Locus 3711

Sequence ID 2L_DroMel_CAF1
Location 10,811,963 – 10,812,076
Length 113
Max. P 0.919809
window5847 window5848

overview

Window 7

Location 10,811,963 – 10,812,059
Length 96
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 81.29
Mean single sequence MFE -19.25
Consensus MFE -12.59
Energy contribution -13.65
Covariance contribution 1.06
Combinations/Pair 1.12
Mean z-score -2.44
Structure conservation index 0.65
SVM decision value 0.86
SVM RNA-class probability 0.869534
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10811963 96 + 22407834
AGUCCAGCUAAAUAAUUAAUUAAUCCGGCUUUCGUUUCGUUACCAAAGACAAGGGAUUAAAAUCUCAUUGCAUGGCCCACAAGGUAUGCAAUAAAG
...................(((((((.(((((.((......)).)))).)...)))))))......((((((((.((.....)))))))))).... ( -18.50)
>DroSec_CAF1 45607 94 + 1
--UCCAGCUAAAUAAUUAAUUAAUCCGGCUUUUGUUUCCUUACCACAGACAAGGGAUUAAAAUCUCAUUGCAUGCCCCACAAGGUAUGCAAUAAAA
--.................(((((((....(((((((.........))))))))))))))......((((((((((......)))))))))).... ( -21.40)
>DroSim_CAF1 51041 96 + 1
AGUCCAGCUAAAUAAUUAAUUAAUCCGGCUUUUGUUUCCUUACAACAGACAAGGGAUUAAAAUCUCAUUGCAUGCCCCACAAGGUAUGCAAUAAAA
...................(((((((.(((.((((......)))).)).)...)))))))......((((((((((......)))))))))).... ( -23.10)
>DroEre_CAF1 46563 96 + 1
AGUCCAGCUUAAUAAUUAAAUAAUCCGGCUUUUCUUUCCUUACCAAAGACAAGGGAUUAAAAUCUCAUUGCAUGCCCCCCGAAGUAUGCAAUAAAA
....................((((((..(((.(((((.......))))).))))))))).......(((((((((........))))))))).... ( -18.70)
>DroYak_CAF1 47615 96 + 1
AGUUCAGCAAAAUAAUUAAUUAAUCCGGGUUUUGUUGCCUUACCAAAGACAUGGGAUUAAAAUCUCAUUGCAUGCCCCACAAGGUAUGCAAUAAAA
...................(((((((.((((((............))))).).)))))))......((((((((((......)))))))))).... ( -23.10)
>DroAna_CAF1 46148 83 + 1
-------AAAAGAAACUAAUUAAUCCGCA------ACCCCAACCAAGGACAUGGGAUUAAAAUCUCGUUUAGUUCCGCCUGAAAUAUACAAUAAAA
-------....(.(((((((((((((.((------...((......))...)))))))))........)))))).).................... ( -10.70)
>consensus
AGUCCAGCUAAAUAAUUAAUUAAUCCGGCUUUUGUUUCCUUACCAAAGACAAGGGAUUAAAAUCUCAUUGCAUGCCCCACAAGGUAUGCAAUAAAA
...................(((((((...........................)))))))......((((((((((......)))))))))).... (-12.59 = -13.65 +   1.06)

alignment

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secondary structure

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dotplot

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Window 8

Location 10,811,986 – 10,812,076
Length 90
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 79.71
Mean single sequence MFE -19.18
Consensus MFE -12.19
Energy contribution -13.08
Covariance contribution 0.89
Combinations/Pair 1.13
Mean z-score -2.31
Structure conservation index 0.64
SVM decision value 1.13
SVM RNA-class probability 0.919809
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10811986 90 + 22407834
UCCGGCUUUCGUUUCGUUACCAAAGACAAGGGAUUAAAAUCUCAUUGCAUGGCCCACAAGGUAUGCAAUAAAGAUUGAUACCAAAA-----AAAC-
...((...(((..(((((......)))..(((((....)))))((((((((.((.....))))))))))...)).)))..))....-----....- ( -17.30)
>DroSec_CAF1 45628 89 + 1
UCCGGCUUUUGUUUCCUUACCACAGACAAGGGAUUAAAAUCUCAUUGCAUGCCCCACAAGGUAUGCAAUAAAAAUUGAUC-CGAAA-----AAAC-
.......(((((((.........)))))))(((((((......((((((((((......)))))))))).....))))))-)....-----....- ( -22.20)
>DroSim_CAF1 51064 89 + 1
UCCGGCUUUUGUUUCCUUACAACAGACAAGGGAUUAAAAUCUCAUUGCAUGCCCCACAAGGUAUGCAAUAAAAAUUGAUC-CGAAA-----AAAA-
..(((((.((((......)))).)).((((((((....)))))((((((((((......)))))))))).....)))..)-))...-----....- ( -23.20)
>DroEre_CAF1 46586 89 + 1
UCCGGCUUUUCUUUCCUUACCAAAGACAAGGGAUUAAAAUCUCAUUGCAUGCCCCCCGAAGUAUGCAAUAAAAAUUGAUA-CGGAA-----AAAA-
((((.....(((((.......)))))((((((((....)))))(((((((((........))))))))).....)))...-)))).-----....- ( -20.70)
>DroYak_CAF1 47638 89 + 1
UCCGGGUUUUGUUGCCUUACCAAAGACAUGGGAUUAAAAUCUCAUUGCAUGCCCCACAAGGUAUGCAAUAAAAAUUGAUA-CGAAA-----AAAC-
..(((((......)))....(((......(((((....)))))((((((((((......)))))))))).....)))...-))...-----....- ( -20.90)
>DroAna_CAF1 46164 89 + 1
UCCGCA------ACCCCAACCAAGGACAUGGGAUUAAAAUCUCGUUUAGUUCCGCCUGAAAUAUACAAUAAAAACUGAAC-CUGACCACUGACAUC
......------...........((....(((((....)))))((((((((.....((.......)).....))))))))-....))......... ( -10.80)
>consensus
UCCGGCUUUUGUUUCCUUACCAAAGACAAGGGAUUAAAAUCUCAUUGCAUGCCCCACAAGGUAUGCAAUAAAAAUUGAUA_CGAAA_____AAAC_
.............................(((((....)))))((((((((((......))))))))))........................... (-12.19 = -13.08 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:11 2006