Locus 3231

Sequence ID X_DroMel_CAF1
Location 8,548,373 – 8,548,533
Length 160
Max. P 0.928588
window5305 window5306

overview

Window 5

Location 8,548,373 – 8,548,493
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.50
Mean single sequence MFE -32.28
Consensus MFE -24.50
Energy contribution -25.26
Covariance contribution 0.76
Combinations/Pair 1.13
Mean z-score -2.30
Structure conservation index 0.76
SVM decision value 1.19
SVM RNA-class probability 0.928588
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8548373 120 - 22224390
CGCUGUUCAUUGUCUCGAGUCGAAAAACUUGGGAUAAAAGGAGACGAACAUUUCUGGGUGAUGGUGAGCGGGCAAAAGAGUCCAGAGAUUCAAAUGGAAAACUGGGAAAGCGGGGAUUUC
((((((((.(((((((((((......)))))))))))..(....))))))(((((.(((..........((((......)))).....(((.....))).))).))))))))........ ( -35.10)
>DroSec_CAF1 9304 114 - 1
------UCAUUGUCUCGAGUCGAAAAACUUGGGAUAAAAGGAGAAAAAGAUUUCUGGGAGAUGGUGAGCGGGCAAAAGAAUCCAGAGAUUCAAAUGGAAAACCGGGAAAGCGGAGAUUUC
------...(((((((((((......))))))))))).....((((..((((((((((...(..((......))..)...))))))))))...........(((......)))...)))) ( -26.20)
>DroSim_CAF1 12163 120 - 1
CGCUGUUCAUUGUCUCGAGUCGAAAAACUUGGGAUAAAAGGAGAACAGGAUUUCUGGGAGAUGGUGAGCGGGCAAAAGAAUCCACAGAUUCAAAUGGGAAACUGGGAAAGCGGAGAUUUC
((((((((((..((((((((......)))).........(((((......)))))..))))..))))))...........(((.(((.(((......))).)))))).))))........ ( -33.20)
>DroEre_CAF1 9849 120 - 1
CGCUGUUCAUUGUCUCGAGUCGAAAAACUUGGGAUAAAAGGAGCAGAACAUUUCUGGGAGAUGGUGAGCAGGCAAAAGAAUCCAGAGAUUCAAAUGGAAAACUGGGAGUGCAGGGAUUUG
.(((((((((..((((((((......)))).............((((.....)))).))))..))))))).))....((((((.....(((.....)))..(((......))))))))). ( -33.30)
>DroYak_CAF1 10956 120 - 1
CGCUGUUCAUUGUCUCGAGUCGAAAAACUUGGGAUAAAAGGAGAGGAAAAUUUCUGGAAGAUGGUGAGCAGGCAAAAGAAUGCCGCGCUUCAAAUGGAAAACUGGAAAAGCGGGGAUUUC
.(((((((((((((((((((......))))))))))...(((((......)))))........))))))).))....((((.((.(((((....(((....)))...))))))).)))). ( -33.60)
>consensus
CGCUGUUCAUUGUCUCGAGUCGAAAAACUUGGGAUAAAAGGAGAAGAACAUUUCUGGGAGAUGGUGAGCGGGCAAAAGAAUCCAGAGAUUCAAAUGGAAAACUGGGAAAGCGGGGAUUUC
..((((((((((((((((((......))))))))))...(((((......)))))........))))))))......(((((....)))))..........(((......)))....... (-24.50 = -25.26 +   0.76)

alignment

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secondary structure

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dotplot

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Window 6

Location 8,548,413 – 8,548,533
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.00
Mean single sequence MFE -30.24
Consensus MFE -24.14
Energy contribution -24.42
Covariance contribution 0.28
Combinations/Pair 1.04
Mean z-score -1.62
Structure conservation index 0.80
SVM decision value 0.49
SVM RNA-class probability 0.755508
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8548413 120 - 22224390
UUUAUGGUCUCAACUCGCGGUAAACAAUGAAAAAUUCUGUCGCUGUUCAUUGUCUCGAGUCGAAAAACUUGGGAUAAAAGGAGACGAACAUUUCUGGGUGAUGGUGAGCGGGCAAAAGAG
......((((...(((((.((...(...((((..(((.(((.((.....(((((((((((......)))))))))))..)).))))))..))))..)...)).))))).))))....... ( -31.70)
>DroSec_CAF1 9344 109 - 1
UUUAUGGUCUCAACUCGCGGUAAACAAUGAAAAAU-----------UCAUUGUCUCGAGUCGAAAAACUUGGGAUAAAAGGAGAAAAAGAUUUCUGGGAGAUGGUGAGCGGGCAAAAGAA
......((((...(((((.((...(..........-----------...(((((((((((......)))))))))))..(((((......))))).)...)).))))).))))....... ( -25.30)
>DroSim_CAF1 12203 120 - 1
UUUAUGGUCUCAACUCGCGGUAAACAAUGAAAAAUUCUGUCGCUGUUCAUUGUCUCGAGUCGAAAAACUUGGGAUAAAAGGAGAACAGGAUUUCUGGGAGAUGGUGAGCGGGCAAAAGAA
......((((...(((((.((...(...(((..(((((((..((.((..(((((((((((......))))))))))).)).)).))))))))))..)...)).))))).))))....... ( -32.20)
>DroEre_CAF1 9889 120 - 1
UUUAUGGUCUCAACUCGCGGUAAACAAUGAAAAAUUCUGUCGCUGUUCAUUGUCUCGAGUCGAAAAACUUGGGAUAAAAGGAGCAGAACAUUUCUGGGAGAUGGUGAGCAGGCAAAAGAA
......((((...(((((.((...(...((((.....(((..((((((.(((((((((((......)))))))))))...)))))).)))))))..)...)).))))).))))....... ( -33.80)
>DroYak_CAF1 10996 120 - 1
UUUAUGGUCCCAACUCGCGGUAAACAAUGAAAAAUUCUGUCGCUGUUCAUUGUCUCGAGUCGAAAAACUUGGGAUAAAAGGAGAGGAAAAUUUCUGGAAGAUGGUGAGCAGGCAAAAGAA
.........((..(((((.((...(...((((..((((.((.((.....(((((((((((......))))))))))).)))).))))...))))..)...)).)))))..))........ ( -28.20)
>consensus
UUUAUGGUCUCAACUCGCGGUAAACAAUGAAAAAUUCUGUCGCUGUUCAUUGUCUCGAGUCGAAAAACUUGGGAUAAAAGGAGAAGAACAUUUCUGGGAGAUGGUGAGCGGGCAAAAGAA
......((((...(((((.((...(........................(((((((((((......)))))))))))..(((((......))))).)...)).))))).))))....... (-24.14 = -24.42 +   0.28)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:27 2006