Locus 7266

Sequence ID	X_DroMel_CAF1
Location	18,109,590 – 18,109,758
Length	168
Max. P	0.862887

overview

Window 1

Location	18,109,590 – 18,109,688
Length	98
Sequences	3
Columns	105
Reading direction	forward
Mean pairwise identity	76.22
Mean single sequence MFE	-31.57
Consensus MFE	-26.06
Energy contribution	-26.29
Covariance contribution	0.23
Combinations/Pair	1.17
Mean z-score	-1.25
Structure conservation index	0.83
SVM decision value	0.84
SVM RNA-class probability	0.862887
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18109590 98 + 22224390
GGAGUGGCAGUGGCAGUGAGCGGUACACGGUACAUGGUACGCGGCAAAGCGUGAACCGUAAACGGUAAA-------CGACAAAACGGAGACGUCGCCACUUUGGC
((((((((.((.((.((..(((((.(((.((((...))))((......))))).)))))..)).))..)-------)......(((....))).))))))))... ( -35.20)
>DroSec_CAF1 18043 97 + 1
GGAGUGGCAGUGGCAGUGAGCGGUACACGGUACAUGGAACGCGGCAAGGCGUGAACCGUAAACGGUAAA-------CGACAA-ACGGCGACGUCGCCACUUUGGC
((((((((.((.((.((.....((((...)))).....)))).))..(((((...((((...((.....-------))....-))))..)))))))))))))... ( -32.30)
>DroEre_CAF1 15926 87 + 1
---GCCGCAGUGGGAGUGAGCGGUACGCGGU--------------GAAGCGUGAACCGCAAACGGUAAAUAUUAAACGAGAA-ACGGAGACGUCGCCGCUUUGAC
---..((.(((((..((..(((((.((((..--------------....)))).)))))..))...................-(((....)))..))))).)).. ( -27.20)
>consensus
GGAGUGGCAGUGGCAGUGAGCGGUACACGGUACAUGG_ACGCGGCAAAGCGUGAACCGUAAACGGUAAA_______CGACAA_ACGGAGACGUCGCCACUUUGGC
((((((((.......((..(((((.((((.(................).)))).)))))..))....................(((....))).))))))))... (-26.06 = -26.29 +   0.23)

alignment

secondary structure

dotplot

Window 2

Location	18,109,659 – 18,109,758
Length	99
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	86.82
Mean single sequence MFE	-34.75
Consensus MFE	-28.76
Energy contribution	-29.08
Covariance contribution	0.31
Combinations/Pair	1.03
Mean z-score	-1.81
Structure conservation index	0.83
SVM decision value	0.72
SVM RNA-class probability	0.831726
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18109659 99 + 22224390
----------CGACAAAACGGAGACGUCGCCACUUUGG-CCAUGAGUAACGAUGAGUGCUCAAUUACUUUUCGAUUGAUCAUGGUUUUGGCGCGCGGUGAAAUUUAGACC----------
----------((.(...(((....)))(((((....((-((((((.((((((.(((((......))))).))).))).)))))))).))))).)))..............---------- ( -29.80)
>DroSec_CAF1 18112 107 + 1
----------CGACAA-ACGGCGACGUCGCCACUUUGG-CCAUGAGUAACGAUGAGUGCUCAAUUACUUUUCGAUUGAUCAUGGUUUUGGCGCGCGGUGAAAUUUAGACCGCUUUUCAG-
----------......-(((....)))(((((....((-((((((.((((((.(((((......))))).))).))).)))))))).))))).(((((.........))))).......- ( -34.70)
>DroEre_CAF1 15985 108 + 1
----------CGAGAA-ACGGAGACGUCGCCGCUUUGA-CCAUGAGUAACGACGAGUGCUCAAUUACUUUUCGAUUGAUCAUGGUUUUGGCGCGCGGUGAAAUUUAGACCGCUAUUCAGA
----------...(((-(((....))).((.(((..((-((((((.((((((.(((((......))))).))).))).))))))))..)))))(((((.........)))))..)))... ( -38.20)
>DroYak_CAF1 17885 119 + 1
AAGCAACAAGCGACAA-ACGGCGACGUCGCCACUUAGUUCCAUGAGUAACGAUGAGUGCUCAAUUACUUUUCGAUUGAUCAUGGUUUUGGCGCGCGGUGAAAUUUAGACCGCUUUUCAGA
.........(((.(((-(.((((....))))........((((((.((((((.(((((......))))).))).))).)))))).)))).)))(((((.........)))))........ ( -36.30)
>consensus
__________CGACAA_ACGGAGACGUCGCCACUUUGG_CCAUGAGUAACGAUGAGUGCUCAAUUACUUUUCGAUUGAUCAUGGUUUUGGCGCGCGGUGAAAUUUAGACCGCUUUUCAG_
.................(((....)))(((((.......((((((.((((((.(((((......))))).))).))).))))))...))))).(((((.........)))))........ (-28.76 = -29.08 +   0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:39 2006