Locus 3471

Sequence ID 3L_DroMel_CAF1
Location 10,204,573 – 10,204,696
Length 123
Max. P 0.996170
window5419 window5420

overview

Window 9

Location 10,204,573 – 10,204,671
Length 98
Sequences 3
Columns 98
Reading direction reverse
Mean pairwise identity 82.98
Mean single sequence MFE -10.33
Consensus MFE -10.61
Energy contribution -9.73
Covariance contribution -0.88
Combinations/Pair 1.21
Mean z-score -1.12
Structure conservation index 1.03
SVM decision value 2.66
SVM RNA-class probability 0.996170
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10204573 98 - 23771897
GAACAGUUUAUUGUUUAUUGUUACCUCAACUAACAUUUAUAAAGCCACCUGCUUUUGAAACCCCGUGUUCAUAACUAAACCUAUUUCCUCAAAAUGUA
(((((......((((..(((......)))..))))((((.(((((.....)))))))))......)))))............................ ( -11.50)
>DroSec_CAF1 80826 86 - 1
GAACAU-----------UUGUUACCUCAACUAACAUUUGUAGAGCCACUCGCUUUUAAAACCCCUUGUUCAUAACUAAACUUAU-UCCUCAAGAUGUA
(((((.-----------.(((((.......)))))((((.(((((.....)))))))))......)))))..............-............. (  -9.70)
>DroSim_CAF1 85205 86 - 1
GAACAU-----------UUGUUACCUCAACUGACAUUUGUAGAGCCACUCGCUUUUAAAACCCCUUGUUCAUAACUCAACUUAU-UCCUCAAAAUGUU
(((((.-----------.(((((.......)))))((((.(((((.....)))))))))......)))))..............-............. (  -9.80)
>consensus
GAACAU___________UUGUUACCUCAACUAACAUUUGUAGAGCCACUCGCUUUUAAAACCCCUUGUUCAUAACUAAACUUAU_UCCUCAAAAUGUA
(((((.............(((((.......)))))((((.(((((.....)))))))))......)))))............................ (-10.61 =  -9.73 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 10,204,596 – 10,204,696
Length 100
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 84.19
Mean single sequence MFE -10.77
Consensus MFE -10.81
Energy contribution -9.93
Covariance contribution -0.88
Combinations/Pair 1.21
Mean z-score -1.36
Structure conservation index 1.00
SVM decision value 2.14
SVM RNA-class probability 0.988888
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10204596 100 - 23771897
UUACUAUA-UAAUAACUUAGAAUUUCGAACAGUUUAUUGUUUAUUGUUACCUCAACUAACAUUUAUAAAGCCACCUGCUUUUGAAACCCCGUGUUCAUAAC
........-.................(((((......((((..(((......)))..))))((((.(((((.....)))))))))......)))))..... ( -11.80)
>DroSec_CAF1 80848 89 - 1
UUACUAUA-UAAUAUCUUAGCAUUUUGAACAU-----------UUGUUACCUCAACUAACAUUUGUAGAGCCACUCGCUUUUAAAACCCCUUGUUCAUAAC
........-................((((((.-----------.(((((.......)))))((((.(((((.....)))))))))......)))))).... ( -10.40)
>DroSim_CAF1 85227 90 - 1
UUACUAUAAUAAUAUCUUAGCAUUUCGAACAU-----------UUGUUACCUCAACUGACAUUUGUAGAGCCACUCGCUUUUAAAACCCCUUGUUCAUAAC
..........................(((((.-----------.(((((.......)))))((((.(((((.....)))))))))......)))))..... ( -10.10)
>consensus
UUACUAUA_UAAUAUCUUAGCAUUUCGAACAU___________UUGUUACCUCAACUAACAUUUGUAGAGCCACUCGCUUUUAAAACCCCUUGUUCAUAAC
..........................(((((.............(((((.......)))))((((.(((((.....)))))))))......)))))..... (-10.81 =  -9.93 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:56 2006