Locus 4865

Sequence ID 3L_DroMel_CAF1
Location 13,602,872 – 13,603,024
Length 152
Max. P 0.987162
window7678 window7679 window7680

overview

Window 8

Location 13,602,872 – 13,602,992
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 97.61
Mean single sequence MFE -34.45
Consensus MFE -30.75
Energy contribution -31.28
Covariance contribution 0.53
Combinations/Pair 1.03
Mean z-score -1.15
Structure conservation index 0.89
SVM decision value 0.00
SVM RNA-class probability 0.535122
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13602872 120 - 23771897
AUGAGCAUGUUAACAGGCAGACAAUGGCACUCAAAUGCGAGUGUGGUCUGAGCCAUAAGCUCCAUCAUAAUUUUAUUACCCUUCUGUGCAGCGAGGGACCGUUUGAAUGUCGUUUCAAAG
....((.((....)).)).((.(((((((.(((((((.(..((((((..((((.....)))).)))))).........(((((((....)).))))).)))))))).))))))))).... ( -32.90)
>DroSec_CAF1 9791 120 - 1
AUGAGCAUGUUAACAGGCAGACAAUGGCACUCGAAUGCGAGUGUGGUCUGAGCCAUAAGCUCCAUCAUAAUUUUAUUACCCUUCUGUGCAGCGAGGGACCGUUUGAAUGUCGUUUCAAAG
.((((.(((...(((..(((((....(((((((....)))))))((((.((((.....)))).................((((((....)).)))))))))))))..))))))))))... ( -34.70)
>DroSim_CAF1 19033 120 - 1
AUGAGCAUGUUAACAGGCAGACAAUGGCACUCGAAUGCGAGUGUGGUCUGAGCCAUAAGCUCCAUCAUAAUUUUAUUACCCUUCUGUGCAGCGAGGGACCGUUUGAAUGUCGUUUCAAAG
.((((.(((...(((..(((((....(((((((....)))))))((((.((((.....)))).................((((((....)).)))))))))))))..))))))))))... ( -34.70)
>DroEre_CAF1 12606 120 - 1
AUGAGCAUGUUAACAGGCAGACAAUGGCACUCGAAUGCGAGUGUGGUCUGAGCCAUAAGCUCCAUCAUAAUUUUAUUACCCUUCUGUGCAGCGAGGGACCGUUUGAAUGUCGUUUCAAAG
.((((.(((...(((..(((((....(((((((....)))))))((((.((((.....)))).................((((((....)).)))))))))))))..))))))))))... ( -34.70)
>DroYak_CAF1 16031 120 - 1
AUGAGCAUGUUAACAGGCAGACAAUGGCACUCGAAUGCGAGUGUGGUCUGAGCCAUAAGCUCCAUCAUAAUUUUAUUACCCUUCUGUGCAGCGAGGGACCGUUUGAAUGUCGUUUCAAAG
.((((.(((...(((..(((((....(((((((....)))))))((((.((((.....)))).................((((((....)).)))))))))))))..))))))))))... ( -34.70)
>DroAna_CAF1 45741 119 - 1
AUGAGCAUGUUAACAGGCAGACAAUGGCACUCAAAUGCGAGUGUGGUCUGAGCCAUAAGCUUCAUCAUAAUUUUAUUACCCCGCUCUGCAGCGAGGGAGC-UUUGAAUGUCCUUUCAAAG
((((((.((....))(((((((....((((((......)))))).))))..)))....)).)))).............(((((((....)))).)))..(-((((((......))))))) ( -35.00)
>consensus
AUGAGCAUGUUAACAGGCAGACAAUGGCACUCGAAUGCGAGUGUGGUCUGAGCCAUAAGCUCCAUCAUAAUUUUAUUACCCUUCUGUGCAGCGAGGGACCGUUUGAAUGUCGUUUCAAAG
..((((.((....))(((((((....(((((((....))))))).))))..)))....))))................(((((((....)).)))))....((((((......)))))). (-30.75 = -31.28 +   0.53)

