Locus 8073

Sequence ID	3R_DroMel_CAF1
Location	21,675,206 – 21,675,344
Length	138
Max. P	0.999740

overview

Window 5

Location	21,675,206 – 21,675,311
Length	105
Sequences	5
Columns	105
Reading direction	forward
Mean pairwise identity	94.86
Mean single sequence MFE	-29.90
Consensus MFE	-26.14
Energy contribution	-26.14
Covariance contribution	0.00
Combinations/Pair	1.07
Mean z-score	-2.34
Structure conservation index	0.87
SVM decision value	2.99
SVM RNA-class probability	0.998032
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21675206 105 + 27905053
ACUGUGACAAAUAUACGGUGUAAAUCAUUGAGCUGCCUGCUUCUACAGGCUGCUCCACACGUGUUAAAUUUAACGCAAGAAAAGGUGCAUUAAAUAUGCAAGAGU
..((((..........(((....)))...((((.(((((......))))).)))))))).((((((....)))))).........(((((.....)))))..... ( -28.30)
>DroSec_CAF1 155193 105 + 1
ACUGUGACAAAUAUGCGGUGUAAAUCAUUGAGCUGCCUGCUUCUACAGGCUGCCCCACACGUGUUAAAUUUAACGCAAGAAAAGGUGCAUUAAAUAUGCAAGAGU
..((((.........(((((.....))))).((.(((((......))))).))..)))).((((((....)))))).........(((((.....)))))..... ( -25.90)
>DroSim_CAF1 160469 105 + 1
ACUGUGACAAAUAUGCGGUGUAAAUCAUUGAGCUGCCUGCUUCUACAGGCUGCCCCACACGUGUUAAAUUUAACGCAAGAAAAGGUGCAUUAAAUAUGCAAGAUU
..((((.........(((((.....))))).((.(((((......))))).))..)))).((((((....)))))).........(((((.....)))))..... ( -25.90)
>DroEre_CAF1 152253 105 + 1
ACUGUGACAAAUAUAUGGUGUAAAUCAUUGAGCUGCCUGCUUCUACAGGCAGCUCCACACGUGUUGAAUUUAACGCAGGAAAAGGUGCAUUAAAUAUGCAGGAGU
.((((.....((((.(((((((.......((((((((((......)))))))))).....((((((....)))))).........))))))).)))))))).... ( -33.90)
>DroYak_CAF1 153268 105 + 1
ACUGUGACAAAUAUACGGUGUAAAUCAUUGAGCUGCCUGCCUCUACAGGCAGCUCCACACGUGUUGAAUUUGACGCAAGAAAAGGUGCAUUAAAUAUGCAGGCGU
..((((.(((((((((((((.........((((((((((......))))))))))))).)))))...))))).))))........(((((.....)))))..... ( -35.50)
>consensus
ACUGUGACAAAUAUACGGUGUAAAUCAUUGAGCUGCCUGCUUCUACAGGCUGCUCCACACGUGUUAAAUUUAACGCAAGAAAAGGUGCAUUAAAUAUGCAAGAGU
..((((..........(((....)))...((((.(((((......))))).)))))))).((((((....)))))).........(((((.....)))))..... (-26.14 = -26.14 +   0.00)

