Locus 7632

Sequence ID 2L_DroMel_CAF1
Location 21,207,553 – 21,207,684
Length 131
Max. P 0.903501
window12265 window12266 window12267

overview

Window 5

Location 21,207,553 – 21,207,652
Length 99
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 72.48
Mean single sequence MFE -22.87
Consensus MFE -9.72
Energy contribution -9.92
Covariance contribution 0.20
Combinations/Pair 1.09
Mean z-score -2.10
Structure conservation index 0.43
SVM decision value 1.00
SVM RNA-class probability 0.897845
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21207553 99 + 22407834
CCAGCCCCCUCCC----GAAACGGGAAAGGCAUUCCAAAAUGU-U----AGAUGAAUG-CAUGCUAUUGUAAUUGGAACUGCUUGUUUGCAUGUUCUAAUAAACUACAC
..(((....((((----(...)))))...((((((........-.----....)))))-)..)))..(((((((((((((((......))).))))))))....)))). ( -26.12)
>DroSec_CAF1 17874 99 + 1
CCAGCCCCCUCCC----GUAACGGGAAAGGCAUUCCUAAAUAU-U----AGAUGAAUG-CAUGUCAUUGUAAUUGGAACUGCUUGUUUGCAUGUUCUAAUAAACUACAC
...(((...((((----(...)))))..)))............-(----((.....((-((......))))(((((((((((......))).))))))))...)))... ( -25.30)
>DroEre_CAF1 22544 94 + 1
CCAGCC--CUUCC----GUAACGGGAAAGGCAUUCCAAAAU--------AGAUGAAUG-CAUGUCAUUGUAAUUGGAACUGCUUGUUUGCAUGUUCUAAUAAACUACAC
...(((--.((((----......)))).))).........(--------((.....((-((......))))(((((((((((......))).))))))))...)))... ( -24.40)
>DroYak_CAF1 21726 90 + 1
CCAGAC--CUCCC----GUAACGGGGAAAGCAUUCCAAAAU--------AGAU----G-CAUGUCAUUGUAAUUGGAACUGCUUGUUUGCAUGUUCUAAUAAACUACAC
...(((--.((((----......))))..(((((.......--------.)))----)-)..)))..(((((((((((((((......))).))))))))....)))). ( -24.90)
>DroMoj_CAF1 20376 84 + 1
-------UUGUUUGUCAUUACCCA------UAUUUCAUAAU--------AAAUGUAUG-CAUGUCAUUCUUAUUAGAACUGGUUGUUUGCAUGUUCUAAUAAGCAA---
-------.....((.(((....((------(((........--------....)))))-.))).))..(((((((((((..((.....))..)))))))))))...--- ( -14.40)
>DroAna_CAF1 14422 100 + 1
CACUGCCCCUCCA----CAAACUAUAA-----UUUCGUAAUAUGUAGGCAUGUGUAUGUCAUGUUAUUGUUAUUGGAACGGCUUGUUUGCAUGUUCUAAUAAACUACAU
.............----..........-----.........(((((((((((.......))))).....(((((((((((((......)).))))))))))).)))))) ( -22.10)
>consensus
CCAGCC_CCUCCC____GUAACGGGAAAGGCAUUCCAAAAU________AGAUGAAUG_CAUGUCAUUGUAAUUGGAACUGCUUGUUUGCAUGUUCUAAUAAACUACAC
.......................................................................(((((((((((......))).))))))))......... ( -9.72 =  -9.92 +   0.20)