alignment

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secondary structure

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dotplot

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Window 9

Location 13,602,912 – 13,603,024
Length 112
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 94.59
Mean single sequence MFE -31.15
Consensus MFE -28.09
Energy contribution -28.54
Covariance contribution 0.44
Combinations/Pair 1.04
Mean z-score -1.35
Structure conservation index 0.90
SVM decision value 0.67
SVM RNA-class probability 0.818958
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13602912 112 + 23771897
GGUAAUAAAAUUAUGAUGGAGCUUAUGGCUCAGACCACACUCGCAUUUGAGUGCCAUUGUCUGCCUGUUAACAUGCUCAUUAUGGCCUCGGAAAGGCAGAAAGAGAGCAUAA--------
(((...............((((.....))))((((..((((((....)))))).....))))))).......((((((......((((.....)))).......))))))..-------- ( -29.72)
>DroSec_CAF1 9831 112 + 1
GGUAAUAAAAUUAUGAUGGAGCUUAUGGCUCAGACCACACUCGCAUUCGAGUGCCAUUGUCUGCCUGUUAACAUGCUCAUUAUGGCCUCGGAAAGGCAGAAAGAGAGCAUAA--------
(((...............((((.....))))((((..((((((....)))))).....))))))).......((((((......((((.....)))).......))))))..-------- ( -31.02)
>DroSim_CAF1 19073 112 + 1
GGUAAUAAAAUUAUGAUGGAGCUUAUGGCUCAGACCACACUCGCAUUCGAGUGCCAUUGUCUGCCUGUUAACAUGCUCAUUAUGGCCUCGGAAAGGCAGAAAGAGAGCAUAA--------
(((...............((((.....))))((((..((((((....)))))).....))))))).......((((((......((((.....)))).......))))))..-------- ( -31.02)
>DroEre_CAF1 12646 112 + 1
GGUAAUAAAAUUAUGAUGGAGCUUAUGGCUCAGACCACACUCGCAUUCGAGUGCCAUUGUCUGCCUGUUAACAUGCUCAUUAUGGCCUCGGAAAGGCAGAAAGAGAGCAUAA--------
(((...............((((.....))))((((..((((((....)))))).....))))))).......((((((......((((.....)))).......))))))..-------- ( -31.02)
>DroYak_CAF1 16071 112 + 1
GGUAAUAAAAUUAUGAUGGAGCUUAUGGCUCAGACCACACUCGCAUUCGAGUGCCAUUGUCUGCCUGUUAACAUGCUCAUUAUGGCCUCGGAAAGGCAGAAAGAGAGCAUAA--------
(((...............((((.....))))((((..((((((....)))))).....))))))).......((((((......((((.....)))).......))))))..-------- ( -31.02)
>DroAna_CAF1 45780 116 + 1
GGUAAUAAAAUUAUGAUGAAGCUUAUGGCUCAGACCACACUCGCAUUUGAGUGCCAUUGUCUGCCUGUUAACAUGCUCAUUAUGGC----GAAAGGCAGAAACAGAGCAAUGGGCCAGAC
....................((((((.((((......((((((....))))))......(((((((.((..((((.....))))..----)).)))))))....)))).))))))..... ( -33.10)
>consensus
GGUAAUAAAAUUAUGAUGGAGCUUAUGGCUCAGACCACACUCGCAUUCGAGUGCCAUUGUCUGCCUGUUAACAUGCUCAUUAUGGCCUCGGAAAGGCAGAAAGAGAGCAUAA________
(((...............((((.....))))((((..((((((....)))))).....))))))).......((((((......((((.....)))).......)))))).......... (-28.09 = -28.54 +   0.44)

alignment

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secondary structure

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dotplot

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Window 0

Location 13,602,912 – 13,603,024
Length 112
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 94.59
Mean single sequence MFE -31.37
Consensus MFE -28.32
Energy contribution -29.32
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.98
Structure conservation index 0.90
SVM decision value 2.07
SVM RNA-class probability 0.987162
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13602912 112 - 23771897
--------UUAUGCUCUCUUUCUGCCUUUCCGAGGCCAUAAUGAGCAUGUUAACAGGCAGACAAUGGCACUCAAAUGCGAGUGUGGUCUGAGCCAUAAGCUCCAUCAUAAUUUUAUUACC
--------.(((((((.......(((((...)))))......)))))))......(((((((....((((((......)))))).)))))(((.....)))))................. ( -30.32)
>DroSec_CAF1 9831 112 - 1
--------UUAUGCUCUCUUUCUGCCUUUCCGAGGCCAUAAUGAGCAUGUUAACAGGCAGACAAUGGCACUCGAAUGCGAGUGUGGUCUGAGCCAUAAGCUCCAUCAUAAUUUUAUUACC
--------.(((((((.......(((((...)))))......)))))))......(((((((....(((((((....))))))).)))))(((.....)))))................. ( -32.32)
>DroSim_CAF1 19073 112 - 1
--------UUAUGCUCUCUUUCUGCCUUUCCGAGGCCAUAAUGAGCAUGUUAACAGGCAGACAAUGGCACUCGAAUGCGAGUGUGGUCUGAGCCAUAAGCUCCAUCAUAAUUUUAUUACC
--------.(((((((.......(((((...)))))......)))))))......(((((((....(((((((....))))))).)))))(((.....)))))................. ( -32.32)
>DroEre_CAF1 12646 112 - 1
--------UUAUGCUCUCUUUCUGCCUUUCCGAGGCCAUAAUGAGCAUGUUAACAGGCAGACAAUGGCACUCGAAUGCGAGUGUGGUCUGAGCCAUAAGCUCCAUCAUAAUUUUAUUACC
--------.(((((((.......(((((...)))))......)))))))......(((((((....(((((((....))))))).)))))(((.....)))))................. ( -32.32)
>DroYak_CAF1 16071 112 - 1
--------UUAUGCUCUCUUUCUGCCUUUCCGAGGCCAUAAUGAGCAUGUUAACAGGCAGACAAUGGCACUCGAAUGCGAGUGUGGUCUGAGCCAUAAGCUCCAUCAUAAUUUUAUUACC
--------.(((((((.......(((((...)))))......)))))))......(((((((....(((((((....))))))).)))))(((.....)))))................. ( -32.32)
>DroAna_CAF1 45780 116 - 1
GUCUGGCCCAUUGCUCUGUUUCUGCCUUUC----GCCAUAAUGAGCAUGUUAACAGGCAGACAAUGGCACUCAAAUGCGAGUGUGGUCUGAGCCAUAAGCUUCAUCAUAAUUUUAUUACC
(((((......(((((.(((...((.....----))...))))))))......)))))((((....((((((......)))))).))))((((.....)))).................. ( -28.60)
>consensus
________UUAUGCUCUCUUUCUGCCUUUCCGAGGCCAUAAUGAGCAUGUUAACAGGCAGACAAUGGCACUCGAAUGCGAGUGUGGUCUGAGCCAUAAGCUCCAUCAUAAUUUUAUUACC
.........(((((((.......((((.....))))......)))))))......(((((((....(((((((....))))))).))))..))).......................... (-28.32 = -29.32 +   1.00)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:36 2006