alignment

secondary structure

dotplot

Window 6

Location	21,675,206 – 21,675,311
Length	105
Sequences	5
Columns	105
Reading direction	reverse
Mean pairwise identity	94.86
Mean single sequence MFE	-30.38
Consensus MFE	-26.95
Energy contribution	-26.87
Covariance contribution	-0.08
Combinations/Pair	1.07
Mean z-score	-2.83
Structure conservation index	0.89
SVM decision value	3.98
SVM RNA-class probability	0.999740
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21675206 105 - 27905053
ACUCUUGCAUAUUUAAUGCACCUUUUCUUGCGUUAAAUUUAACACGUGUGGAGCAGCCUGUAGAAGCAGGCAGCUCAAUGAUUUACACCGUAUAUUUGUCACAGU
(((.(.(((.((((((((((........)))))))))).....(((.(((((((.((((((....)))))).))))((....)).)))))).....))).).))) ( -28.30)
>DroSec_CAF1 155193 105 - 1
ACUCUUGCAUAUUUAAUGCACCUUUUCUUGCGUUAAAUUUAACACGUGUGGGGCAGCCUGUAGAAGCAGGCAGCUCAAUGAUUUACACCGCAUAUUUGUCACAGU
.....(((..((((((((((........)))))))))).......(((((((((.((((((....)))))).)))).......))))).)))............. ( -28.71)
>DroSim_CAF1 160469 105 - 1
AAUCUUGCAUAUUUAAUGCACCUUUUCUUGCGUUAAAUUUAACACGUGUGGGGCAGCCUGUAGAAGCAGGCAGCUCAAUGAUUUACACCGCAUAUUUGUCACAGU
.....(((..((((((((((........)))))))))).......(((((((((.((((((....)))))).)))).......))))).)))............. ( -28.71)
>DroEre_CAF1 152253 105 - 1
ACUCCUGCAUAUUUAAUGCACCUUUUCCUGCGUUAAAUUCAACACGUGUGGAGCUGCCUGUAGAAGCAGGCAGCUCAAUGAUUUACACCAUAUAUUUGUCACAGU
..........((((((((((........))))))))))........(((((((((((((((....))))))))))).(((........)))........)))).. ( -33.20)
>DroYak_CAF1 153268 105 - 1
ACGCCUGCAUAUUUAAUGCACCUUUUCUUGCGUCAAAUUCAACACGUGUGGAGCUGCCUGUAGAGGCAGGCAGCUCAAUGAUUUACACCGUAUAUUUGUCACAGU
.....(((((.....))))).......(((.(.(((((.....(((.((((((((((((((....)))))))))))((....)).))))))..))))).).))). ( -33.00)
>consensus
ACUCUUGCAUAUUUAAUGCACCUUUUCUUGCGUUAAAUUUAACACGUGUGGAGCAGCCUGUAGAAGCAGGCAGCUCAAUGAUUUACACCGUAUAUUUGUCACAGU
.....(((..((((((((((........)))))))))).......(((((((((.((((((....)))))).)))).......))))).)))............. (-26.95 = -26.87 +  -0.08)

alignment

secondary structure

dotplot

Window 7

Location	21,675,236 – 21,675,344
Length	108
Sequences	5
Columns	108
Reading direction	forward
Mean pairwise identity	95.00
Mean single sequence MFE	-30.54
Consensus MFE	-25.50
Energy contribution	-25.30
Covariance contribution	-0.20
Combinations/Pair	1.08
Mean z-score	-2.31
Structure conservation index	0.83
SVM decision value	2.15
SVM RNA-class probability	0.989116
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21675236 108 + 27905053
AGCUGCCUGCUUCUACAGGCUGCUCCACACGUGUUAAAUUUAACGCAAGAAAAGGUGCAUUAAAUAUGCAAGAGUGCAGCAUAAAAACGAAAGUAUUAUUGGCUUUGU
(((((((((......)))))((((.(((..((((((....)))))).........(((((.....)))))...))).)))).....((....))......)))).... ( -30.40)
>DroSec_CAF1 155223 108 + 1
AGCUGCCUGCUUCUACAGGCUGCCCCACACGUGUUAAAUUUAACGCAAGAAAAGGUGCAUUAAAUAUGCAAGAGUGCAGCAUAAAAACGAAAGUAUUAUUGGCUUUGU
(((((((((......)))))(((..(((..((((((....)))))).........(((((.....)))))...)))..))).....((....))......)))).... ( -28.40)
>DroSim_CAF1 160499 108 + 1
AGCUGCCUGCUUCUACAGGCUGCCCCACACGUGUUAAAUUUAACGCAAGAAAAGGUGCAUUAAAUAUGCAAGAUUGCAGCAUAAAAACGAAAGUAUUAUUGGCUUUGU
....(((...........(((((.......((((((....)))))).........(((((.....))))).....)))))......((....))......)))..... ( -25.10)
>DroEre_CAF1 152283 108 + 1
AGCUGCCUGCUUCUACAGGCAGCUCCACACGUGUUGAAUUUAACGCAGGAAAAGGUGCAUUAAAUAUGCAGGAGUGCAGGAUAAAAACGAAAGUAUUAUUGGCUUUGU
.((((((((......))))))))(((....((((((....)))))).........(((((.....))))))))..((..(((((..((....)).))))).))..... ( -33.60)
>DroYak_CAF1 153298 108 + 1
AGCUGCCUGCCUCUACAGGCAGCUCCACACGUGUUGAAUUUGACGCAAGAAAAGGUGCAUUAAAUAUGCAGGCGUGCAGGAUAAAAACGAAAGUUUUAUUGGCUUUGU
.((((((((......))))))))(((.(((((...........(....)......(((((.....))))).)))))..)))..(((((....)))))........... ( -35.20)
>consensus
AGCUGCCUGCUUCUACAGGCUGCUCCACACGUGUUAAAUUUAACGCAAGAAAAGGUGCAUUAAAUAUGCAAGAGUGCAGCAUAAAAACGAAAGUAUUAUUGGCUUUGU
.((.(((((......))))).)).((((((((((((....)))))).........(((((.....)))))...)))..........((....)).....)))...... (-25.50 = -25.30 +  -0.20)

