Locus 7433

Sequence ID X_DroMel_CAF1
Location 18,546,690 – 18,546,845
Length 155
Max. P 0.998876
window12193 window12194

overview

Window 3

Location 18,546,690 – 18,546,787
Length 97
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 95.46
Mean single sequence MFE -31.84
Consensus MFE -28.16
Energy contribution -29.08
Covariance contribution 0.92
Combinations/Pair 1.10
Mean z-score -2.44
Structure conservation index 0.88
SVM decision value 3.26
SVM RNA-class probability 0.998876
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18546690 97 + 22224390
UUAAGGCGGCAUUAAAGGCGAAUUAGCAGAAUUGAUUUGCGCCGGCUUUGCCUUGGGCUGCCUAGAAUUUUUGUGCCCAUAAUCUGGGGAUUAUUCA
...(((((((....((((((((.(.(((((.....)))))....).))))))))..))))))).((((....((.((((.....)))).)).)))). ( -35.40)
>DroSec_CAF1 11504 97 + 1
UUAAGGCGGCAUUAAAGGCGAAUUAGCAGAAUUGAUUUGCGCCGGCUUUGCCUUGGGCUGCCUAGAAUUUUUGUGCCCAUAAUCUGGGGAUUAUUCA
...(((((((....((((((((.(.(((((.....)))))....).))))))))..))))))).((((....((.((((.....)))).)).)))). ( -35.40)
>DroSim_CAF1 11868 97 + 1
UUAAGGCGGCAUUAAAGGCGAAUUAGCAGAAUUGAUUUGCGCCGGCUUUGCCUUGGGCUGCCUAGAAUUUUUGUGCCCAUAAUCUGGGGAUUAUUCA
...(((((((....((((((((.(.(((((.....)))))....).))))))))..))))))).((((....((.((((.....)))).)).)))). ( -35.40)
>DroEre_CAF1 3818 95 + 1
UUAAGACGGUAUUAAAGGCGAAUUAGCCGAAUUGAUUUGCGCCGGCU-UGCCUUGGGCUGCCUAGAAUCUUUGUGCCCAUAAUCUGG-GAUUAUUCA
...((.((((....(((((((.(..((((((....)))).))..).)-))))))..)))).)).((((....((.((((.....)))-))).)))). ( -24.50)
>DroYak_CAF1 3977 96 + 1
UUAAGAUGGCAUUAAAGGCGAAUUAGCAGAAUUGAUUUGCGCUGGCU-UGCCUGGGGCUGCCUAGAGUUUUUGUGCCCAUAAUCUGGGGAUUAUUCA
.......((((((..((((((.(((((.(((....)))..))))).)-)))))..)).))))..((((....((.((((.....)))).)).)))). ( -28.50)
>consensus
UUAAGGCGGCAUUAAAGGCGAAUUAGCAGAAUUGAUUUGCGCCGGCUUUGCCUUGGGCUGCCUAGAAUUUUUGUGCCCAUAAUCUGGGGAUUAUUCA
...(((((((....((((((((.(.(((((.....)))))....).))))))))..))))))).((((....((.((((.....)))).)).)))). (-28.16 = -29.08 +   0.92)

alignment

Postscript

secondary structure

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dotplot

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Window 4

Location 18,546,747 – 18,546,845
Length 98
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 67.37
Mean single sequence MFE -27.43
Consensus MFE -10.77
Energy contribution -11.82
Covariance contribution 1.05
Combinations/Pair 1.22
Mean z-score -1.70
Structure conservation index 0.39
SVM decision value 0.20
SVM RNA-class probability 0.629357
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18546747 98 - 22224390
CUAGAUGGCCCCUUCUC-C------C---A-----UCUACGGCG--UCC----UCCAUCCUCUCCAGCUGCGGAUGCUGUGAAUAAUCCCCAGAUUAUGGGCACAAAAAUUCUAGGCAG
(((((((((((......-.------.---.-----..(((((((--(((----..................)))))))))).((((((....)))))))))).)).....))))).... ( -27.97)
>DroPse_CAF1 18106 91 - 1
GU-GAUGGCUGAUGCUG-GCUGUC-UGGGA-----UUUGUGCC-----------GCUGCUUCUCUCAAUGCAAA---UAAGCAUAAUCCGAUGAUUGUGCUUGAAGAAA----AAGC--
..-(((((((......)-))))))-(((((-----...((...-----------...))...))))).......---(((((((((((....)))))))))))......----....-- ( -24.00)
>DroSec_CAF1 11561 104 - 1
CUAGAUGGCCCCUUCCC-C------C---A-----UCCACGGCGCAUCCACGGCCCAUCCUCUCCAGCUGCGGACGCUGUGAAUAAUCCCCAGAUUAUGGGCACAAAAAUUCUAGGCAG
(((((((((((......-.------.---.-----..(((((((..(((.((((............)))).)))))))))).((((((....)))))))))).)).....))))).... ( -33.70)
>DroSim_CAF1 11925 104 - 1
CUAGAUGGCUCCUUCCC-C------C---A-----ACCACGGCGCAUCCACGGCCCAUCCUCUCCAGCUGCGGAUGCUGUGAAUAAUCCCCAGAUUAUGGGCACAAAAAUUCUAGGCAG
(((((((((((......-.------.---.-----..((((((..((((.((((............)))).)))))))))).((((((....)))))))))).)).....))))).... ( -29.40)
>DroEre_CAF1 3874 83 - 1
CUAGAUGGCUUCUGCCC-A----------------------------------CCCAUCCUCUCCAGCUGCGAAUGCUGUGAAUAAUC-CCAGAUUAUGGGCACAAAGAUUCUAGGCAG
(((((...(((.(((((-.----------------------------------.........((((((.......)))).))((((((-...)))))))))))..)))..))))).... ( -24.10)
>DroYak_CAF1 4033 110 - 1
CUAGAUGGCUCCUCCACCA-----CC---AGCACCACCAC-CCCCAUUCAUGGCCAAUCCUCUCCAGCUGCGGAUGCUGUGAAUAAUCCCCAGAUUAUGGGCACAAAAACUCUAGGCAG
((((((((........)))-----..---.((.(((....-.....((((((((..((((.(.......).))))))))))))(((((....))))))))))........))))).... ( -25.40)
>consensus
CUAGAUGGCUCCUUCCC_C______C___A_____UCCACGGCG__UCC____CCCAUCCUCUCCAGCUGCGGAUGCUGUGAAUAAUCCCCAGAUUAUGGGCACAAAAAUUCUAGGCAG
(((((((((((...................................................((((((.......)))).))((((((....)))))))))).)).....))))).... (-10.77 = -11.82 +   1.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:51 2006