Locus 8254

Sequence ID 3L_DroMel_CAF1
Location 21,678,698 – 21,678,806
Length 108
Max. P 0.559745
window13498 window13499

overview

Window 8

Location 21,678,698 – 21,678,806
Length 108
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 83.72
Mean single sequence MFE -32.92
Consensus MFE -22.26
Energy contribution -23.60
Covariance contribution 1.34
Combinations/Pair 1.17
Mean z-score -1.98
Structure conservation index 0.68
SVM decision value 0.00
SVM RNA-class probability 0.533682
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21678698 108 + 23771897
UGUGUAGUUUUGUCGGUUUAACUUU------GUGAUGAGCAAAGUUAGUGGCUUGACCGUGCCAGCUG---UUGGCCAUGCUGGUCACGUUCUUCGGGUGACUUUGUUUUCGUCU-AA
.........................------..((((((((((((((.(.(...((.(((((((((((---.....)).))))).)))).))..).).)))))))))..))))).-.. ( -32.10)
>DroPse_CAF1 21849 108 + 1
UAUGUAGUUUUGUUGGCUUAACUUU------GCGAUGAGCAAAGUUAGUGGCUUGACCGUGCCAGCUG---UUGGACAUGCUGGUCACGUUCUU-GGGUGACUUUGUUUUCGUCUUAA
..............(((.(((((((------((.....)))))))))((.(((..(.(((((((((((---.....)).))))).))))...).-.))).)).........))).... ( -35.00)
>DroGri_CAF1 12413 110 + 1
---G-----CAGCCGAUUUAACUUUGUGUUGGUGAUGAGCAAAGUUUGUGGCUGACCAGUGCCAGUUGUUGUUGACCAUGCUGGUCACGUACUUUUGGUGACUUUGUUUUCGUCUUAA
---.-----..((((((..........))))))(((((((((((((..(((....)))..(((((..(((((.((((.....))))))).))..)))))))))))))..))))).... ( -32.80)
>DroWil_CAF1 45166 107 + 1
UGUGUAGUU-UGUCGGUUUAACUUU------GUGAUGAGCAAAGUUAGUGGCCAGCCCCGGUCAAUUG---UUAGACAUGCUGGUCACGUACUU-AGGUGACUUUGUUUUCGUCUUAA
.........-.(.(((..(((((((------((.....)))))))))(((((((((....(((.....---...)))..)))))))))..((..-((....))..))..))).).... ( -33.00)
>DroAna_CAF1 12898 109 + 1
UGUGUAGUUUUGUAGGUUUAACUUU------GUGAUGAGCAAAGUUAGUGACUUGACCGUGCCAGCUG---UUGGACAUGCAGGUCACGUUCUUCGGGUGACUUUGUUUUCGUCUUAA
.........................------..((((((((((((((((((((((..((((((((...---)))).))))))))))))..((....)))))))))))..))))).... ( -32.00)
>DroPer_CAF1 22026 108 + 1
UAUGUAGUUUUGUUGGCUUAACUUU------GCGAUGAGCAAAGUUAGUGGCUUGACCGUGCCAGCUG---UUGGACAUGCUAGUCACGUUCUU-GGGUGACUUUGUUUUCGUCUUAA
...........((((((((((((((------((.....)))))))))).((.....))..))))))..---..((((..((.((((((.(....-).))))))..))....))))... ( -32.60)
>consensus
UGUGUAGUUUUGUCGGUUUAACUUU______GUGAUGAGCAAAGUUAGUGGCUUGACCGUGCCAGCUG___UUGGACAUGCUGGUCACGUUCUU_GGGUGACUUUGUUUUCGUCUUAA
.................................((((((((((((((((((((....((((((((......)))).))))..))))))...(....).)))))))))..))))).... (-22.26 = -23.60 +   1.34)

alignment

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secondary structure

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dotplot

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Window 9

Location 21,678,698 – 21,678,806
Length 108
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 83.72
Mean single sequence MFE -25.94
Consensus MFE -13.49
Energy contribution -13.80
Covariance contribution 0.31
Combinations/Pair 1.17
Mean z-score -3.19
Structure conservation index 0.52
SVM decision value 0.05
SVM RNA-class probability 0.559745
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21678698 108 - 23771897
UU-AGACGAAAACAAAGUCACCCGAAGAACGUGACCAGCAUGGCCAA---CAGCUGGCACGGUCAAGCCACUAACUUUGCUCAUCAC------AAAGUUAAACCGACAAAACUACACA
..-.............(((.......((.((((.(((((.((.....---))))))))))).)).......((((((((.......)------)))))))....)))........... ( -27.50)
>DroPse_CAF1 21849 108 - 1
UUAAGACGAAAACAAAGUCACCC-AAGAACGUGACCAGCAUGUCCAA---CAGCUGGCACGGUCAAGCCACUAACUUUGCUCAUCGC------AAAGUUAAGCCAACAAAACUACAUA
....(((.........)))....-..((.((((.(((((.((.....---))))))))))).))..((...(((((((((.....))------))))))).))............... ( -30.00)
>DroGri_CAF1 12413 110 - 1
UUAAGACGAAAACAAAGUCACCAAAAGUACGUGACCAGCAUGGUCAACAACAACUGGCACUGGUCAGCCACAAACUUUGCUCAUCACCAACACAAAGUUAAAUCGGCUG-----C---
....(((.........))).............((((((....((((........)))).))))))((((...(((((((.............))))))).....)))).-----.--- ( -23.62)
>DroWil_CAF1 45166 107 - 1
UUAAGACGAAAACAAAGUCACCU-AAGUACGUGACCAGCAUGUCUAA---CAAUUGACCGGGGCUGGCCACUAACUUUGCUCAUCAC------AAAGUUAAACCGACA-AACUACACA
................(((....-......(((.(((((..(((...---.....)))....))))).)))((((((((.......)------)))))))....))).-......... ( -25.30)
>DroAna_CAF1 12898 109 - 1
UUAAGACGAAAACAAAGUCACCCGAAGAACGUGACCUGCAUGUCCAA---CAGCUGGCACGGUCAAGUCACUAACUUUGCUCAUCAC------AAAGUUAAACCUACAAAACUACACA
....(((.........))).......((...((((((((.((.....---))....))).)))))..))..((((((((.......)------))))))).................. ( -21.50)
>DroPer_CAF1 22026 108 - 1
UUAAGACGAAAACAAAGUCACCC-AAGAACGUGACUAGCAUGUCCAA---CAGCUGGCACGGUCAAGCCACUAACUUUGCUCAUCGC------AAAGUUAAGCCAACAAAACUACAUA
....(((.........)))....-..((.((((.(((((.((.....---))))))))))).))..((...(((((((((.....))------))))))).))............... ( -27.70)
>consensus
UUAAGACGAAAACAAAGUCACCC_AAGAACGUGACCAGCAUGUCCAA___CAGCUGGCACGGUCAAGCCACUAACUUUGCUCAUCAC______AAAGUUAAACCGACAAAACUACACA
....((.((...((((((........((.((((.(((((.((........))))))))))).)).........)))))).)).))................................. (-13.49 = -13.80 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:36 2006