Locus 5033

Sequence ID	2R_DroMel_CAF1
Location	16,345,753 – 16,345,845
Length	92
Max. P	0.999511

overview

Window 9

Location	16,345,753 – 16,345,845
Length	92
Sequences	5
Columns	92
Reading direction	forward
Mean pairwise identity	93.36
Mean single sequence MFE	-22.48
Consensus MFE	-16.60
Energy contribution	-16.56
Covariance contribution	-0.04
Combinations/Pair	1.05
Mean z-score	-2.69
Structure conservation index	0.74
SVM decision value	0.83
SVM RNA-class probability	0.860699
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16345753 92 + 20766785
AAUUUUUCUCAGUGUAGCUUCACUUCCUUCGUCACCGCUCGAACAAACAUAAAUUGUGUCUGUCUUUCAUUCUGUUUGUCGAGCUGCCUGAA
........((((.(((((((.((.....(((........)))(((.((((.....)))).)))..............)).))))))))))). ( -20.30)
>DroSec_CAF1 15782 92 + 1
CUUUUUUCUCAGUGUAGCUUCACUUCCUUCGUCACCGCUCGAACAAACAUAAAUUGUGUCUGUCUUCCAUUCUGUUUGUCGAGCUGCCUGAA
........((((.(((((((.((.....(((........)))(((.((((.....)))).)))..............)).))))))))))). ( -20.30)
>DroSim_CAF1 17168 92 + 1
CUUUUUUCUCAGUGUAGCUUCACUUCCUUCGUCACCGCUCGAACAAACAUAAAUUGUGUCUGUCUUCCAUUCUGUUUGUCGAGCUGCCUGAA
........((((.(((((((.((.....(((........)))(((.((((.....)))).)))..............)).))))))))))). ( -20.30)
>DroEre_CAF1 19031 91 + 1
UUUUUUUCCCAGUGUGGCCUCACUUCCUUCGUCACCGCUCG-ACAAACAUAAAUUGUGUCUGUCUUUCAGUCUGUUUGUCGAGCUGCCUGAA
.........(((.(((((............))))).(((((-(((((((........(.(((.....))).)))))))))))))...))).. ( -25.40)
>DroYak_CAF1 19899 91 + 1
CUUUUUUCUCAGUGUGGCCUUAAUUUCUUCGUCACCGCUCG-ACAAACAUAAAUUGUGUCUGUCUUUCGGUCUGUUUGUCGAGCUGCCUGAA
........((((.(((((............))))).(((((-(((((((........(.(((.....))).)))))))))))))...)))). ( -26.10)
>consensus
CUUUUUUCUCAGUGUAGCUUCACUUCCUUCGUCACCGCUCGAACAAACAUAAAUUGUGUCUGUCUUUCAUUCUGUUUGUCGAGCUGCCUGAA
........((((.(((((............((....))(((.(((((((.......................))))))))))))))))))). (-16.60 = -16.56 +  -0.04)

alignment

secondary structure

dotplot

Window 0

Location	16,345,753 – 16,345,845
Length	92
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	93.36
Mean single sequence MFE	-24.15
Consensus MFE	-21.36
Energy contribution	-21.20
Covariance contribution	-0.16
Combinations/Pair	1.06
Mean z-score	-2.54
Structure conservation index	0.88
SVM decision value	3.67
SVM RNA-class probability	0.999511
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16345753 92 - 20766785
UUCAGGCAGCUCGACAAACAGAAUGAAAGACAGACACAAUUUAUGUUUGUUCGAGCGGUGACGAAGGAAGUGAAGCUACACUGAGAAAAAUU
(((((...((((((((((((((((..............)))).)))))).))))))(....)..................)))))....... ( -22.34)
>DroSec_CAF1 15782 92 - 1
UUCAGGCAGCUCGACAAACAGAAUGGAAGACAGACACAAUUUAUGUUUGUUCGAGCGGUGACGAAGGAAGUGAAGCUACACUGAGAAAAAAG
(((((...((((((((((((((((..............)))).)))))).))))))(....)..................)))))....... ( -22.34)
>DroSim_CAF1 17168 92 - 1
UUCAGGCAGCUCGACAAACAGAAUGGAAGACAGACACAAUUUAUGUUUGUUCGAGCGGUGACGAAGGAAGUGAAGCUACACUGAGAAAAAAG
(((((...((((((((((((((((..............)))).)))))).))))))(....)..................)))))....... ( -22.34)
>DroEre_CAF1 19031 91 - 1
UUCAGGCAGCUCGACAAACAGACUGAAAGACAGACACAAUUUAUGUUUGU-CGAGCGGUGACGAAGGAAGUGAGGCCACACUGGGAAAAAAA
....(((.((((((((((((..(((.....)))..........)))))))-)))))(....)............)))............... ( -26.90)
>DroYak_CAF1 19899 91 - 1
UUCAGGCAGCUCGACAAACAGACCGAAAGACAGACACAAUUUAUGUUUGU-CGAGCGGUGACGAAGAAAUUAAGGCCACACUGAGAAAAAAG
(((((...((((((((((((...(....)..............)))))))-)))))(((....((....))...)))...)))))....... ( -26.83)
>consensus
UUCAGGCAGCUCGACAAACAGAAUGAAAGACAGACACAAUUUAUGUUUGUUCGAGCGGUGACGAAGGAAGUGAAGCUACACUGAGAAAAAAG
(((((...((((((((((((.......................))))))).)))))(....)..................)))))....... (-21.36 = -21.20 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:53 2006