Locus 5981

Sequence ID 2R_DroMel_CAF1
Location 18,812,854 – 18,812,956
Length 102
Max. P 0.626153
window9594

overview

Window 4

Location 18,812,854 – 18,812,956
Length 102
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.64
Mean single sequence MFE -27.39
Consensus MFE -10.51
Energy contribution -11.55
Covariance contribution 1.05
Combinations/Pair 1.17
Mean z-score -2.25
Structure conservation index 0.38
SVM decision value 0.19
SVM RNA-class probability 0.626153
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18812854 102 + 20766785
UGAGCCGUUGUCGCUACAUAAAAUGCAAUUGCCAGGAAAA-------------AGGACGA-GGCGAAACUGGAAUGA-AUCCUUUUUGUCUUCAACGAAAUAAGCG-AAUAAUGGUA--U
...((((((((((((.........((....))........-------------.(...((-(((((((..(((....-.))).)))))))))...)......))))-.)))))))).--. ( -25.70)
>DroVir_CAF1 11851 87 + 1
UGAGCCCUUUUGGGCGUAUGA--UG----------GAGUA-------------AGGGAGGCGGG-----UAGGAUGUCGCCGCU-UUGUCUCGAACGGAAUAAGCGGGAUAAUGAAA--U
...(((((((((..(......--..----------)..))-------------)))).)))...-----.....((((.(((((-(..(((.....)))..))))))))))......--. ( -22.70)
>DroSec_CAF1 4668 101 + 1
UGAGCCGUUGUCGCUAAAUAAAAUGCAAUUGCCAGGAAAA-------------AGGAUGA-GGCGAAACGGGAAUGA-AUCCUU-UUGUCUCCAGCGAAAUAAGCG-AAUAAUGGUA--U
...((((((((((((........(((.....((.......-------------.))..((-((((((..((((....-.)))))-)))))))..))).....))))-.)))))))).--. ( -27.42)
>DroSim_CAF1 4756 101 + 1
UGAGCCGUUGUCGCUACAUAAAAUGCAAUUGCCAGGAAAA-------------AGGACGA-GGCGAAACUGGAAUGA-AUCCUU-UUGUCUCCAGCGAAAUAAGCG-AAUAAUGGUA--U
...((((((((((((........(((.....((.......-------------.))..((-(((((((..(((....-.)))))-)))))))..))).....))))-.)))))))).--. ( -27.02)
>DroEre_CAF1 3248 102 + 1
UGAGCCGUUGUCGCUACAUAAAAUGCAAUUGCCGGGAAAAA------------AGGACGA-GGGAAAACUGGAAUGA-AUCCUU-UUGUCUCCGGCGAAAUAAGCG-AAUAAUGGUA--U
...((((((((((((.(((...)))...(((((((((.(((------------(((((.(-(......)).).....-.)))))-)).)).)))))))....))))-.)))))))).--. ( -34.30)
>DroYak_CAF1 3581 116 + 1
UGAGCCGUUGUCGCUACAUAAAAUGCAAUUGCCGGCAAAAAAAAAAAAGAGGAAGGACGA-AGGAAAAGUGGAAUGA-AUCCUU-UUGUCUUCAGCGAAAUAAGCG-AAUAAUGGUAUAU
...((((((((((((........(((........)))...........(..(((((..((-((((............-.)))))-)..)))))..)......))))-.)))))))).... ( -27.22)
>consensus
UGAGCCGUUGUCGCUACAUAAAAUGCAAUUGCCAGGAAAA_____________AGGACGA_GGCGAAACUGGAAUGA_AUCCUU_UUGUCUCCAGCGAAAUAAGCG_AAUAAUGGUA__U
...((((((((((((.........((....))......................((((((..........(((......)))...))))))...........))))..)))))))).... (-10.51 = -11.55 +   1.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:35 2006