Locus 5673

Sequence ID	3L_DroMel_CAF1
Location	15,559,731 – 15,559,840
Length	109
Max. P	0.998980

overview

Window 0

Location	15,559,731 – 15,559,840
Length	109
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	94.39
Mean single sequence MFE	-29.03
Consensus MFE	-24.25
Energy contribution	-24.25
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-3.26
Structure conservation index	0.84
SVM decision value	3.31
SVM RNA-class probability	0.998980
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15559731 109 + 23771897
AUAAGCCGUCAUCGUCAUCCGACGUCUGGAAGGGCCCCUCCCCUUCCACUCCUCCCUUCCAUCGCCCACUUCCAGACGGCCGAGGUUUCGCUUCCUGAUUAUUAUUAU----A
....((((((..((((....))))..((((((((......))))))))..........................)))))).((((.....))))..............----. ( -31.20)
>DroSec_CAF1 22312 109 + 1
AUAAGCCGUCAUCGUCAUCCGACGUCUGGAAGGGCCCCUCCCCUUCCACUCCUCCCUUCCAUCGCCCACUUCCAGACGGCCGAGGUUUCGCUUCCUGAUUAUUAUUAU----A
....((((((..((((....))))..((((((((......))))))))..........................)))))).((((.....))))..............----. ( -31.20)
>DroSim_CAF1 22762 109 + 1
AUAAGCCGUCAUCGUCAUCCGACGUCUGGAAGGGCCCCGCCCCUUCCACUCCUCCCUUCCAUCGCCCACUUCCAGACGCCCGAGGUUUCGCUUCCUGAUUAUUAUUAU----A
..(((((.((...(((....)))((((((((((((............................))))..))))))))....)))))))....................----. ( -25.09)
>DroEre_CAF1 22561 113 + 1
AUAAGCCGUCGUCGUCAUCCGACGUCUGGAAGGGCCCCUCCCUUUCCACUCUUCCCUUCCAUCGCCCACUUCCAGACGACCAUGGUUUUGCUUCCUGAUUAUUAUUAUACAUA
..(((((((.((((((....)))((((((((((((............................))))..))))))))))).)))))))......................... ( -30.69)
>DroYak_CAF1 42617 109 + 1
AUAAGCCGUCGUCGUCAUCCGACGUCUGGAAGGGCCCCUCCCCUUCCUCUCUUCCCUUCCAUCGCCCACUUCCAGACGCCCGAGGUUUUGCUUCCUGAUUAUUAUUAU----A
..(((((.((((((.....))))((((((((((((............................))))..))))))))....)))))))....................----. ( -26.99)
>consensus
AUAAGCCGUCAUCGUCAUCCGACGUCUGGAAGGGCCCCUCCCCUUCCACUCCUCCCUUCCAUCGCCCACUUCCAGACGCCCGAGGUUUCGCUUCCUGAUUAUUAUUAU____A
..(((((......(((....)))((((((((((((............................))))..))))))))......)))))......................... (-24.25 = -24.25 +   0.00)

alignment

secondary structure

dotplot

Window 1

Location	15,559,731 – 15,559,840
Length	109
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	94.39
Mean single sequence MFE	-33.68
Consensus MFE	-30.90
Energy contribution	-31.10
Covariance contribution	0.20
Combinations/Pair	1.07
Mean z-score	-1.72
Structure conservation index	0.92
SVM decision value	2.16
SVM RNA-class probability	0.989298
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15559731 109 - 23771897
U----AUAAUAAUAAUCAGGAAGCGAAACCUCGGCCGUCUGGAAGUGGGCGAUGGAAGGGAGGAGUGGAAGGGGAGGGGCCCUUCCAGACGUCGGAUGACGAUGACGGCUUAU
.----...............((((....((((..(((((...........)))))....))))..((((((((......))))))))..(((((.....)))))...)))).. ( -34.40)
>DroSec_CAF1 22312 109 - 1
U----AUAAUAAUAAUCAGGAAGCGAAACCUCGGCCGUCUGGAAGUGGGCGAUGGAAGGGAGGAGUGGAAGGGGAGGGGCCCUUCCAGACGUCGGAUGACGAUGACGGCUUAU
.----...............((((....((((..(((((...........)))))....))))..((((((((......))))))))..(((((.....)))))...)))).. ( -34.40)
>DroSim_CAF1 22762 109 - 1
U----AUAAUAAUAAUCAGGAAGCGAAACCUCGGGCGUCUGGAAGUGGGCGAUGGAAGGGAGGAGUGGAAGGGGCGGGGCCCUUCCAGACGUCGGAUGACGAUGACGGCUUAU
.----...............((((....((((.(.(((((......))))).).).)))......((((((((......))))))))..(((((.....)))))...)))).. ( -33.10)
>DroEre_CAF1 22561 113 - 1
UAUGUAUAAUAAUAAUCAGGAAGCAAAACCAUGGUCGUCUGGAAGUGGGCGAUGGAAGGGAAGAGUGGAAAGGGAGGGGCCCUUCCAGACGUCGGAUGACGACGACGGCUUAU
....................((((....((.(.(((((((......))))))).)...)).....(((((.(((.....))))))))..(((((........))))))))).. ( -32.10)
>DroYak_CAF1 42617 109 - 1
U----AUAAUAAUAAUCAGGAAGCAAAACCUCGGGCGUCUGGAAGUGGGCGAUGGAAGGGAAGAGAGGAAGGGGAGGGGCCCUUCCAGACGUCGGAUGACGACGACGGCUUAU
.----...............((((....((((.(.(((((......))))).).).))).......(((((((......)))))))...(((((........))))))))).. ( -34.40)
>consensus
U____AUAAUAAUAAUCAGGAAGCGAAACCUCGGCCGUCUGGAAGUGGGCGAUGGAAGGGAGGAGUGGAAGGGGAGGGGCCCUUCCAGACGUCGGAUGACGAUGACGGCUUAU
....................((((....((((.(.(((((......))))).).).)))......((((((((......))))))))..(((((.....)))))...)))).. (-30.90 = -31.10 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:16 2006