Locus 1304

Sequence ID	2R_DroMel_CAF1
Location	5,065,546 – 5,065,665
Length	119
Max. P	0.999996

overview

Window 7

Location	5,065,546 – 5,065,665
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.39
Mean single sequence MFE	-40.30
Consensus MFE	-40.30
Energy contribution	-40.30
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-3.78
Structure conservation index	1.00
SVM decision value	5.99
SVM RNA-class probability	0.999996
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5065546 119 + 20766785
CAACAACAACGUAACGUACUGCAACCUAUGUGGGAGCGAGACGGGGACUCACUGUGCUUAUUAAAUAGUCAGUCUUUUUCUCUCUCCUAUACAAAUUGCGGGCGUAUCAUCAUGGC-ACA
.............((((.((((((....((((((((.((((..((((((.(((((.........))))).))))))..)))).))))))))....))))))))))...........-... ( -40.30)
>DroSec_CAF1 8377 119 + 1
GAACAACAACGUAACGUACUGCAACCUAUGUGGGAGCGAGACGGGGACUCACUGUGCUUAUUAAAUAGUCAGUCUUUUUCUCUCUCCUAUACAAAUUGCGGGCGUAUCAUCAUGGC-ACA
.............((((.((((((....((((((((.((((..((((((.(((((.........))))).))))))..)))).))))))))....))))))))))...........-... ( -40.30)
>DroSim_CAF1 8518 119 + 1
CAACAACAACGUAACGUACUGCAACCUAUGUGGGAGCGAGACGGGGACUCACUGUGCUUAUUAAAUAGUCAGUCUUUUUCUCUCUCCUAUACAAAUUGCGGGCGUAUCAUCAUGGC-ACA
.............((((.((((((....((((((((.((((..((((((.(((((.........))))).))))))..)))).))))))))....))))))))))...........-... ( -40.30)
>DroEre_CAF1 8586 119 + 1
CAACAACAACGUAACGUACUGCAACCUAUGUGGGAGCGAGACGGGGACUCACUGUGCUUAUUAAAUAGUCAGUCUUUUUCUCUCUCCUAUACAAAUUGCGGGCGUAUCAUCAUGGC-ACG
.............((((.((((((....((((((((.((((..((((((.(((((.........))))).))))))..)))).))))))))....))))))))))...........-... ( -40.30)
>DroAna_CAF1 7843 108 + 1
------------AACGUACUGCAACCUAUGUGGGAGCGAGACGGGGACUCACUGUGCUUAUUAAAUAGUCAGUCUUUUUCUCUCUCCUAUACAAAUUGCGGGCGUAUCAACAUGUCGACA
------------.((((.((((((....((((((((.((((..((((((.(((((.........))))).))))))..)))).))))))))....))))))))))............... ( -40.30)
>consensus
CAACAACAACGUAACGUACUGCAACCUAUGUGGGAGCGAGACGGGGACUCACUGUGCUUAUUAAAUAGUCAGUCUUUUUCUCUCUCCUAUACAAAUUGCGGGCGUAUCAUCAUGGC_ACA
.............((((.((((((....((((((((.((((..((((((.(((((.........))))).))))))..)))).))))))))....))))))))))............... (-40.30 = -40.30 +   0.00)

alignment

secondary structure

dotplot

Window 8

Location	5,065,546 – 5,065,665
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.39
Mean single sequence MFE	-33.50
Consensus MFE	-30.22
Energy contribution	-30.62
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.29
Structure conservation index	0.90
SVM decision value	0.59
SVM RNA-class probability	0.791378
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5065546 119 - 20766785
UGU-GCCAUGAUGAUACGCCCGCAAUUUGUAUAGGAGAGAGAAAAAGACUGACUAUUUAAUAAGCACAGUGAGUCCCCGUCUCGCUCCCACAUAGGUUGCAGUACGUUACGUUGUUGUUG
...-((.(..(((..(((..((((((((((...((((.((((....((((.(((.............))).))))....)))).))))...))))))))).)..)))..)))..).)).. ( -33.82)
>DroSec_CAF1 8377 119 - 1
UGU-GCCAUGAUGAUACGCCCGCAAUUUGUAUAGGAGAGAGAAAAAGACUGACUAUUUAAUAAGCACAGUGAGUCCCCGUCUCGCUCCCACAUAGGUUGCAGUACGUUACGUUGUUGUUC
...-((.(..(((..(((..((((((((((...((((.((((....((((.(((.............))).))))....)))).))))...))))))))).)..)))..)))..).)).. ( -33.82)
>DroSim_CAF1 8518 119 - 1
UGU-GCCAUGAUGAUACGCCCGCAAUUUGUAUAGGAGAGAGAAAAAGACUGACUAUUUAAUAAGCACAGUGAGUCCCCGUCUCGCUCCCACAUAGGUUGCAGUACGUUACGUUGUUGUUG
...-((.(..(((..(((..((((((((((...((((.((((....((((.(((.............))).))))....)))).))))...))))))))).)..)))..)))..).)).. ( -33.82)
>DroEre_CAF1 8586 119 - 1
CGU-GCCAUGAUGAUACGCCCGCAAUUUGUAUAGGAGAGAGAAAAAGACUGACUAUUUAAUAAGCACAGUGAGUCCCCGUCUCGCUCCCACAUAGGUUGCAGUACGUUACGUUGUUGUUG
...-((.(..(((..(((..((((((((((...((((.((((....((((.(((.............))).))))....)))).))))...))))))))).)..)))..)))..).)).. ( -33.82)
>DroAna_CAF1 7843 108 - 1
UGUCGACAUGUUGAUACGCCCGCAAUUUGUAUAGGAGAGAGAAAAAGACUGACUAUUUAAUAAGCACAGUGAGUCCCCGUCUCGCUCCCACAUAGGUUGCAGUACGUU------------
.(((((....)))))(((..((((((((((...((((.((((....((((.(((.............))).))))....)))).))))...))))))))).)..))).------------ ( -32.22)
>consensus
UGU_GCCAUGAUGAUACGCCCGCAAUUUGUAUAGGAGAGAGAAAAAGACUGACUAUUUAAUAAGCACAGUGAGUCCCCGUCUCGCUCCCACAUAGGUUGCAGUACGUUACGUUGUUGUUG
........(((((.(((....(((((((((...((((.((((....((((.(((.............))).))))....)))).))))...))))))))).))))))))........... (-30.22 = -30.62 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:46 2006