Locus 8153

Sequence ID	3L_DroMel_CAF1
Location	21,496,928 – 21,497,045
Length	117
Max. P	0.747129

overview

Window 9

Location	21,496,928 – 21,497,045
Length	117
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	84.16
Mean single sequence MFE	-24.80
Consensus MFE	-15.75
Energy contribution	-16.75
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-2.29
Structure conservation index	0.63
SVM decision value	0.23
SVM RNA-class probability	0.644918
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21496928 117 + 23771897
AAAUUAUCAACUCGGGGAGAAGGUGAAAGACAACACCUAACCCCCCCCCCCCCCCACAAAGGUUUUAUUACCUCGCAUAGGCAGGCACUUUAAAAUAA---AAGAAGCCUGAAUAAAACA
.............((((...(((((........)))))...))))................((((((((.(((.....)))(((((.((((......)---)))..))))))))))))). ( -29.00)
>DroSec_CAF1 2291 101 + 1
AAAUUAUCAACUCGGGGAGAAGGUGAAGGAC-------------------UCCCCCCAAAGGUUUCAUUACCUCGCAUAGGCAGGCACUUUAAAAUAAUUUAAGAAGCCUGAAUUAAACA
......((.....((((((...........)-------------------)))))....(((((((....(((.((....)))))....(((((....))))))))))))))........ ( -22.70)
>DroSim_CAF1 2154 101 + 1
AAAUUAUCAACUCGGGGAGAAGGUGAAGGAC-------------------UCCCCCCAAAGGUUUCAUUACCUCGCAUAGGCAGGCACUUUAAAAUAAUUUAAGAAGCCUGAAUUAAACA
......((.....((((((...........)-------------------)))))....(((((((....(((.((....)))))....(((((....))))))))))))))........ ( -22.70)
>consensus
AAAUUAUCAACUCGGGGAGAAGGUGAAGGAC___________________UCCCCCCAAAGGUUUCAUUACCUCGCAUAGGCAGGCACUUUAAAAUAAUUUAAGAAGCCUGAAUUAAACA
.............((((..................................))))....((((......))))........(((((..((((((....))))))..)))))......... (-15.75 = -16.75 +   1.00)

alignment

secondary structure

dotplot

Window 0

Location	21,496,928 – 21,497,045
Length	117
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	84.16
Mean single sequence MFE	-31.90
Consensus MFE	-19.96
Energy contribution	-20.41
Covariance contribution	0.45
Combinations/Pair	1.04
Mean z-score	-2.57
Structure conservation index	0.63
SVM decision value	0.47
SVM RNA-class probability	0.747129
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21496928 117 - 23771897
UGUUUUAUUCAGGCUUCUU---UUAUUUUAAAGUGCCUGCCUAUGCGAGGUAAUAAAACCUUUGUGGGGGGGGGGGGGGGUUAGGUGUUGUCUUUCACCUUCUCCCCGAGUUGAUAAUUU
((((..((((((((..(((---(......)))).)))).((((((.(((((......))))))))))).((((((((((...(((......)))...)))))))))))))).)))).... ( -40.30)
>DroSec_CAF1 2291 101 - 1
UGUUUAAUUCAGGCUUCUUAAAUUAUUUUAAAGUGCCUGCCUAUGCGAGGUAAUGAAACCUUUGGGGGGA-------------------GUCCUUCACCUUCUCCCCGAGUUGAUAAUUU
...(((((((((((...(((((....)))))...))))........(((((......))))).(((((((-------------------(.........)))))))))))))))...... ( -27.70)
>DroSim_CAF1 2154 101 - 1
UGUUUAAUUCAGGCUUCUUAAAUUAUUUUAAAGUGCCUGCCUAUGCGAGGUAAUGAAACCUUUGGGGGGA-------------------GUCCUUCACCUUCUCCCCGAGUUGAUAAUUU
...(((((((((((...(((((....)))))...))))........(((((......))))).(((((((-------------------(.........)))))))))))))))...... ( -27.70)
>consensus
UGUUUAAUUCAGGCUUCUUAAAUUAUUUUAAAGUGCCUGCCUAUGCGAGGUAAUGAAACCUUUGGGGGGA___________________GUCCUUCACCUUCUCCCCGAGUUGAUAAUUU
...(((((((((((..(((...........))).))))........(((((......))))).(((((((..............................))))))))))))))...... (-19.96 = -20.41 +   0.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:40 2006