Locus 7623

Sequence ID	2L_DroMel_CAF1
Location	21,150,610 – 21,150,723
Length	113
Max. P	0.999985

overview

Window 9

Location	21,150,610 – 21,150,703
Length	93
Sequences	4
Columns	96
Reading direction	forward
Mean pairwise identity	71.90
Mean single sequence MFE	-21.65
Consensus MFE	-9.31
Energy contribution	-10.88
Covariance contribution	1.56
Combinations/Pair	1.15
Mean z-score	-2.19
Structure conservation index	0.43
SVM decision value	0.20
SVM RNA-class probability	0.632272
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21150610 93 + 22407834
CGUGCCACUGCAGAGCGAAGCAAGUGCAAUUGCCAAUUGCAAAUGCAAUUGACGGUAAAGGCGAACAAACUUCGAUGGAAAUAUCGAUUUCAA---
..((((..(((...((((.((....))..))))(((((((....)))))))...)))..))))........((((((....))))))......--- ( -23.80)
>DroSec_CAF1 8545 93 + 1
CGUGUCACUGCAAAUCGAAGCAAGUGCAAUUGCAAAUUACAAACGCAAUUGAGGGUAAAGGUGAAGAAACAUCGAUGGAAAUAUCGAUUUCAA---
....(((((((........)).....(((((((...........)))))))........))))).(((..(((((((....))))))))))..--- ( -20.00)
>DroEre_CAF1 8899 77 + 1
CGUGCGACUGCUAAGCGAAGCAAGUGCAAUUGCCAAU-------------------GGAGGUGAUGAAACAUCGAAGGAAACAUCGAUUUGGAAAA
..((((..((((......))))..))))((..((...-------------------...))..)).....(((((.(....).)))))........ ( -20.50)
>DroYak_CAF1 8569 89 + 1
-------CUACUAAGCGAAGCAAGUGCAAUUGGCAAUUGCAAAUGCAAUUGACUGUAGAGGUGAUAAAACAUCGAUGGAACCAUCGAUUUUAAAAA
-------((((....(((.(((..((((((.....))))))..)))..)))...))))............(((((((....)))))))........ ( -22.30)
>consensus
CGUGCCACUGCAAAGCGAAGCAAGUGCAAUUGCCAAUUGCAAAUGCAAUUGACGGUAAAGGUGAAGAAACAUCGAUGGAAACAUCGAUUUCAA___
........(((........((((......))))(((((((....))))))).........)))........((((((....))))))......... ( -9.31 = -10.88 +   1.56)

alignment

secondary structure

dotplot

Window 0

Location	21,150,632 – 21,150,723
Length	91
Sequences	3
Columns	114
Reading direction	forward
Mean pairwise identity	72.73
Mean single sequence MFE	-27.03
Consensus MFE	-15.47
Energy contribution	-16.48
Covariance contribution	1.01
Combinations/Pair	1.12
Mean z-score	-3.47
Structure conservation index	0.57
SVM decision value	4.81
SVM RNA-class probability	0.999952
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21150632 91 + 22407834
AGUGCAAUUGCCAAUUGCAAAUGCAAUUGACGGUAAAGGCGAACAAACUUCGAUGGAAAUAUCGAUUUCAA-----------AAACAUCGAUGUUUCAGUGA------------
..(((..(((((((((((....))))))...)))))..)))........(((...(((((((((((.....-----------....)))))))))))..)))------------ ( -25.30)
>DroSec_CAF1 8567 91 + 1
AGUGCAAUUGCAAAUUACAAACGCAAUUGAGGGUAAAGGUGAAGAAACAUCGAUGGAAAUAUCGAUUUCAA-----------AAACAUCGAUGUUUCAGCGA------------
.((.(((((((...........)))))))..............(((((((((((((((((....)))))..-----------...)))))))))))).))..------------ ( -25.20)
>DroYak_CAF1 8584 114 + 1
AGUGCAAUUGGCAAUUGCAAAUGCAAUUGACUGUAGAGGUGAUAAAACAUCGAUGGAACCAUCGAUUUUAAAAAUUAUCGAAAAUCAUCGAAGUUUUAGUAUUGGCCUGCGACU
(((((....(((((((((....))))))).))....((((.(((((((.(((((((.....(((((..........)))))...))))))).))))))....).)))))).))) ( -30.60)
>consensus
AGUGCAAUUGCCAAUUGCAAAUGCAAUUGACGGUAAAGGUGAAAAAACAUCGAUGGAAAUAUCGAUUUCAA___________AAACAUCGAUGUUUCAGUGA____________
..(((.((((.(((((((....))))))).)))).........(((((.((((((..............................)))))).))))).)))............. (-15.47 = -16.48 +   1.01)

alignment

secondary structure

dotplot

Window 1

Location	21,150,632 – 21,150,723
Length	91
Sequences	3
Columns	114
Reading direction	reverse
Mean pairwise identity	72.73
Mean single sequence MFE	-24.90
Consensus MFE	-14.92
Energy contribution	-15.81
Covariance contribution	0.89
Combinations/Pair	1.10
Mean z-score	-3.59
Structure conservation index	0.60
SVM decision value	5.38
SVM RNA-class probability	0.999985
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21150632 91 - 22407834
------------UCACUGAAACAUCGAUGUUU-----------UUGAAAUCGAUAUUUCCAUCGAAGUUUGUUCGCCUUUACCGUCAAUUGCAUUUGCAAUUGGCAAUUGCACU
------------......((((.((((((...-----------..(((((....))))))))))).)))).............(((((((((....)))))))))......... ( -22.30)
>DroSec_CAF1 8567 91 - 1
------------UCGCUGAAACAUCGAUGUUU-----------UUGAAAUCGAUAUUUCCAUCGAUGUUUCUUCACCUUUACCCUCAAUUGCGUUUGUAAUUUGCAAUUGCACU
------------..(..((((((((((((...-----------..(((((....)))))))))))))))))..)...........((((((((.........)))))))).... ( -24.50)
>DroYak_CAF1 8584 114 - 1
AGUCGCAGGCCAAUACUAAAACUUCGAUGAUUUUCGAUAAUUUUUAAAAUCGAUGGUUCCAUCGAUGUUUUAUCACCUCUACAGUCAAUUGCAUUUGCAAUUGCCAAUUGCACU
(((.((((........((((((.((((......))))...........(((((((....)))))))))))))...........(.(((((((....))))))).)..))))))) ( -27.90)
>consensus
____________UCACUGAAACAUCGAUGUUU___________UUGAAAUCGAUAUUUCCAUCGAUGUUUCUUCACCUUUACCGUCAAUUGCAUUUGCAAUUGGCAAUUGCACU
.................(((((.((((((..............................)))))).)))))............(((((((((....)))))))))......... (-14.92 = -15.81 +   0.89)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:18 2006