Locus 1051

Sequence ID 3L_DroMel_CAF1
Location 3,090,787 – 3,090,887
Length 100
Max. P 0.992171
window1629 window1630

overview

Window 9

Location 3,090,787 – 3,090,887
Length 100
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 92.71
Mean single sequence MFE -30.05
Consensus MFE -26.86
Energy contribution -26.93
Covariance contribution 0.06
Combinations/Pair 1.03
Mean z-score -3.06
Structure conservation index 0.89
SVM decision value 2.31
SVM RNA-class probability 0.992171
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3090787 100 + 23771897
UUGAAUGUAUUGUAGCAGCGGAGAGUAUAGCUAAGCUUAGUUUGGCCCCCGGAUUGAGCAGGGUUUUUUUCGGUUUUUGUUGCUUUGGUGUUUGGUGUUU-
(..((..(...((((((((.(((((...((((..(((((((((((...)))))))))))..)))).))))).))...))))))....)..))..).....- ( -29.80)
>DroSec_CAF1 23604 91 + 1
UUGAAUG-----UAGCAGCGGAGAGUAUAGCUGAGCUUAGUUUGGCCCCCGGAUUGAGCAGGGUU----UCGGUUUUUGUAGCUUUGGUGUUUGGUGUUU-
(..((..-----((((.(((((((.(..((((..(((((((((((...)))))))))))..))))----..).))))))).)))...)..))..).....- ( -26.70)
>DroSim_CAF1 25668 91 + 1
UUGAAUA-----UAGCAGCGGAGAGUAUAGCUGAGCUUAGUUUGGCCCCCGGAUUGAGCAGGGUU----UCGGUUUUUGUUGCUUUGGUGUUUGGUGUUU-
(..((((-----((((((((((((.(..((((..(((((((((((...)))))))))))..))))----..).)))))))))))...)))))..).....- ( -32.20)
>DroEre_CAF1 28159 92 + 1
UUGAAUG-----UAGCAGCGGAGAGUAUAGCUGAGCUUAGUUUGGCCCCCGGAUUGAGCGGGGUU----UCGGUUUUUGUUGCUUUGGUGUUUGGUGUUUU
(..((..-----((((((((((((.(..((((..(((((((((((...)))))))))))..))))----..).)))))))))))...)..))..)...... ( -31.50)
>consensus
UUGAAUG_____UAGCAGCGGAGAGUAUAGCUGAGCUUAGUUUGGCCCCCGGAUUGAGCAGGGUU____UCGGUUUUUGUUGCUUUGGUGUUUGGUGUUU_
(..((((......(((((((((((.(..((((..(((((((((((...)))))))))))..))))......).)))))))))))....))))..)...... (-26.86 = -26.93 +   0.06) 

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location 3,090,787 – 3,090,887
Length 100
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 92.71
Mean single sequence MFE -11.88
Consensus MFE -11.36
Energy contribution -11.43
Covariance contribution 0.06
Combinations/Pair 1.08
Mean z-score -1.65
Structure conservation index 0.96
SVM decision value 0.92
SVM RNA-class probability 0.882529
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3090787 100 - 23771897
-AAACACCAAACACCAAAGCAACAAAAACCGAAAAAAACCCUGCUCAAUCCGGGGGCCAAACUAAGCUUAGCUAUACUCUCCGCUGCUACAAUACAUUCAA
-................((((.(...............(((((.......))))).........(((...))).........).))))............. ( -11.40)
>DroSec_CAF1 23604 91 - 1
-AAACACCAAACACCAAAGCUACAAAAACCGA----AACCCUGCUCAAUCCGGGGGCCAAACUAAGCUCAGCUAUACUCUCCGCUGCUA-----CAUUCAA
-.............................((----(.(((((.......))))).........(((..(((..........)))))).-----..))).. ( -11.10)
>DroSim_CAF1 25668 91 - 1
-AAACACCAAACACCAAAGCAACAAAAACCGA----AACCCUGCUCAAUCCGGGGGCCAAACUAAGCUCAGCUAUACUCUCCGCUGCUA-----UAUUCAA
-................((((.(.........----..(((((.......))))).........(((...))).........).)))).-----....... ( -11.40)
>DroEre_CAF1 28159 92 - 1
AAAACACCAAACACCAAAGCAACAAAAACCGA----AACCCCGCUCAAUCCGGGGGCCAAACUAAGCUCAGCUAUACUCUCCGCUGCUA-----CAUUCAA
.................((((.(.........----..(((((.......))))).........(((...))).........).)))).-----....... ( -13.60)
>consensus
_AAACACCAAACACCAAAGCAACAAAAACCGA____AACCCUGCUCAAUCCGGGGGCCAAACUAAGCUCAGCUAUACUCUCCGCUGCUA_____CAUUCAA
.................((((.(...............(((((.......))))).........(((...))).........).))))............. (-11.36 = -11.43 +   0.06) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:51 2006