alignment

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secondary structure

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Window 6

Location 21,207,578 – 21,207,684
Length 106
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 77.85
Mean single sequence MFE -19.85
Consensus MFE -10.10
Energy contribution -10.43
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.34
Structure conservation index 0.51
SVM decision value 1.03
SVM RNA-class probability 0.903501
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21207578 106 + 22407834
GCAUUCCAAAAUGUUAGAUGAAUGCAUGCUAUUGUAAUUGGAACUGCUUGUUUGCAUGUUCUAAUAAACUACACACACACACGACACGAAAAAUGACGCCAAUUCA
((((((.............)))))).......(((((((((((((((......))).))))))))....))))................................. ( -17.82)
>DroPse_CAF1 14780 90 + 1
-UAUUUCAUAAU---------AUGCAUGUCGUUCUUAUUAGAACUGCUUGUUUGCAUGUUCCAAUAAACUACAAACACAAAUGC------AAAUUACGCCCGCACA
-.......((((---------.(((((((.(((((....))))).)).((((((...(((......)))..))))))...))))------).)))).......... ( -16.60)
>DroSec_CAF1 17899 106 + 1
GCAUUCCUAAAUAUUAGAUGAAUGCAUGUCAUUGUAAUUGGAACUGCUUGUUUGCAUGUUCUAAUAAACUACACACACACACGACACGAAAAAUGACGCCACUUCA
(((((((((.....)))..))))))..((((((((((((((((((((......))).))))))))....))).........((...))...))))))......... ( -23.10)
>DroEre_CAF1 22567 96 + 1
GCAUUCCAAAAU---AGAUGAAUGCAUGUCAUUGUAAUUGGAACUGCUUGUUUGCAUGUUCUAAUAAACUACACACAC-------ACGAGUAAUGACGCCAAUUCA
((((((......---....))))))..((((((...(((((((((((......))).))))))))..(((.(......-------..))))))))))......... ( -22.90)
>DroYak_CAF1 21749 92 + 1
GCAUUCCAAAAU---AGAU----GCAUGUCAUUGUAAUUGGAACUGCUUGUUUGCAUGUUCUAAUAAACUACACACAC-------ACGAAUAAUGACGCCAAUUCA
(((((.......---.)))----))..((((((((.(((((((((((......))).))))))))........(....-------..).))))))))......... ( -22.10)
>DroPer_CAF1 14587 90 + 1
-UAUUUCAUAAU---------AUGCAUGUCGUUCUUAUUAGAACUGCUUGUUUGCAUGUUCCAAUAAACUACAAACACAAAUGC------AAAUUACGCCCGCACA
-.......((((---------.(((((((.(((((....))))).)).((((((...(((......)))..))))))...))))------).)))).......... ( -16.60)
>consensus
GCAUUCCAAAAU___AGAU__AUGCAUGUCAUUGUAAUUGGAACUGCUUGUUUGCAUGUUCUAAUAAACUACACACACA_A_G__ACGAAAAAUGACGCCAAUUCA
....................................(((((((((((......))).))))))))......................................... (-10.10 = -10.43 +   0.33)

alignment

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secondary structure

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dotplot

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Window 7

Location 21,207,578 – 21,207,684
Length 106
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 77.85
Mean single sequence MFE -22.68
Consensus MFE -13.61
Energy contribution -13.92
Covariance contribution 0.31
Combinations/Pair 1.10
Mean z-score -1.49
Structure conservation index 0.60
SVM decision value 0.11
SVM RNA-class probability 0.587925
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21207578 106 - 22407834
UGAAUUGGCGUCAUUUUUCGUGUCGUGUGUGUGUGUAGUUUAUUAGAACAUGCAAACAAGCAGUUCCAAUUACAAUAGCAUGCAUUCAUCUAACAUUUUGGAAUGC
(((((..(((.(((.....))).)))((((((.(((((((.....((((.(((......))))))).)))))))...)))))))))))(((((....))))).... ( -24.90)
>DroPse_CAF1 14780 90 - 1
UGUGCGGGCGUAAUUU------GCAUUUGUGUUUGUAGUUUAUUGGAACAUGCAAACAAGCAGUUCUAAUAAGAACGACAUGCAU---------AUUAUGAAAUA-
........((((((.(------((((...(((((.....((((((((((.(((......))))))))))))))))))..))))).---------)))))).....- ( -25.50)
>DroSec_CAF1 17899 106 - 1
UGAAGUGGCGUCAUUUUUCGUGUCGUGUGUGUGUGUAGUUUAUUAGAACAUGCAAACAAGCAGUUCCAAUUACAAUGACAUGCAUUCAUCUAAUAUUUAGGAAUGC
.......(((.(((.....))).)))((((...(((((((.....((((.(((......))))))).)))))))...))))((((((..(((.....))))))))) ( -22.40)
>DroEre_CAF1 22567 96 - 1
UGAAUUGGCGUCAUUACUCGU-------GUGUGUGUAGUUUAUUAGAACAUGCAAACAAGCAGUUCCAAUUACAAUGACAUGCAUUCAUCU---AUUUUGGAAUGC
.........((((((((....-------..)))(((((((.....((((.(((......))))))).))))))))))))..((((((....---......)))))) ( -19.70)
>DroYak_CAF1 21749 92 - 1
UGAAUUGGCGUCAUUAUUCGU-------GUGUGUGUAGUUUAUUAGAACAUGCAAACAAGCAGUUCCAAUUACAAUGACAUGC----AUCU---AUUUUGGAAUGC
.......((((((..((..((-------((((((((.((..(((.((((.(((......))))))).))).)).)).))))))----))..---))..))..)))) ( -18.10)
>DroPer_CAF1 14587 90 - 1
UGUGCGGGCGUAAUUU------GCAUUUGUGUUUGUAGUUUAUUGGAACAUGCAAACAAGCAGUUCUAAUAAGAACGACAUGCAU---------AUUAUGAAAUA-
........((((((.(------((((...(((((.....((((((((((.(((......))))))))))))))))))..))))).---------)))))).....- ( -25.50)
>consensus
UGAAUUGGCGUCAUUUUUCGU__C_U_UGUGUGUGUAGUUUAUUAGAACAUGCAAACAAGCAGUUCCAAUUACAAUGACAUGCAU__AUCU___AUUUUGGAAUGC
............................((((((((.(((.(((.((((.(((......))))))).)))...))).))))))))..................... (-13.61 = -13.92 +   0.31)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:32 2006