Locus 69

Sequence ID	2R_DroMel_CAF1
Location	1,322,524 – 1,322,631
Length	107
Max. P	0.934196

overview

Window 1

Location	1,322,524 – 1,322,631
Length	107
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	89.12
Mean single sequence MFE	-34.80
Consensus MFE	-22.94
Energy contribution	-24.02
Covariance contribution	1.08
Combinations/Pair	1.08
Mean z-score	-2.70
Structure conservation index	0.66
SVM decision value	0.25
SVM RNA-class probability	0.653966
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1322524 107 + 20766785
CAAGUAACAAAUCGCAAGAUGCUGAAAAUUGAAUGCGAGU------------AGCCGGGUGGGUAUCCUUCCGGCUGAGCUAUUGAUAUUUCCCAGCAUCCCGA-AUCAAAUCAAGCGAG
...........((((..(((((((.(((((.(((((...(------------(((((((.((....)).)))))))).)).))).).))))..)))))))..((-......))..)))). ( -34.80)
>DroSec_CAF1 41115 107 + 1
CAAGUAACAAAUCGCAAGAUGCUGAAAAUUGAAUGCGAGU------------AGCCGGGUGGGUAUCCUUCCGGCUGAGCUAUUGAUAUUUCCCAGCAUCCCGA-AUAAAAUCAAGCGAG
...........((((..(((((((.(((((.(((((...(------------(((((((.((....)).)))))))).)).))).).))))..)))))))..((-......))..)))). ( -34.80)
>DroSim_CAF1 20150 107 + 1
CAAGUAACAAAUCGCAAGAUGCUGAAAAUUGAAUGCGAGU------------AGCCGGGUGGGUAUCCUUCCGGCUGAGCUAUUGAUAUUUCCCAGCAUCCCGA-AUCAAAUCAAGCGAG
...........((((..(((((((.(((((.(((((...(------------(((((((.((....)).)))))))).)).))).).))))..)))))))..((-......))..)))). ( -34.80)
>DroEre_CAF1 22446 116 + 1
CAAGUAACAAAUCGCAGGACGCUGGAAAUUGAAUGCGAGUGCGAGUGCGAGUAGUCG----GGAAUCCUUCCGGCUGAGCCAUUGAUAUUUCCCAGCAUCCCGAAAUCAAAUCAAGCGAG
...........((((.(((.(((((........(((....)))((((.(..((((((----(((....)))))))))..)))))........))))).))).((.......))..)))). ( -34.30)
>DroYak_CAF1 8522 104 + 1
CAAGUAACAAAUCGCAAGAUGCUGAAAAUUGAAUGCGAGU------------GGCCG----GGAAUCCUUCCGGCUGAGCCAUUGAUAUUUCUCAGCAUCCCGAAAUCAAAUCAAGCGAU
..........(((((..(((((((((((((.((((.(..(------------(((((----(((....)))))))))..))))).).)))).))))))))..((.......))..))))) ( -35.30)
>consensus
CAAGUAACAAAUCGCAAGAUGCUGAAAAUUGAAUGCGAGU____________AGCCGGGUGGGUAUCCUUCCGGCUGAGCUAUUGAUAUUUCCCAGCAUCCCGA_AUCAAAUCAAGCGAG
...........((((..(((((((....(((....)))..............(((((((.((....)).))))))).................)))))))..((.......))..)))). (-22.94 = -24.02 +   1.08)

alignment

secondary structure

dotplot

Window 2

Location	1,322,524 – 1,322,631
Length	107
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	89.12
Mean single sequence MFE	-33.44
Consensus MFE	-25.96
Energy contribution	-27.04
Covariance contribution	1.08
Combinations/Pair	1.07
Mean z-score	-2.17
Structure conservation index	0.78
SVM decision value	1.23
SVM RNA-class probability	0.934196
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1322524 107 - 20766785
CUCGCUUGAUUUGAU-UCGGGAUGCUGGGAAAUAUCAAUAGCUCAGCCGGAAGGAUACCCACCCGGCU------------ACUCGCAUUCAAUUUUCAGCAUCUUGCGAUUUGUUACUUG
.((((..((......-))(((((((((..((.....(((.((..((((((..((....))..))))))------------....)))))...))..)))))))))))))........... ( -33.40)
>DroSec_CAF1 41115 107 - 1
CUCGCUUGAUUUUAU-UCGGGAUGCUGGGAAAUAUCAAUAGCUCAGCCGGAAGGAUACCCACCCGGCU------------ACUCGCAUUCAAUUUUCAGCAUCUUGCGAUUUGUUACUUG
.((((..((......-))(((((((((..((.....(((.((..((((((..((....))..))))))------------....)))))...))..)))))))))))))........... ( -33.40)
>DroSim_CAF1 20150 107 - 1
CUCGCUUGAUUUGAU-UCGGGAUGCUGGGAAAUAUCAAUAGCUCAGCCGGAAGGAUACCCACCCGGCU------------ACUCGCAUUCAAUUUUCAGCAUCUUGCGAUUUGUUACUUG
.((((..((......-))(((((((((..((.....(((.((..((((((..((....))..))))))------------....)))))...))..)))))))))))))........... ( -33.40)
>DroEre_CAF1 22446 116 - 1
CUCGCUUGAUUUGAUUUCGGGAUGCUGGGAAAUAUCAAUGGCUCAGCCGGAAGGAUUCC----CGACUACUCGCACUCGCACUCGCAUUCAAUUUCCAGCGUCCUGCGAUUUGUUACUUG
......((((..((((.((((((((((((((.......(((.....((....))....)----)).......((....))............)))))))))))))).)))).)))).... ( -34.10)
>DroYak_CAF1 8522 104 - 1
AUCGCUUGAUUUGAUUUCGGGAUGCUGAGAAAUAUCAAUGGCUCAGCCGGAAGGAUUCC----CGGCC------------ACUCGCAUUCAAUUUUCAGCAUCUUGCGAUUUGUUACUUG
(((((..(((((((.....((((((((((..((....))..))))(((((........)----)))).------------....)))))).....)))).)))..))))).......... ( -32.90)
>consensus
CUCGCUUGAUUUGAU_UCGGGAUGCUGGGAAAUAUCAAUAGCUCAGCCGGAAGGAUACCCACCCGGCU____________ACUCGCAUUCAAUUUUCAGCAUCUUGCGAUUUGUUACUUG
.((((..(((((((.....((((((((((..((....))..))))(((((..((....))..))))).................)))))).....)))).)))..))))........... (-25.96 = -27.04 +   1.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:25:29 2006