Locus 5769

Sequence ID	3L_DroMel_CAF1
Location	15,638,616 – 15,638,775
Length	159
Max. P	0.756381

overview

Window 4

Location	15,638,616 – 15,638,735
Length	119
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	97.50
Mean single sequence MFE	-32.33
Consensus MFE	-29.17
Energy contribution	-29.67
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-2.00
Structure conservation index	0.90
SVM decision value	0.49
SVM RNA-class probability	0.756381
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15638616 119 - 23771897
AUCGCAACAAUGCGGUGCAAUUAGUUGAUAGCACGCCUCGUGCAACUCAUUUCCCGAACAGCAACUGGGAAAAAUAGGAAAAU-CCGCCCAGUCACGCGGCCACAUUAAUCAACAUUGGC
((((((....)))))).((((..((((((.(((((...)))))..........(((....(..((((((.......((.....-)).))))))..).)))........)))))))))).. ( -32.50)
>DroSec_CAF1 60699 120 - 1
AUCGCAACAAUGCGGUGCAAUUAGUUGAUAGCACGCCUCGUGCAACUCAUUUCCCGAACAGCAACUGGGAAAAAUAGGAAAAUACCGCCCAGUCACGCGGCCACAUUAAUCAACAUUGGC
((((((....)))))).((((..((((((.(((((...)))))..........(((....(..((((((.......((......)).))))))..).)))........)))))))))).. ( -31.70)
>DroSim_CAF1 61705 120 - 1
AUCGCAACAAUGCGGUGCAAUUAGUUGAUAGCACGCCUCGUGCAACUCAUUUCCCGAACAGCGACUGGGAAAAAUAGUAAAAUACCGCCCAGUCACGCGGCCACAUUAAUCAACAUUGGC
((((((....)))))).((((..((((((.(((((...)))))..........(((....(.(((((((....((......))....))))))).).)))........)))))))))).. ( -34.30)
>DroYak_CAF1 65630 120 - 1
AUCGCAACAAUGCGCCGCAAUUAGUUGAUAGCACGCCUCGUGCAACUCAUUUCCCGAACAACAACUGGGAAAAAUAGGAAAAUACCGCCCAGUCACGCGGCCACAUUAAUCAACAUUGGC
...(((....)))(((((.....((((...(((((...)))))...((.......)).)))).((((((.......((......)).))))))...)))))................... ( -30.80)
>consensus
AUCGCAACAAUGCGGUGCAAUUAGUUGAUAGCACGCCUCGUGCAACUCAUUUCCCGAACAGCAACUGGGAAAAAUAGGAAAAUACCGCCCAGUCACGCGGCCACAUUAAUCAACAUUGGC
((((((....)))))).((((..((((((.(((((...)))))......(((((((.........)))))))............((((........))))........)))))))))).. (-29.17 = -29.67 +   0.50)

alignment

secondary structure

dotplot

Window 5

Location	15,638,655 – 15,638,775
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	95.69
Mean single sequence MFE	-31.38
Consensus MFE	-25.20
Energy contribution	-25.83
Covariance contribution	0.62
Combinations/Pair	1.06
Mean z-score	-1.99
Structure conservation index	0.80
SVM decision value	-0.01
SVM RNA-class probability	0.527663
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15638655 120 - 23771897
UCCACUUUUCUCCCGAUAUGUACCUCUGGAUAUCUCGUCCAUCGCAACAAUGCGGUGCAAUUAGUUGAUAGCACGCCUCGUGCAACUCAUUUCCCGAACAGCAACUGGGAAAAAUAGGAA
(((...(((.((((....((((((..(((((.....)))))..(((....)))))))))...(((((...(((((...)))))...((.......))....))))))))).)))..))). ( -33.90)
>DroSec_CAF1 60739 120 - 1
UCAACUUUUCUCCCGAUAUGUACCUCUGGAUAUCUCGUCCAUCGCAACAAUGCGGUGCAAUUAGUUGAUAGCACGCCUCGUGCAACUCAUUUCCCGAACAGCAACUGGGAAAAAUAGGAA
((((((..((....))..((((((..(((((.....)))))..(((....)))))))))...))))))..(((((...)))))......(((((((.........)))))))........ ( -31.60)
>DroSim_CAF1 61745 120 - 1
UCCACUUUUCUCCCGAUAUGUACCUUUGGAUAUCUCGUCCAUCGCAACAAUGCGGUGCAAUUAGUUGAUAGCACGCCUCGUGCAACUCAUUUCCCGAACAGCGACUGGGAAAAAUAGUAA
...((((((.(((((...((((((..(((((.....)))))..(((....)))))))))....((((...(((((...)))))...((.......)).))))...))))).))).))).. ( -32.00)
>DroYak_CAF1 65670 120 - 1
UCCACUUUUCUCCAGAUAUGUACCUUUAGGUAUCUCGUCCAUCGCAACAAUGCGCCGCAAUUAGUUGAUAGCACGCCUCGUGCAACUCAUUUCCCGAACAACAACUGGGAAAAAUAGGAA
(((..(((((.((((....(((((....)))))...((....((((....))))..)).....((((...(((((...)))))...((.......)).))))..)))))))))...))). ( -28.00)
>consensus
UCCACUUUUCUCCCGAUAUGUACCUCUGGAUAUCUCGUCCAUCGCAACAAUGCGGUGCAAUUAGUUGAUAGCACGCCUCGUGCAACUCAUUUCCCGAACAGCAACUGGGAAAAAUAGGAA
....(((((.(((((...((((((..(((((.....)))))..(((....)))))))))....((((...(((((...)))))...((.......)).))))...))))).))).))... (-25.20 = -25.83 +   0.62)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:27 2006