Locus 827

Sequence ID	2L_DroMel_CAF1
Location	2,359,610 – 2,359,724
Length	114
Max. P	0.972406

overview

Window 2

Location	2,359,610 – 2,359,724
Length	114
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	79.88
Mean single sequence MFE	-36.03
Consensus MFE	-21.72
Energy contribution	-23.58
Covariance contribution	1.86
Combinations/Pair	1.23
Mean z-score	-1.65
Structure conservation index	0.60
SVM decision value	0.14
SVM RNA-class probability	0.601582
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2359610 114 + 22407834
UAUAAAUUGCAACUAUCACACGUGUCC-GCCGCGACCCGGAGUCGAAUCAUCCGCGUCCGUAUCCGGAUCUGGAGUCCGAGCUCCGGAGCCGUAGA--GACACACACAUUGCCACAA
.....................(((((.-.(..((.((((((((((.....((((.(((((....))))).))))...))).)))))).).))..).--))))).............. ( -36.80)
>DroPse_CAF1 124734 99 + 1
UAUAAAUUGCAACUAUCACACGUGUCC-GUCGCAGCUUGGAGGCGGGG----------GGUAGGCGAUUC-----UCCGCACUCCAGAGCCGGACA--GACACACACAUUGCCGCAG
.......(((...........(((((.-(((.(.((((((((((((((----------(((.....))))-----))))).))))).))).)))).--))))).(.....)..))). ( -37.80)
>DroSim_CAF1 65642 114 + 1
UAUAAAUUGCAACUAUCACACGUGUCC-GCCGCGACCCGGAGUCGAAUCAUCCGCGUCCGUAAUCGGAUCUGGAGUCCGGGCUCCGGAGCCGCAGA--GACACACACAUUGCCACAA
.....................((((((-((.((...((((((((......((((.(((((....))))).)))).....)))))))).)).)).).--))))).............. ( -39.40)
>DroEre_CAF1 71474 114 + 1
UAUAAAUUGCAACUAUCACACGUGUCC-GCCGCGGCCCGGAGUCGAAUCAUCCGCGUCCGUAGCCGGAUCUGGAGUCCGGGCUCCGGAGCCGGAGA--GACACACACAUUGCCACAA
.....................((((((-..(.((((((((((((......((((.(((((....))))).)))).....)))))))).))))).).--))))).............. ( -43.00)
>DroYak_CAF1 70275 114 + 1
UAUAAAUUGCAACUAUCACACGUGUCC-GCCGCGACCCGGAGUCGAAUCAUCCGCGUCCAUAUCCGGAUCUGGAGUCCGGCCUCCGGAGCCGGAGA--GACACACACAUUGCCACAA
.....................((((((-.(((.(..(((((((((.....((((.((((......)))).))))...))).))))))..)))).).--))))).............. ( -37.70)
>DroAna_CAF1 73580 111 + 1
UAUAAAUUGCAACUAUCACACGUGUCCCAUCCCGACUUUAAGUCGAAUCCGUAGACUCCAA----UUAUCCGUAGACCGA--CCCGGAGCCGGAGAGAGACACACUCAUUGCCACAU
.....................(((((.(....((((.....))))..........((((..----...((((........--..))))...)))).).))))).............. ( -21.50)
>consensus
UAUAAAUUGCAACUAUCACACGUGUCC_GCCGCGACCCGGAGUCGAAUCAUCCGCGUCCGUAGCCGGAUCUGGAGUCCGGGCUCCGGAGCCGGAGA__GACACACACAUUGCCACAA
.....................(((((......((.((((((((((.....((((.(((((....))))).))))...))).)))))).).))......))))).............. (-21.72 = -23.58 +   1.86)

alignment

secondary structure

dotplot

Window 3

Location	2,359,610 – 2,359,724
Length	114
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	79.88
Mean single sequence MFE	-48.78
Consensus MFE	-29.45
Energy contribution	-31.33
Covariance contribution	1.88
Combinations/Pair	1.21
Mean z-score	-3.16
Structure conservation index	0.60
SVM decision value	1.69
SVM RNA-class probability	0.972406
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2359610 114 - 22407834
UUGUGGCAAUGUGUGUGUC--UCUACGGCUCCGGAGCUCGGACUCCAGAUCCGGAUACGGACGCGGAUGAUUCGACUCCGGGUCGCGGC-GGACACGUGUGAUAGUUGCAAUUUAUA
(((..((.(((..((((((--((..((((.((((((.(((((((((.(.((((....)))))..))).).)))))))))))))))..).-)))))))..).)).))..)))...... ( -51.00)
>DroPse_CAF1 124734 99 - 1
CUGCGGCAAUGUGUGUGUC--UGUCCGGCUCUGGAGUGCGGA-----GAAUCGCCUACC----------CCCCGCCUCCAAGCUGCGAC-GGACACGUGUGAUAGUUGCAAUUUAUA
.((((((.(((..((((((--(((((((((.(((((.((((.-----(...........----------).)))))))))))))).)))-)))))))..).)).))))))....... ( -46.70)
>DroSim_CAF1 65642 114 - 1
UUGUGGCAAUGUGUGUGUC--UCUGCGGCUCCGGAGCCCGGACUCCAGAUCCGAUUACGGACGCGGAUGAUUCGACUCCGGGUCGCGGC-GGACACGUGUGAUAGUUGCAAUUUAUA
(((..((.(((..((((((--((((((((.((((((..((((((((.(.((((....)))))..))).).)))).))))))))))))).-)))))))..).)).))..)))...... ( -52.50)
>DroEre_CAF1 71474 114 - 1
UUGUGGCAAUGUGUGUGUC--UCUCCGGCUCCGGAGCCCGGACUCCAGAUCCGGCUACGGACGCGGAUGAUUCGACUCCGGGCCGCGGC-GGACACGUGUGAUAGUUGCAAUUUAUA
(((..((.(((..((((((--(.((((((.((((((..((((((((.(.((((....)))))..))).).)))).)))))))))).)).-)))))))..).)).))..)))...... ( -51.20)
>DroYak_CAF1 70275 114 - 1
UUGUGGCAAUGUGUGUGUC--UCUCCGGCUCCGGAGGCCGGACUCCAGAUCCGGAUAUGGACGCGGAUGAUUCGACUCCGGGUCGCGGC-GGACACGUGUGAUAGUUGCAAUUUAUA
(((..((.(((..((((((--(.((((((.((((((..((((((((.(.((((....)))))..))).).)))).)))))))))).)).-)))))))..).)).))..)))...... ( -47.10)
>DroAna_CAF1 73580 111 - 1
AUGUGGCAAUGAGUGUGUCUCUCUCCGGCUCCGGG--UCGGUCUACGGAUAA----UUGGAGUCUACGGAUUCGACUUAAAGUCGGGAUGGGACACGUGUGAUAGUUGCAAUUUAUA
.((..((.(((..((((((((..(((((((..(((--((.(((....)))..----...(((((....))))))))))..)))))))..))))))))..).)).))..))....... ( -44.20)
>consensus
UUGUGGCAAUGUGUGUGUC__UCUCCGGCUCCGGAGCCCGGACUCCAGAUCCGGAUACGGACGCGGAUGAUUCGACUCCGGGUCGCGGC_GGACACGUGUGAUAGUUGCAAUUUAUA
.((((((.(((..((((((...((.((((.((((((..((((.(((...((((....))))...)))...)))).)))))))))).))...))))))..).)).))))))....... (-29.45 = -31.33 +   1.88)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:30 2006