Locus 3333

Sequence ID	X_DroMel_CAF1
Location	8,903,485 – 8,903,586
Length	101
Max. P	0.999856

overview

Window 9

Location	8,903,485 – 8,903,586
Length	101
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	89.31
Mean single sequence MFE	-23.39
Consensus MFE	-21.22
Energy contribution	-21.10
Covariance contribution	-0.12
Combinations/Pair	1.10
Mean z-score	-2.91
Structure conservation index	0.91
SVM decision value	4.27
SVM RNA-class probability	0.999856
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8903485 101 + 22224390
UCGAGGUCACCUUUUGACCACUCGC--UCCUAUUUAUCUUCGAGAUCUUAAGAGUUCUCACAUCGCCACAUCGUUUCCUUAACCGAUCGGUGACCUUGACAGU
(((((((((((..(((.........--..............((((.((....)).)))).............(((.....))))))..))))))))))).... ( -25.50)
>DroSec_CAF1 17747 100 + 1
UCUAGGUCACCUUUCGCCCAGUCGCUCUCCUAUUUUUCUUCGAGAUCUUAAGAGUUCUCACAUCGCCAC-UCGUUUCCUUAACCGAUCGGUGACCUUGCC--U
...((((((((..(((.........................((((.((....)).))))..........-..(((.....))))))..))))))))....--. ( -21.60)
>DroSim_CAF1 13688 100 + 1
UCUAGGUCACCUUUCGACCAGUCGCUCUCCUAUUUAGCUUGGAGAUCUUAAGAGUUCUCACAUCGCCAC-UCGUUUCCUUAACCGAUCGGUGACCUUGCC--U
...((((((((..(((...(((.(((((((..........)))))......((....)).....)).))-).(((.....))))))..))))))))....--. ( -26.60)
>DroEre_CAF1 18172 98 + 1
UCUAGGUCACCUUUCGACCUUUC--UCUCCUAUUUAUCUUCGAGAUCUGAGCGGUUCUCACAUCGCCAC-UCGUUUCCUUAACCGAUUGGUGACCUUGCC--U
...((((((((..(((.....((--((..............))))...(((.(((.........))).)-))...........)))..))))))))....--. ( -26.74)
>DroYak_CAF1 18418 98 + 1
UCUAGGUCACCUUUCGACCAGUC--UCUCCAAUUUAUCUUCGAGAUCUCAAGAGUUCUCACAUCGCCAC-UCGUUUCCUUAACCGACUGCUGACCUUGCC--U
...((((((.(..(((.......--................((((.((....)).))))..........-..(((.....))))))..).))))))....--. ( -16.50)
>consensus
UCUAGGUCACCUUUCGACCAGUCGCUCUCCUAUUUAUCUUCGAGAUCUUAAGAGUUCUCACAUCGCCAC_UCGUUUCCUUAACCGAUCGGUGACCUUGCC__U
...((((((((..(((.........................((((.((....)).)))).............(((.....))))))..))))))))....... (-21.22 = -21.10 +  -0.12)

alignment

secondary structure

dotplot

Window 0

Location	8,903,485 – 8,903,586
Length	101
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	89.31
Mean single sequence MFE	-30.79
Consensus MFE	-23.24
Energy contribution	-23.84
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-3.29
Structure conservation index	0.75
SVM decision value	2.25
SVM RNA-class probability	0.991073
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8903485 101 - 22224390
ACUGUCAAGGUCACCGAUCGGUUAAGGAAACGAUGUGGCGAUGUGAGAACUCUUAAGAUCUCGAAGAUAAAUAGGA--GCGAGUGGUCAAAAGGUGACCUCGA
....((.((((((((.((((..........)))).((((.((.((....((((((..(((.....)))...)))))--))).)).))))...)))))))).)) ( -28.90)
>DroSec_CAF1 17747 100 - 1
A--GGCAAGGUCACCGAUCGGUUAAGGAAACGA-GUGGCGAUGUGAGAACUCUUAAGAUCUCGAAGAAAAAUAGGAGAGCGACUGGGCGAAAGGUGACCUAGA
.--....((((((((..(((.((..(....).(-((.((....((((....))))...((((............)))))).))))).)))..))))))))... ( -31.30)
>DroSim_CAF1 13688 100 - 1
A--GGCAAGGUCACCGAUCGGUUAAGGAAACGA-GUGGCGAUGUGAGAACUCUUAAGAUCUCCAAGCUAAAUAGGAGAGCGACUGGUCGAAAGGUGACCUAGA
.--....((((((((..(((..(..(....).(-((.((....((((....))))...(((((..........))))))).))))..)))..))))))))... ( -35.30)
>DroEre_CAF1 18172 98 - 1
A--GGCAAGGUCACCAAUCGGUUAAGGAAACGA-GUGGCGAUGUGAGAACCGCUCAGAUCUCGAAGAUAAAUAGGAGA--GAAAGGUCGAAAGGUGACCUAGA
.--....((((((((..(((..(..(....)((-((((...........))))))...((((..............))--))..)..)))..))))))))... ( -31.24)
>DroYak_CAF1 18418 98 - 1
A--GGCAAGGUCAGCAGUCGGUUAAGGAAACGA-GUGGCGAUGUGAGAACUCUUGAGAUCUCGAAGAUAAAUUGGAGA--GACUGGUCGAAAGGUGACCUAGA
.--....((((((.(((((......(....)((-((..(.......).))))......((((.((......)).))))--))))).((....))))))))... ( -27.20)
>consensus
A__GGCAAGGUCACCGAUCGGUUAAGGAAACGA_GUGGCGAUGUGAGAACUCUUAAGAUCUCGAAGAUAAAUAGGAGAGCGACUGGUCGAAAGGUGACCUAGA
.......((((((((..(((((((.(....)....)))).....((((.((....)).)))).........................)))..))))))))... (-23.24 = -23.84 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:46 2006