Locus 2693

Sequence ID X_DroMel_CAF1
Location 7,219,548 – 7,219,686
Length 138
Max. P 0.860144
window4410 window4411

overview

Window 0

Location 7,219,548 – 7,219,657
Length 109
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 81.28
Mean single sequence MFE -20.50
Consensus MFE -10.62
Energy contribution -12.06
Covariance contribution 1.44
Combinations/Pair 1.16
Mean z-score -2.16
Structure conservation index 0.52
SVM decision value 0.32
SVM RNA-class probability 0.688955
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7219548 109 + 22224390
CUUUGCCUCAACAGGAGCGCAACAAAUUAAAUGUCAAACGACAAGGGGUCC--AGGACAAAUAAAAAAUAAAUAACGAAAAAUUCUCACUUCGGAAACGAAAGAAGGGCUC-
..(((((((.....))).)))).........((((....))))..((((((--.......................((.......))..((((....))))....))))))- ( -22.70)
>DroPse_CAF1 38214 109 + 1
UUUCUGCCCCACAGAAGCGCAACAAAUUAAAUGUCAAACUACAACGGAACCC--CC-CCAAAAAAAAAGAAAUAAAGAAAAGUUCUCACUUUCACAAUGGUAGCAGAGCCAG
.((((((.(((..................................((.....--..-)).........((((...(((.....)))...))))....)))..)))))).... ( -12.20)
>DroSec_CAF1 27275 100 + 1
CUUUGCCUCAA-----------CAAAUUAAAUGUCAAACGACAAGGGGUCCACAGGACAAAUAAAAAAUAAAUAACGAAAAAUUCUCACUUCGGAAACGAAAGAAGGGCUC-
....((((...-----------.........((((....))))....((((...))))........................((((...((((....))))))))))))..- ( -19.30)
>DroSim_CAF1 27643 111 + 1
CUUUGCCUCAACAGGAGCGCAACAAAUUAAAUGUCAAACGACAAGGGGUCCACAGGACAAAUAAAAAAUAAAUAACGAAAAAUUCUCACUUCGGAAACGAAAGAAGGGCUC-
..(((((((.....))).)))).........((((....))))..((((((.........................((.......))..((((....))))....))))))- ( -22.70)
>DroEre_CAF1 29240 108 + 1
CU-UGCCCCAAAAGGAGAGCAACAAAUUAAAUGUCAAACGACAAGGGGUCCA-AGGACAAAUAAAAAAUAAAUAACGCA-CAUUCUCACUUCGGAAACGAAAGAAGGGCUC-
..-.((((......((((((...........((((....))))....(((..-..)))..................)).-...))))..((((....))))....))))..- ( -25.60)
>consensus
CUUUGCCUCAACAGGAGCGCAACAAAUUAAAUGUCAAACGACAAGGGGUCCA_AGGACAAAUAAAAAAUAAAUAACGAAAAAUUCUCACUUCGGAAACGAAAGAAGGGCUC_
....((((.......................((((....))))....(((.....)))........................((((...((((....))))))))))))... (-10.62 = -12.06 +   1.44)

alignment

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secondary structure

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dotplot

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Window 1

Location 7,219,587 – 7,219,686
Length 99
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 79.91
Mean single sequence MFE -23.86
Consensus MFE -12.36
Energy contribution -12.92
Covariance contribution 0.56
Combinations/Pair 1.24
Mean z-score -2.26
Structure conservation index 0.52
SVM decision value 0.82
SVM RNA-class probability 0.860144
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7219587 99 + 22224390
GACAAGGGGUCC--AGGACAAAUAAAAAAUAAAUAACGAAAAAUUCUCACUUCGGAAACGAAAGAAGGGCUC-----CUGU-------CGUCUUUUCUUCGCCUUGUAUUAAA
.((((((.(...--(((((........................((((...((((....)))))))).(((..-----..))-------)))))).....).))))))...... ( -23.70)
>DroPse_CAF1 38253 105 + 1
UACAACGGAACCC--CC-CCAAAAAAAAAGAAAUAAAGAAAAGUUCUCACUUUCACAAUGGUAGCAGAGCCAGGAUAUUGGGGGAGCCAGACUUUU-----UCUUGUAUUAAA
((((..((....(--((-((((.......((((...(((.....)))...))))....((((......)))).....)))))))..))(((.....-----)))))))..... ( -21.70)
>DroSec_CAF1 27303 101 + 1
GACAAGGGGUCCACAGGACAAAUAAAAAAUAAAUAACGAAAAAUUCUCACUUCGGAAACGAAAGAAGGGCUC-----CUGU-------CGUCUUUUCUUCGCCUUGUAUUAAA
.((((((.((((...)))).................((((..........((((....)))).(((((((..-----....-------.))))))).))))))))))...... ( -24.60)
>DroSim_CAF1 27682 101 + 1
GACAAGGGGUCCACAGGACAAAUAAAAAAUAAAUAACGAAAAAUUCUCACUUCGGAAACGAAAGAAGGGCUC-----CUGU-------CGUCUUUUCUUCGCCUUGUAUUAAA
.((((((.((((...)))).................((((..........((((....)))).(((((((..-----....-------.))))))).))))))))))...... ( -24.60)
>DroEre_CAF1 29278 99 + 1
GACAAGGGGUCCA-AGGACAAAUAAAAAAUAAAUAACGCA-CAUUCUCACUUCGGAAACGAAAGAAGGGCUC-----CUGU-------CGCCUUUUCUUCGCCUUGUAUUAAA
.((((((.(((..-..))).....................-........(....)...((((..((((((..-----....-------.))))))..))))))))))...... ( -24.70)
>consensus
GACAAGGGGUCCA_AGGACAAAUAAAAAAUAAAUAACGAAAAAUUCUCACUUCGGAAACGAAAGAAGGGCUC_____CUGU_______CGUCUUUUCUUCGCCUUGUAUUAAA
.((((((.(((.....)))........................((((...((((....))))...))))................................))))))...... (-12.36 = -12.92 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:07 2006