Locus 1855

Sequence ID	3L_DroMel_CAF1
Location	5,218,251 – 5,218,347
Length	96
Max. P	0.998989

overview

Window 2

Location	5,218,251 – 5,218,347
Length	96
Sequences	6
Columns	96
Reading direction	forward
Mean pairwise identity	98.26
Mean single sequence MFE	-22.70
Consensus MFE	-22.87
Energy contribution	-22.73
Covariance contribution	-0.14
Combinations/Pair	1.03
Mean z-score	-1.63
Structure conservation index	1.01
SVM decision value	3.31
SVM RNA-class probability	0.998989
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5218251 96 + 23771897
CAAAAUGUUAUGGCAUGUAAUUGAUGUCAUUAUAUCAUUGCAUGGAAUGCAUCGAAGACAUGGCAUAUAGAUAUAUAGAGACGGACAUUGAUCGUG
...((((((.((.(((((..((((((.((((.(((......))).))))))))))..))))).))((((....))))......))))))....... ( -21.40)
>DroSec_CAF1 83143 96 + 1
CAAAAUGUUAUGGCAUGUAAUUGAUGUCAUUGUAUCAUUGCAUGGAAUGCAUCGAAGACAUGGCAUAUGGAUAUAUAGAUACGGACAUUGAUCGUG
...((((((.((.(((((..((((((.((((.(((......))).))))))))))..))))).))((((....))))......))))))....... ( -23.00)
>DroSim_CAF1 79941 96 + 1
CAAAAUGUUAUGGCAUGUAAUUGAUGUCAUUGUAUCAUUGCAUGGAAUGCAUCGAAGACAUGGCAUAUGGAUAUAUAGAUACGGACAUUGAUCGUG
...((((((.((.(((((..((((((.((((.(((......))).))))))))))..))))).))((((....))))......))))))....... ( -23.00)
>DroEre_CAF1 84072 96 + 1
CAAAAUGUUAUGGCAUGUAAUUGAUGUCAUUGUAUCAUUGCAUGGAAUGCAUCGAAGACAUGGCAUAUGGAUAUAUAGAUACGGACAUUGAUCGUG
...((((((.((.(((((..((((((.((((.(((......))).))))))))))..))))).))((((....))))......))))))....... ( -23.00)
>DroYak_CAF1 84890 96 + 1
CAAAAUGUUAUGGCAUGUAAUUGAUGUCAUUGUAUCAUUGCAUGGAAUGCAUCGAAGACAUGGCAUAUGGAUAUAUAGAUACGGACAUUGAUCGUG
...((((((.((.(((((..((((((.((((.(((......))).))))))))))..))))).))((((....))))......))))))....... ( -23.00)
>DroAna_CAF1 82002 94 + 1
CAAAAUGUUAUGGCAUGUAAUUGAUGUCAUUGUAUCA--GCAUGGAAUGCAUCGAAGACAUGGCAUAUGGAUAUAUAGAUACGGACAUUGAUCGUG
...((((((.((.(((((..((((((.((((.(((..--..))).))))))))))..))))).))((((....))))......))))))....... ( -22.80)
>consensus
CAAAAUGUUAUGGCAUGUAAUUGAUGUCAUUGUAUCAUUGCAUGGAAUGCAUCGAAGACAUGGCAUAUGGAUAUAUAGAUACGGACAUUGAUCGUG
...((((((.((.(((((..((((((.((((.(((......))).))))))))))..))))).))((((....))))......))))))....... (-22.87 = -22.73 +  -0.14)

alignment

secondary structure

dotplot

Window 3

Location	5,218,251 – 5,218,347
Length	96
Sequences	6
Columns	96
Reading direction	reverse
Mean pairwise identity	98.26
Mean single sequence MFE	-12.78
Consensus MFE	-12.75
Energy contribution	-12.75
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-0.61
Structure conservation index	1.00
SVM decision value	0.09
SVM RNA-class probability	0.579683
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5218251 96 - 23771897
CACGAUCAAUGUCCGUCUCUAUAUAUCUAUAUGCCAUGUCUUCGAUGCAUUCCAUGCAAUGAUAUAAUGACAUCAAUUACAUGCCAUAACAUUUUG
.............................((((.(((((..(.((((((((..((......))..)))).)))).)..))))).))))........ ( -12.90)
>DroSec_CAF1 83143 96 - 1
CACGAUCAAUGUCCGUAUCUAUAUAUCCAUAUGCCAUGUCUUCGAUGCAUUCCAUGCAAUGAUACAAUGACAUCAAUUACAUGCCAUAACAUUUUG
.(((.........))).............((((.(((((..(.((((((((..((......))..)))).)))).)..))))).))))........ ( -12.80)
>DroSim_CAF1 79941 96 - 1
CACGAUCAAUGUCCGUAUCUAUAUAUCCAUAUGCCAUGUCUUCGAUGCAUUCCAUGCAAUGAUACAAUGACAUCAAUUACAUGCCAUAACAUUUUG
.(((.........))).............((((.(((((..(.((((((((..((......))..)))).)))).)..))))).))))........ ( -12.80)
>DroEre_CAF1 84072 96 - 1
CACGAUCAAUGUCCGUAUCUAUAUAUCCAUAUGCCAUGUCUUCGAUGCAUUCCAUGCAAUGAUACAAUGACAUCAAUUACAUGCCAUAACAUUUUG
.(((.........))).............((((.(((((..(.((((((((..((......))..)))).)))).)..))))).))))........ ( -12.80)
>DroYak_CAF1 84890 96 - 1
CACGAUCAAUGUCCGUAUCUAUAUAUCCAUAUGCCAUGUCUUCGAUGCAUUCCAUGCAAUGAUACAAUGACAUCAAUUACAUGCCAUAACAUUUUG
.(((.........))).............((((.(((((..(.((((((((..((......))..)))).)))).)..))))).))))........ ( -12.80)
>DroAna_CAF1 82002 94 - 1
CACGAUCAAUGUCCGUAUCUAUAUAUCCAUAUGCCAUGUCUUCGAUGCAUUCCAUGC--UGAUACAAUGACAUCAAUUACAUGCCAUAACAUUUUG
.(((.........))).............((((.(((((..(.((((((((......--......)))).)))).)..))))).))))........ ( -12.60)
>consensus
CACGAUCAAUGUCCGUAUCUAUAUAUCCAUAUGCCAUGUCUUCGAUGCAUUCCAUGCAAUGAUACAAUGACAUCAAUUACAUGCCAUAACAUUUUG
.(((.........))).............((((.(((((..(.((((((((..((......))..)))).)))).)..))))).))))........ (-12.75 = -12.75 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:23 2006