Locus 3776

Sequence ID	X_DroMel_CAF1
Location	10,007,376 – 10,007,485
Length	109
Max. P	0.781932

overview

Window 2

Location	10,007,376 – 10,007,485
Length	109
Sequences	4
Columns	109
Reading direction	forward
Mean pairwise identity	92.97
Mean single sequence MFE	-27.12
Consensus MFE	-25.54
Energy contribution	-25.97
Covariance contribution	0.44
Combinations/Pair	1.14
Mean z-score	-1.53
Structure conservation index	0.94
SVM decision value	0.56
SVM RNA-class probability	0.781932
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10007376 109 + 22224390
ACAGGAGUAAUUUCAAAUGCCGGAGGCCAGAGGAGAAAUAAAAAGGAGCUUGUGCUCAGCCUUUUCGGCAUUUUAUGAAUUAUUUCGUAGCUCAUUAACGAAAACACGU
...((((((((((.(((((((((((((......(....)......((((....)))).)))))..))))))))...))))))))))...........(((......))) ( -29.60)
>DroSec_CAF1 12815 109 + 1
ACAGGAGUAAUUUCAAAUGCCGGAGGCCAGAGGAGAAAUUAAAAGGAGCUUUUGCUCAGCCUUUUCGGCAUUUUAUGAAUUAUUUCGUAGCUCAUUAAUGAAAACACGU
...((((((((((.(((((((((((((.....((....)).....((((....)))).)))))..))))))))...))))))))))....................... ( -30.80)
>DroEre_CAF1 13398 109 + 1
ACAGGAAUAUUUUCAAAUGCCGCAGGCCAGAGGCGAAAUUAAAAGGGGCUUGUGCUCAGCCUUUUCGGCUUUUUAUGAAUUAUUUCGUAGCUCAUUAACAAAAACACGU
....(((....))).((((..(((((((((((((...........((((....)))).))))))..)))))..((((((....)))))))).))))............. ( -23.60)
>DroYak_CAF1 10104 109 + 1
ACAGAAAUAUUUUCAAAUGCCGCAGGCCAGACGAGAAAUAAAAAGGAGCUGGUGCUCAGCCUUUUUGGCAUUUUAUGAAUUAUUUCGUAGCUCAUUAACGAAAACACGU
...((((((..(((((((((((.((((......(....)......((((....)))).))))...)))))))...)))).))))))...........(((......))) ( -24.50)
>consensus
ACAGGAAUAAUUUCAAAUGCCGCAGGCCAGAGGAGAAAUAAAAAGGAGCUUGUGCUCAGCCUUUUCGGCAUUUUAUGAAUUAUUUCGUAGCUCAUUAACGAAAACACGU
...((((((((((.((((((((((((((......)..........((((....)))).)))))..))))))))...))))))))))....................... (-25.54 = -25.97 +   0.44)

alignment

secondary structure

dotplot

Window 3

Location	10,007,376 – 10,007,485
Length	109
Sequences	4
Columns	109
Reading direction	reverse
Mean pairwise identity	92.97
Mean single sequence MFE	-24.02
Consensus MFE	-23.33
Energy contribution	-24.14
Covariance contribution	0.81
Combinations/Pair	1.06
Mean z-score	-1.23
Structure conservation index	0.97
SVM decision value	-0.04
SVM RNA-class probability	0.511443
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10007376 109 - 22224390
ACGUGUUUUCGUUAAUGAGCUACGAAAUAAUUCAUAAAAUGCCGAAAAGGCUGAGCACAAGCUCCUUUUUAUUUCUCCUCUGGCCUCCGGCAUUUGAAAUUACUCCUGU
..(((.((((....(((((.((.....)).))))).((((((((...(((((((((....)))).................))))).)))))))))))).)))...... ( -25.02)
>DroSec_CAF1 12815 109 - 1
ACGUGUUUUCAUUAAUGAGCUACGAAAUAAUUCAUAAAAUGCCGAAAAGGCUGAGCAAAAGCUCCUUUUAAUUUCUCCUCUGGCCUCCGGCAUUUGAAAUUACUCCUGU
..(((.((((....(((((.((.....)).))))).((((((((...(((((((((....)))).................))))).)))))))))))).)))...... ( -25.02)
>DroEre_CAF1 13398 109 - 1
ACGUGUUUUUGUUAAUGAGCUACGAAAUAAUUCAUAAAAAGCCGAAAAGGCUGAGCACAAGCCCCUUUUAAUUUCGCCUCUGGCCUGCGGCAUUUGAAAAUAUUCCUGU
.(((((((........)))).)))......((((......((((...(((((((((...................).))).))))).))))...))))........... ( -21.01)
>DroYak_CAF1 10104 109 - 1
ACGUGUUUUCGUUAAUGAGCUACGAAAUAAUUCAUAAAAUGCCAAAAAGGCUGAGCACCAGCUCCUUUUUAUUUCUCGUCUGGCCUGCGGCAUUUGAAAAUAUUUCUGU
..((((((((....(((((.((.....)).))))).(((((((....(((((((((....)))).................)))))..)))))))))))))))...... ( -25.02)
>consensus
ACGUGUUUUCGUUAAUGAGCUACGAAAUAAUUCAUAAAAUGCCGAAAAGGCUGAGCACAAGCUCCUUUUAAUUUCUCCUCUGGCCUCCGGCAUUUGAAAAUACUCCUGU
..((((((((....(((((.((.....)).))))).((((((((...(((((((((....)))).................))))).))))))))))))))))...... (-23.33 = -24.14 +   0.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:11 2006