alignment

secondary structure

dotplot

Window 8

Location	21,675,236 – 21,675,344
Length	108
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	95.00
Mean single sequence MFE	-31.66
Consensus MFE	-27.04
Energy contribution	-28.00
Covariance contribution	0.96
Combinations/Pair	1.03
Mean z-score	-3.23
Structure conservation index	0.85
SVM decision value	3.60
SVM RNA-class probability	0.999436
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21675236 108 - 27905053
ACAAAGCCAAUAAUACUUUCGUUUUUAUGCUGCACUCUUGCAUAUUUAAUGCACCUUUUCUUGCGUUAAAUUUAACACGUGUGGAGCAGCCUGUAGAAGCAGGCAGCU
....(((....................((((.(((.(.((...((((((((((........))))))))))....)).).))).))))((((((....)))))).))) ( -32.00)
>DroSec_CAF1 155223 108 - 1
ACAAAGCCAAUAAUACUUUCGUUUUUAUGCUGCACUCUUGCAUAUUUAAUGCACCUUUUCUUGCGUUAAAUUUAACACGUGUGGGGCAGCCUGUAGAAGCAGGCAGCU
....(((....................((((.(((.(.((...((((((((((........))))))))))....)).).))).))))((((((....)))))).))) ( -32.00)
>DroSim_CAF1 160499 108 - 1
ACAAAGCCAAUAAUACUUUCGUUUUUAUGCUGCAAUCUUGCAUAUUUAAUGCACCUUUUCUUGCGUUAAAUUUAACACGUGUGGGGCAGCCUGUAGAAGCAGGCAGCU
.....(((....((((.........(((((.........)))))(((((((((........)))))))))........))))..))).((((((....)))))).... ( -29.90)
>DroEre_CAF1 152283 108 - 1
ACAAAGCCAAUAAUACUUUCGUUUUUAUCCUGCACUCCUGCAUAUUUAAUGCACCUUUUCCUGCGUUAAAUUCAACACGUGUGGAGCUGCCUGUAGAAGCAGGCAGCU
...........................(((.((((........((((((((((........)))))))))).......)))))))(((((((((....))))))))). ( -32.56)
>DroYak_CAF1 153298 108 - 1
ACAAAGCCAAUAAAACUUUCGUUUUUAUCCUGCACGCCUGCAUAUUUAAUGCACCUUUUCUUGCGUCAAAUUCAACACGUGUGGAGCUGCCUGUAGAGGCAGGCAGCU
...........(((((....)))))..(((.(((((.......((((.(((((........))))).))))......))))))))(((((((((....))))))))). ( -31.82)
>consensus
ACAAAGCCAAUAAUACUUUCGUUUUUAUGCUGCACUCUUGCAUAUUUAAUGCACCUUUUCUUGCGUUAAAUUUAACACGUGUGGAGCAGCCUGUAGAAGCAGGCAGCU
....(((....................((((.(((.(.((...((((((((((........))))))))))....)).).))).))))((((((....)))))).))) (-27.04 = -28.00 +   0.96)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:58 2006