Locus 5748

Sequence ID 3R_DroMel_CAF1
Location 14,969,239 – 14,969,341
Length 102
Max. P 0.836280
window9417 window9418

overview

Window 7

Location 14,969,239 – 14,969,341
Length 102
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 78.96
Mean single sequence MFE -27.33
Consensus MFE -14.91
Energy contribution -15.90
Covariance contribution 0.99
Combinations/Pair 1.27
Mean z-score -2.15
Structure conservation index 0.55
SVM decision value 0.67
SVM RNA-class probability 0.817932
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14969239 102 + 27905053
UAUAU----AUACAGUA----UAUAAACUCAUUGCUAUGUAUGUAAGCAGCGACAAACUUUGCCAAUUGGCUUGGCAAA---CGUGUCUGGGCUGCGGUUUGACUUGUUAAAA
(((((----(((.((((----...........)))).)))))))).(((((((((...((((((((.....))))))))---..))))...)))))..(((((....))))). ( -29.80)
>DroSec_CAF1 1569 98 + 1
UAUAU----AUACAGUA----UAUAAGCCAAUUGCUAU----GUAAGCAACGACAAACUUUGCCAAUUGGCUUGGCAAA---CGUGUCUGGGCUGCGGUUUGACUUGUUAAAA
(((((----((...)))----))))((((..(((((..----...))))).((((...((((((((.....))))))))---..))))..))))....(((((....))))). ( -26.10)
>DroSim_CAF1 1617 98 + 1
UAUAU----AUACAGUA----CAUAAGCCAAUUGCUAU----GUAAGCAACGACAAACUUUGCCAAUUGGCUUGGCAAA---CGUGUCUGGGCUGCGGUUUGACUUGUUAAAA
.....----...(((.(----(...((((..(((((..----...))))).((((...((((((((.....))))))))---..))))..))))...)))))........... ( -27.00)
>DroEre_CAF1 1584 100 + 1
----------UACAGUAUACAUAUAAACUCAAUUCUAUGUAUGUGAGCAGAGACAAACUUUGCCAAUUGGCUUGGCAAA---CGUGUCUGGGCUGCGGUUUGACUUGUUAAAA
----------..((.((((((((.((......)).)))))))))).(((((((((...((((((((.....))))))))---..)))))...))))..(((((....))))). ( -26.30)
>DroYak_CAF1 1987 102 + 1
UAUAU----AUACAGUA----UAUAAACUCAUAUCUAUGUAUGUAAGGAGCGACAAACUUUGCCAAUUGGCUUGGCAAA---CGUGUCUGGGCUGCGGUUUGACUUUUUAAAA
..(((----(((((..(----(((......))))...)))))))).(.(((((((...((((((((.....))))))))---..))))...))).)................. ( -24.40)
>DroAna_CAF1 4339 98 + 1
UAUAUUCUUACAAAAUA----UAUGUACCCCGAGCUA-----------GGGGACAAACUUUGCAAAGUGGCUCAGUAACGGGAGUGUCUGGGCUGUGGCAUGACUUGUUGAAA
....(((..((((....----..(((.((((......-----------))))))).....(((...(..((((((..((....))..))))))..).)))....)))).))). ( -30.40)
>consensus
UAUAU____AUACAGUA____UAUAAACCCAUUGCUAU____GUAAGCAGCGACAAACUUUGCCAAUUGGCUUGGCAAA___CGUGUCUGGGCUGCGGUUUGACUUGUUAAAA
.......................((((((......(((....))).(((((((((...((((((((.....)))))))).....))))...)))))))))))........... (-14.91 = -15.90 +   0.99)

alignment

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secondary structure

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dotplot

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Window 8

Location 14,969,239 – 14,969,341
Length 102
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 78.96
Mean single sequence MFE -23.23
Consensus MFE -13.31
Energy contribution -14.45
Covariance contribution 1.14
Combinations/Pair 1.12
Mean z-score -2.07
Structure conservation index 0.57
SVM decision value 0.73
SVM RNA-class probability 0.836280
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14969239 102 - 27905053
UUUUAACAAGUCAAACCGCAGCCCAGACACG---UUUGCCAAGCCAAUUGGCAAAGUUUGUCGCUGCUUACAUACAUAGCAAUGAGUUUAUA----UACUGUAU----AUAUA
.................(((((.(((((...---((((((((.....)))))))))))))..)))))....((((.((....))(((.....----.)))))))----..... ( -23.30)
>DroSec_CAF1 1569 98 - 1
UUUUAACAAGUCAAACCGCAGCCCAGACACG---UUUGCCAAGCCAAUUGGCAAAGUUUGUCGUUGCUUAC----AUAGCAAUUGGCUUAUA----UACUGUAU----AUAUA
.......(((((((...........((((..---((((((((.....))))))))...)))).(((((...----..))))))))))))...----........----..... ( -24.50)
>DroSim_CAF1 1617 98 - 1
UUUUAACAAGUCAAACCGCAGCCCAGACACG---UUUGCCAAGCCAAUUGGCAAAGUUUGUCGUUGCUUAC----AUAGCAAUUGGCUUAUG----UACUGUAU----AUAUA
.....(((.........(((((.(((((...---((((((((.....)))))))))))))..))))).(((----(((((.....)).))))----)).)))..----..... ( -26.10)
>DroEre_CAF1 1584 100 - 1
UUUUAACAAGUCAAACCGCAGCCCAGACACG---UUUGCCAAGCCAAUUGGCAAAGUUUGUCUCUGCUCACAUACAUAGAAUUGAGUUUAUAUGUAUACUGUA----------
.....(((.........((((...(((((..---((((((((.....))))))))...)))))))))....(((((((.((......)).)))))))..))).---------- ( -24.70)
>DroYak_CAF1 1987 102 - 1
UUUUAAAAAGUCAAACCGCAGCCCAGACACG---UUUGCCAAGCCAAUUGGCAAAGUUUGUCGCUCCUUACAUACAUAGAUAUGAGUUUAUA----UACUGUAU----AUAUA
.................(.(((.(((((...---((((((((.....)))))))))))))..))).)....(((((...(((((....))))----)..)))))----..... ( -19.40)
>DroAna_CAF1 4339 98 - 1
UUUCAACAAGUCAUGCCACAGCCCAGACACUCCCGUUACUGAGCCACUUUGCAAAGUUUGUCCCC-----------UAGCUCGGGGUACAUA----UAUUUUGUAAGAAUAUA
.(((................((.(((..((....))..))).))....(((((((((.(((((((-----------......)))).)))..----.)))))))))))).... ( -21.40)
>consensus
UUUUAACAAGUCAAACCGCAGCCCAGACACG___UUUGCCAAGCCAAUUGGCAAAGUUUGUCGCUGCUUAC____AUAGCAAUGAGUUUAUA____UACUGUAU____AUAUA
.................(((((...((((.....((((((((.....))))))))...))))))))).............................................. (-13.31 = -14.45 +   1.14)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:44 2006