Locus 1990

Sequence ID 2L_DroMel_CAF1
Location 5,390,209 – 5,390,302
Length 93
Max. P 0.943705
window3209 window3210

overview

Window 9

Location 5,390,209 – 5,390,302
Length 93
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 86.09
Mean single sequence MFE -26.50
Consensus MFE -20.48
Energy contribution -20.71
Covariance contribution 0.22
Combinations/Pair 1.04
Mean z-score -3.52
Structure conservation index 0.77
SVM decision value 1.12
SVM RNA-class probability 0.918759
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5390209 93 + 22407834
CACUUGGCACCGUUCGAGUGUUGAAAAAUGCAUUUCACAUUCACA------------AACGCAAUGCCAAUUGCAAUUGCAAUUCACAAUUGCAUUCACACACGA-----
...((((((.((((.((((((.((((......))))))))))...------------))))...)))))).((((((((.......))))))))...........----- ( -24.90)
>DroSec_CAF1 10663 93 + 1
CACUUGGCACCGCUCGAGUGUUGAAAAAUGAAUUUCACAUUCGCA------------AACGCAAUGCCAAUUGCAAUUGCAAUUCACAAUUGCAUUCACACACGA-----
...((((((..((.(((((((.((((......)))))))))))..------------...))..)))))).((((((((.......))))))))...........----- ( -25.90)
>DroSim_CAF1 9648 93 + 1
CACUUGGCACCGCUCGAGUGUUGAAAAAUGCAUUUCACAUUCGCA------------AACGCAAUGCCAAUUGCAAUUGCAAUUCACAAUUGCAUUCACACACGA-----
...((((((..((.(((((((.((((......)))))))))))..------------...))..)))))).((((((((.......))))))))...........----- ( -25.90)
>DroEre_CAF1 8071 102 + 1
CACUUGGCACCGCUCGAGUGUUGAAAAAUGCAUUUCACAUUCGCA-ACGCAAAGGCA-ACGCAACGCCAAUUGCAAUUGC-AUUCACAAUUGCAUUCACACACGA-----
...(((((...((.(((((((.((((......)))))))))))..-..))...(...-.).....))))).((((((((.-.....))))))))...........----- ( -27.70)
>DroYak_CAF1 15249 105 + 1
CACUUGGCACCGCUCGAGUGUUGAAAAAUGCAUUUCACAUUCGCAAACGAAAACGCAAACGCAACGCCAAUUGCAAUUGCUAUUCACAAUUGCAUUCACACACGA-----
...(((((..((..(((((((.((((......)))))))))))....)).....((....))...))))).((((((((.......))))))))...........----- ( -26.00)
>DroAna_CAF1 11560 98 + 1
CAGUUGGCACUGCUCGAGUGUUGAAAAAUGCAUUUCACAUUCGCA------------AUUGCAAUCGCAAUGGCAAUUGCAGCUUACAAUUGCUUUCACACACGAGUGGC
.........(..((((.((((.((((................(((------------(((((..........)))))))).((........)))))))))).))))..). ( -28.60)
>consensus
CACUUGGCACCGCUCGAGUGUUGAAAAAUGCAUUUCACAUUCGCA____________AACGCAAUGCCAAUUGCAAUUGCAAUUCACAAUUGCAUUCACACACGA_____
...(((((.......((((((.((((......))))))))))((................))...))))).((((((((.......))))))))................ (-20.48 = -20.71 +   0.22)

alignment

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secondary structure

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dotplot

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Window 0

Location 5,390,209 – 5,390,302
Length 93
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 86.09
Mean single sequence MFE -33.17
Consensus MFE -27.03
Energy contribution -27.20
Covariance contribution 0.17
Combinations/Pair 1.10
Mean z-score -3.16
Structure conservation index 0.82
SVM decision value 1.34
SVM RNA-class probability 0.943705
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5390209 93 - 22407834
-----UCGUGUGUGAAUGCAAUUGUGAAUUGCAAUUGCAAUUGGCAUUGCGUU------------UGUGAAUGUGAAAUGCAUUUUUCAACACUCGAACGGUGCCAAGUG
-----...........(((((((((.....))))))))).(((((((..((((------------((.(....(((((......)))))...).)))))))))))))... ( -29.50)
>DroSec_CAF1 10663 93 - 1
-----UCGUGUGUGAAUGCAAUUGUGAAUUGCAAUUGCAAUUGGCAUUGCGUU------------UGCGAAUGUGAAAUUCAUUUUUCAACACUCGAGCGGUGCCAAGUG
-----...........(((((((((.....))))))))).((((((((((...------------..(((.(((((((......)))).))).))).))))))))))... ( -33.70)
>DroSim_CAF1 9648 93 - 1
-----UCGUGUGUGAAUGCAAUUGUGAAUUGCAAUUGCAAUUGGCAUUGCGUU------------UGCGAAUGUGAAAUGCAUUUUUCAACACUCGAGCGGUGCCAAGUG
-----...........(((((((((.....))))))))).((((((((((...------------..(((.(((((((......)))).))).))).))))))))))... ( -33.70)
>DroEre_CAF1 8071 102 - 1
-----UCGUGUGUGAAUGCAAUUGUGAAU-GCAAUUGCAAUUGGCGUUGCGU-UGCCUUUGCGU-UGCGAAUGUGAAAUGCAUUUUUCAACACUCGAGCGGUGCCAAGUG
-----...........(((((((((....-))))))))).((((((..((..-.((....))((-((.((((((.....))))))..))))......))..))))))... ( -32.30)
>DroYak_CAF1 15249 105 - 1
-----UCGUGUGUGAAUGCAAUUGUGAAUAGCAAUUGCAAUUGGCGUUGCGUUUGCGUUUUCGUUUGCGAAUGUGAAAUGCAUUUUUCAACACUCGAGCGGUGCCAAGUG
-----(((.((((((((((((((((.....)))))))))....((((((((((((((........)))))))))..)))))....))).)))).)))............. ( -34.30)
>DroAna_CAF1 11560 98 - 1
GCCACUCGUGUGUGAAAGCAAUUGUAAGCUGCAAUUGCCAUUGCGAUUGCAAU------------UGCGAAUGUGAAAUGCAUUUUUCAACACUCGAGCAGUGCCAACUG
....((((.(((((((.((((((((((..((((((....)))))).)))))))------------)))((((((.....))))))))).)))).))))((((....)))) ( -35.50)
>consensus
_____UCGUGUGUGAAUGCAAUUGUGAAUUGCAAUUGCAAUUGGCAUUGCGUU____________UGCGAAUGUGAAAUGCAUUUUUCAACACUCGAGCGGUGCCAAGUG
................(((((((((.....))))))))).((((((((((.................(((.(((((((......)))).))).))).))))))))))... (-27.03 = -27.20 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:38 2006