Locus 5144

Sequence ID 3L_DroMel_CAF1
Location 14,137,184 – 14,137,275
Length 91
Max. P 0.562896
window8138 window8139

overview

Window 8

Location 14,137,184 – 14,137,275
Length 91
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 78.24
Mean single sequence MFE -24.43
Consensus MFE -12.82
Energy contribution -13.43
Covariance contribution 0.61
Combinations/Pair 1.06
Mean z-score -1.82
Structure conservation index 0.52
SVM decision value 0.06
SVM RNA-class probability 0.562896
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14137184 91 + 23771897
---------G--------UUCUCCUG-CAAUCAGUUGUCAAGUUGCGGCUGGUUGCAAAUUUAUCAUCAUUUAAUUUCCAUUUGGCGU----UCGUGCCAAAUGUUAAUGACG
---------(--------((....((-(((((((((((......)))))))))))))................(((..(((((((((.----...)))))))))..)))))). ( -30.40)
>DroVir_CAF1 135029 83 + 1
-----------AUUGCCGC----ACGCAAAUCAG--------UCGAGUCUUGUUGCAAAUUUAUCAUCAUUUAAUUUCCAUUUGGCG-----UCGUGCCA--UGUUAAUGACG
-----------...(((((----(.((((.((..--------..))...)))))))....(((........))).........)))(-----((((....--.....))))). ( -13.00)
>DroPse_CAF1 151559 111 + 1
UUUCCACUCAUUCUGCUGUGCU-CAG-CAAUCAGUUGUCAAGUCGAGGCUUGUUGCAAAUUUAUCAUCAUUUAAUUUCCAUUUGGCGUUCGUUCGUGCCAAAUGUUAAUGACG
.............(((((....-)))-))....((...(((((....)))))..)).................(((..(((((((((........)))))))))..))).... ( -25.00)
>DroYak_CAF1 141526 99 + 1
---------GUUCUGCUGUUCUCCUG-CAAUCAGUUGUCAAGUUGCGGCUGGUUGCAAAUUUAUCAUCAUUUAAUUUCCAUUUGGCGU----UCGUGCCAAAUGUUAAUGACG
---------........(((....((-(((((((((((......)))))))))))))................(((..(((((((((.----...)))))))))..)))))). ( -30.40)
>DroAna_CAF1 134666 89 + 1
---------G--------UUC--AAG-CAAUCAGUUGUCAAGUCGCGGCUGGUUGCAAAUUUAUCAUCAUUUAAUUUCCAUUUGCCGU----UCGUGCCAAAUGUUAAUGACG
---------(--------((.--..(-(((((((((((......)))))))))))).................(((..((((((.((.----...)).))))))..)))))). ( -22.80)
>DroPer_CAF1 152858 111 + 1
UUUCCACUCAUUCUGCUGUGCU-CAG-CAAUCAGUUGUCAAGUCGAGGCUUGUUGCAAAUUUAUCAUCAUUUAAUUUCCAUUUGGCGUUCGUUCGUGCCAAAUGUUAAUGACG
.............(((((....-)))-))....((...(((((....)))))..)).................(((..(((((((((........)))))))))..))).... ( -25.00)
>consensus
_________G_UCUGCUGUUCU_CAG_CAAUCAGUUGUCAAGUCGAGGCUGGUUGCAAAUUUAUCAUCAUUUAAUUUCCAUUUGGCGU____UCGUGCCAAAUGUUAAUGACG
.........................................(((...((.....)).................(((..(((((((((........)))))))))..)))))). (-12.82 = -13.43 +   0.61)

alignment

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secondary structure

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dotplot

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Window 9

Location 14,137,184 – 14,137,275
Length 91
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 78.24
Mean single sequence MFE -22.34
Consensus MFE -12.60
Energy contribution -13.10
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.63
Structure conservation index 0.56
SVM decision value 0.03
SVM RNA-class probability 0.546828
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14137184 91 - 23771897
CGUCAUUAACAUUUGGCACGA----ACGCCAAAUGGAAAUUAAAUGAUGAUAAAUUUGCAACCAGCCGCAACUUGACAACUGAUUG-CAGGAGAA--------C---------
(((((((..((((((((....----..)))))))).......))))))).....(((((((.(((...(.....)....))).)))-))))....--------.--------- ( -23.70)
>DroVir_CAF1 135029 83 - 1
CGUCAUUAACA--UGGCACGA-----CGCCAAAUGGAAAUUAAAUGAUGAUAAAUUUGCAACAAGACUCGA--------CUGAUUUGCGU----GCGGCAAU-----------
(((((((....--((((....-----.))))(((....))).)))))))......((((..((.((.((..--------..)).))...)----)..)))).----------- ( -16.50)
>DroPse_CAF1 151559 111 - 1
CGUCAUUAACAUUUGGCACGAACGAACGCCAAAUGGAAAUUAAAUGAUGAUAAAUUUGCAACAAGCCUCGACUUGACAACUGAUUG-CUG-AGCACAGCAGAAUGAGUGGAAA
(((((((..((((((((..........)))))))).......))))))).....((..(..((((......))))........(((-(((-....)))))).....)..)).. ( -26.60)
>DroYak_CAF1 141526 99 - 1
CGUCAUUAACAUUUGGCACGA----ACGCCAAAUGGAAAUUAAAUGAUGAUAAAUUUGCAACCAGCCGCAACUUGACAACUGAUUG-CAGGAGAACAGCAGAAC---------
(((((((..((((((((....----..)))))))).......))))))).....(((((......(((((((.........).)))-).))......)))))..--------- ( -24.50)
>DroAna_CAF1 134666 89 - 1
CGUCAUUAACAUUUGGCACGA----ACGGCAAAUGGAAAUUAAAUGAUGAUAAAUUUGCAACCAGCCGCGACUUGACAACUGAUUG-CUU--GAA--------C---------
(((((((..((((((.(....----..).)))))).......)))))))........((((.(((..............))).)))-)..--...--------.--------- ( -16.14)
>DroPer_CAF1 152858 111 - 1
CGUCAUUAACAUUUGGCACGAACGAACGCCAAAUGGAAAUUAAAUGAUGAUAAAUUUGCAACAAGCCUCGACUUGACAACUGAUUG-CUG-AGCACAGCAGAAUGAGUGGAAA
(((((((..((((((((..........)))))))).......))))))).....((..(..((((......))))........(((-(((-....)))))).....)..)).. ( -26.60)
>consensus
CGUCAUUAACAUUUGGCACGA____ACGCCAAAUGGAAAUUAAAUGAUGAUAAAUUUGCAACAAGCCGCGACUUGACAACUGAUUG_CUG_AGAACAGCAGA_C_________
(((((((..((((((((..........)))))))).......)))))))................................................................ (-12.60 = -13.10 +   0.50)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:56 2006