACCGGAUUUCGUUAUCGUUGUCAGCGGUGUCACGCCUACCAAUUGUGCCAGGAGUGCUUUUGGCAUGGCAAGACAUCGCUGAACCACCAAA
((((....((((.((....)).)))).....))))..........((..(((((((((((..(((........(((((((((....))))))))))))..)))))))))))...)).... ( -37.30)
>DroMoj_CAF1 856 120 + 1
UCUGUUCUGUUUGCCACAAGGAAAACUUUACCGGAUUCCGUUAUCGUUGUCAGCGGUGCCACGCCUACCAAUUGUGCCAGGAGUGCUUUUGGCAUGGCAAGACAUCGUUGAACCAUCAAA
...((((((((((((...(((.......((((((((..((....))..)))..))))).....))).......(((((((((....)))))))))))).))))).....))))....... ( -31.60)
>DroPer_CAF1 14193 120 + 1
UCUGCUCUGUUUGCCACAAGGAAAACUUCACCGGAUUUCGUUACCGUUGUCAGCGGUGCCACGCCUACCAAUUGUGCCAGGAGUGCUUUUGGCACGGCAAGACAUCGCUGAAUCACCAAA
((.((..((((((((...(((.......((((((((..((....))..)))..))))).....))).......(((((((((....)))))))))))).)))))..)).))......... ( -37.10)
>consensus
UCUGUUCUGUUUGCCACAAGGAAAACUUCACCGGAUUUCGUUAUCGUUGUCAGCGGUGUCACGCCUACCAAUUGUGCCAGGAGUGCUUUUGGCAUGGCAAGACAUCGCUGAACCACCAAA
((((....((((.((....)).)))).....))))..............(((((((((((..(((........(((((((((....))))))))))))..)))))))))))......... (-35.20 = -34.82 +  -0.39)

alignment

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secondary structure

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dotplot

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Window 4

Location 7,964,534 – 7,964,654
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 93.72
Mean single sequence MFE -38.05
Consensus MFE -35.89
Energy contribution -36.25
Covariance contribution 0.36
Combinations/Pair 1.12
Mean z-score -1.07
Structure conservation index 0.94
SVM decision value 0.59
SVM RNA-class probability 0.791634
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7964534 120 + 20766785
UUAUCGCUGUCAGCGGUGUCACGCCUACCAGUUGUGUCAGGAGUGCUUCUGGCACGGCAAGACAUCGCUGAAUCACCAGAACGAUCACGAGGUCAAGGAGUACUCGAGCUACAAGUCGCC
......((((((((((((((..(.....).((((((((((((....))))))))))))..))))))))))).....)))..((((....((.((.((.....)).)).))....)))).. ( -42.40)
>DroVir_CAF1 858 120 + 1
UUAUCGUUGUCAGCGGUGUCACGCCUACCAAUUGUGCCAGGAGUGCUUUUGGCAUGGCAAGACAUCACUGAACCAUCAGAACGAUCACGAGGUCAAGGAGUACUCGAGCUACAAGUCGCC
...((..((((((.((((((..(((........(((((((((....))))))))))))..)))))).))))..))...)).((((....((.((.((.....)).)).))....)))).. ( -35.20)
>DroGri_CAF1 463 120 + 1
UUAUCGUUGUCAGCGCUGUCACGCCUACCAGUUGUGCCAGGAGUGCUUUUGGCAUGGCAAGACAUCGCUGAACCACCAAAACGAUCACGAGGUCAAGGAGUACUCGAGCUACAAGUCCCC
..((((((.((((((.((((..(((........(((((((((....))))))))))))..)))).))))))........))))))..((((...........)))).............. ( -36.70)
>DroWil_CAF1 19346 120 + 1
UUAUCGUUGUCAGCGGUGUCACGCCUACCAAUUGUGCCAGGAGUGCUUUUGGCAUGGCAAGACAUCGCUGAACCACCAAAACGAUCACGAGGUCAAGGAAUACUCGAGCUACAAAUCGCC
..((((((.(((((((((((..(((........(((((((((....))))))))))))..)))))))))))........))))))..((((...........)))).((........)). ( -40.90)
>DroMoj_CAF1 896 120 + 1
UUAUCGUUGUCAGCGGUGCCACGCCUACCAAUUGUGCCAGGAGUGCUUUUGGCAUGGCAAGACAUCGUUGAACCAUCAAAACGAUCACGAGGUGAAAGAGUACUCGAGCUAUAAGUCGCC
..((((((.(((((((((.(..(((........(((((((((....))))))))))))..).)))))))))........)))))).....(((((...(((......))).....))))) ( -36.00)
>DroPer_CAF1 14233 120 + 1
UUACCGUUGUCAGCGGUGCCACGCCUACCAAUUGUGCCAGGAGUGCUUUUGGCACGGCAAGACAUCGCUGAAUCACCAAAACGAUCACGAGGUCAAGGAGUACUCGAGCUACAAGUCGCC
.....(...(((((((((.(..(((........(((((((((....))))))))))))..).)))))))))..).......((((....((.((.((.....)).)).))....)))).. ( -37.10)
>consensus
UUAUCGUUGUCAGCGGUGUCACGCCUACCAAUUGUGCCAGGAGUGCUUUUGGCAUGGCAAGACAUCGCUGAACCACCAAAACGAUCACGAGGUCAAGGAGUACUCGAGCUACAAGUCGCC
..((((((.(((((((((((..(((........(((((((((....))))))))))))..)))))))))))........))))))..((((...........)))).............. (-35.89 = -36.25 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:10 2006