Locus 6558

Sequence ID 2L_DroMel_CAF1
Location 18,453,833 – 18,453,939
Length 106
Max. P 0.904805
window10460 window10461

overview

Window 0

Location 18,453,833 – 18,453,939
Length 106
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 90.09
Mean single sequence MFE -33.59
Consensus MFE -29.04
Energy contribution -28.76
Covariance contribution -0.28
Combinations/Pair 1.19
Mean z-score -1.54
Structure conservation index 0.86
SVM decision value 0.81
SVM RNA-class probability 0.855773
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18453833 106 + 22407834
UUUAAAGUAGAAUGGGCAGUGCAAUUAUUAAAUUCUCUGCGAACCGCAGAGA------AUUGCACUUGGUGGUUGUCGUUCUCUGGGCCGCUGGCUUGAGUUGUGUAUCUAC
......(((((.((.((((.(((((((((((((((((((((...))))))))------)).....)))))))))))....(((.(((((...)))))))))))).))))))) ( -34.40)
>DroSec_CAF1 8305 112 + 1
UUUAAAGUAGAAUGGGCAGUGCAAUUAUUAAAUUCUCUGCGAACCGCAGAGGCAUUCCAUUGCACUUGGUGGUUGUCGUUCUCUGGGCCGCUGGCUUGAGUUGUGUAUCUAC
......(((((.((.((((.(((((((((((...(((((((...)))))))(((......)))..)))))))))))....(((.(((((...)))))))))))).))))))) ( -35.10)
>DroSim_CAF1 8335 111 + 1
UUUAAAGUAGAAUGGGCAGUGCAAUUAUUAAAUUCUCUGCGAACCGCAGAGGCAUUCCAUUGCACUUGGUGAUUGUCGUUCUCUG-GCCGCUGGCUUGAGUUGUGUAUCUAC
......(((((.((.((((.(((((((((((...(((((((...)))))))(((......)))..)))))))))))....(((.(-(((...)))).))))))).))))))) ( -36.40)
>DroEre_CAF1 7752 112 + 1
UUUAAAGUGGAGUGGGCAGUGCAAUUAUUAAAUUCUCUGCGAACCCCAGUGGCAUUCCAUUGCACUUGGUGGUUGUCCCUCUCUCGGCCAUUGGCUCAUGUUGUGUAUCUAC
......((((((.((((((.(.((((....))))).)))).((((((((..(((......)))..)))).))))...)).)))..((((...)))))))............. ( -28.10)
>DroYak_CAF1 7863 112 + 1
UUUAAAGUAGAAUGGGCAGUGCAAUUAUUAAAUUCUCUGCGAACGGCAGGGGCAUUCCAUUGCACUUGGUGGUUGUCCCUCUCUCGGCCAUUUGCUCAUGUUGUGUAUCUAC
......(((((((((((((((((((........(((((((.....)))))))......)))))))..((((((((.........)))))))))))))))........))))) ( -33.94)
>consensus
UUUAAAGUAGAAUGGGCAGUGCAAUUAUUAAAUUCUCUGCGAACCGCAGAGGCAUUCCAUUGCACUUGGUGGUUGUCGUUCUCUGGGCCGCUGGCUUGAGUUGUGUAUCUAC
......((((.(((.((((((((((........(((((((.....)))))))......)))))))(..((((((...........))))))..).......))).))))))) (-29.04 = -28.76 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 18,453,833 – 18,453,939
Length 106
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 90.09
Mean single sequence MFE -29.32
Consensus MFE -22.38
Energy contribution -24.14
Covariance contribution 1.76
Combinations/Pair 1.04
Mean z-score -2.16
Structure conservation index 0.76
SVM decision value 1.04
SVM RNA-class probability 0.904805
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18453833 106 - 22407834
GUAGAUACACAACUCAAGCCAGCGGCCCAGAGAACGACAACCACCAAGUGCAAU------UCUCUGCGGUUCGCAGAGAAUUUAAUAAUUGCACUGCCCAUUCUACUUUAAA
(((((.......(((..(((...)))...)))..............((((((((------((((((((...))))))))........))))))))......)))))...... ( -29.60)
>DroSec_CAF1 8305 112 - 1
GUAGAUACACAACUCAAGCCAGCGGCCCAGAGAACGACAACCACCAAGUGCAAUGGAAUGCCUCUGCGGUUCGCAGAGAAUUUAAUAAUUGCACUGCCCAUUCUACUUUAAA
(((((.......(((..(((...)))...)))..............((((((((.((((..(((((((...))))))).))))....))))))))......)))))...... ( -32.30)
>DroSim_CAF1 8335 111 - 1
GUAGAUACACAACUCAAGCCAGCGGC-CAGAGAACGACAAUCACCAAGUGCAAUGGAAUGCCUCUGCGGUUCGCAGAGAAUUUAAUAAUUGCACUGCCCAUUCUACUUUAAA
(((((.......(((..(((...)))-..)))..............((((((((.((((..(((((((...))))))).))))....))))))))......)))))...... ( -33.40)
>DroEre_CAF1 7752 112 - 1
GUAGAUACACAACAUGAGCCAAUGGCCGAGAGAGGGACAACCACCAAGUGCAAUGGAAUGCCACUGGGGUUCGCAGAGAAUUUAAUAAUUGCACUGCCCACUCCACUUUAAA
...............(.(((...))))(.(((.(((..........((((((((((....))....((((((.....))))))....)))))))).))).))))........ ( -23.70)
>DroYak_CAF1 7863 112 - 1
GUAGAUACACAACAUGAGCAAAUGGCCGAGAGAGGGACAACCACCAAGUGCAAUGGAAUGCCCCUGCCGUUCGCAGAGAAUUUAAUAAUUGCACUGCCCAUUCUACUUUAAA
(((((........(((.((...(((.(....).((.....)).)))((((((((.((((..(.((((.....)))).).))))....)))))))))).))))))))...... ( -27.60)
>consensus
GUAGAUACACAACUCAAGCCAGCGGCCCAGAGAACGACAACCACCAAGUGCAAUGGAAUGCCUCUGCGGUUCGCAGAGAAUUUAAUAAUUGCACUGCCCAUUCUACUUUAAA
(((((.......(((..((.....))...)))..............((((((((.((((..((((((.....)))))).))))....))))))))......)))))...... (-22.38 = -24.14 +   1.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:07 2006