Locus 5042

Sequence ID X_DroMel_CAF1
Location 13,191,827 – 13,191,956
Length 129
Max. P 0.938749
window8205 window8206 window8207

overview

Window 5

Location 13,191,827 – 13,191,921
Length 94
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 91.70
Mean single sequence MFE -30.40
Consensus MFE -24.15
Energy contribution -24.65
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -4.00
Structure conservation index 0.79
SVM decision value 1.27
SVM RNA-class probability 0.938749
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13191827 94 + 22224390
AUAUAUGCCUUUCGCCUUUUUGGCAUUUC-GGCAGUGC-CAAAAAUUGCGUAAUGGCCGCAAAAUCAAAAUGCGGCAAGUUGCAAAAUGUGAAAUU
.........((((((.(((((((((((..-...)))))-))))))(((((.....((((((.........))))))....)))))...)))))).. ( -30.80)
>DroSim_CAF1 22797 88 + 1
GUGG-----AUUCG-CUUUUUGGCAUUUC-GGCAGUGC-CAAAAAUUGCGUAAUGGCCGCAAAAUCAAAAUGCGGCAAGUUGCAAAAUGUGAAAUU
....-----.((((-((((((((((((..-...)))))-))))))(((((.....((((((.........))))))....)))))...)))))... ( -30.70)
>DroEre_CAF1 30714 90 + 1
AUAU-----GUUCG-CUUUUUGGCAUUUUGGGCAGUGCCCAAAAAUUGCGUAAUGGCCGCAAAAUCAAAAUGCGGCAAGUUGCAAAAUGUGAAAUU
....-----.((((-(.((((.(((((((((((...))))))))..)))(((((.((((((.........))))))..))))))))).)))))... ( -31.50)
>DroYak_CAF1 29369 89 + 1
AUAU-----GUACG-CUUUUUGGCAUUUUGGGCAGUGC-CAAAAAUUGCGUAAUGGCCGCAAAAUCAAAAUGCGGCAAGUUGCAAAAUGUGAAAUU
....-----...((-((((((((((((......)))))-))))))(((((.....((((((.........))))))....)))))...)))..... ( -28.60)
>consensus
AUAU_____GUUCG_CUUUUUGGCAUUUC_GGCAGUGC_CAAAAAUUGCGUAAUGGCCGCAAAAUCAAAAUGCGGCAAGUUGCAAAAUGUGAAAUU
..................(((.(((((((..(((((........)))))(((((.((((((.........))))))..)))))))))))).))).. (-24.15 = -24.65 +   0.50)

alignment

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secondary structure

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dotplot

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Window 6

Location 13,191,827 – 13,191,921
Length 94
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 91.70
Mean single sequence MFE -25.50
Consensus MFE -18.50
Energy contribution -18.50
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -3.63
Structure conservation index 0.73
SVM decision value 0.55
SVM RNA-class probability 0.776689
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13191827 94 - 22224390
AAUUUCACAUUUUGCAACUUGCCGCAUUUUGAUUUUGCGGCCAUUACGCAAUUUUUG-GCACUGCC-GAAAUGCCAAAAAGGCGAAAGGCAUAUAU
............(((.....((((((.........)))))).....(((..((((((-(((.(...-..).))))))))).)))....)))..... ( -26.50)
>DroSim_CAF1 22797 88 - 1
AAUUUCACAUUUUGCAACUUGCCGCAUUUUGAUUUUGCGGCCAUUACGCAAUUUUUG-GCACUGCC-GAAAUGCCAAAAAG-CGAAU-----CCAC
..........(((((.....((((((.........))))))..........((((((-(((.(...-..).))))))))))-)))).-----.... ( -23.90)
>DroEre_CAF1 30714 90 - 1
AAUUUCACAUUUUGCAACUUGCCGCAUUUUGAUUUUGCGGCCAUUACGCAAUUUUUGGGCACUGCCCAAAAUGCCAAAAAG-CGAAC-----AUAU
..........(((((.....((((((.........))))))......(((..((((((((...)))))))))))......)-)))).-----.... ( -26.50)
>DroYak_CAF1 29369 89 - 1
AAUUUCACAUUUUGCAACUUGCCGCAUUUUGAUUUUGCGGCCAUUACGCAAUUUUUG-GCACUGCCCAAAAUGCCAAAAAG-CGUAC-----AUAU
....................((((((.........))))))...(((((..((((((-(((.(......).))))))))))-)))).-----.... ( -25.10)
>consensus
AAUUUCACAUUUUGCAACUUGCCGCAUUUUGAUUUUGCGGCCAUUACGCAAUUUUUG_GCACUGCC_AAAAUGCCAAAAAG_CGAAC_____AUAU
...........((((.....((((((.........))))))......))))((((((.(((.(......).)))))))))................ (-18.50 = -18.50 +   0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 13,191,864 – 13,191,956
Length 92
Sequences 3
Columns 93
Reading direction forward
Mean pairwise identity 97.84
Mean single sequence MFE -24.73
Consensus MFE -21.40
Energy contribution -21.40
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.20
Structure conservation index 0.87
SVM decision value 0.28
SVM RNA-class probability 0.665827
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13191864 92 + 22224390
-CAAAAAUUGCGUAAUGGCCGCAAAAUCAAAAUGCGGCAAGUUGCAAAAUGUGAAAUUUAUUAGGCGCUUCGGGGCAACGAGAGAGCGAGAGA
-......(((((((((.((((((.........))))))..)))))...................((.(....).)).........)))).... ( -23.80)
>DroSim_CAF1 22828 92 + 1
-CAAAAAUUGCGUAAUGGCCGCAAAAUCAAAAUGCGGCAAGUUGCAAAAUGUGAAAUUUAUUAGGCGCUUCGGGGCUUCGAGAGAGCGAGAGA
-......(((((((((.((((((.........))))))..)))))..................(((.(....).)))((....)))))).... ( -25.20)
>DroEre_CAF1 30746 93 + 1
CCAAAAAUUGCGUAAUGGCCGCAAAAUCAAAAUGCGGCAAGUUGCAAAAUGUGAAAUUUAUUAGGCGCUUCGGGGCUUCGAGAGAGCGAGAGA
.......(((((((((.((((((.........))))))..)))))..................(((.(....).)))((....)))))).... ( -25.20)
>consensus
_CAAAAAUUGCGUAAUGGCCGCAAAAUCAAAAUGCGGCAAGUUGCAAAAUGUGAAAUUUAUUAGGCGCUUCGGGGCUUCGAGAGAGCGAGAGA
.........((.(((((((((((.........))))))...(..(.....)..)....))))).))((((((......)))...)))...... (-21.40 = -21.40 +   0.00)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:48 2006