Locus 3626

Sequence ID 3L_DroMel_CAF1
Location 10,673,095 – 10,673,212
Length 117
Max. P 0.681724
window5653 window5654

overview

Window 3

Location 10,673,095 – 10,673,212
Length 117
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 86.28
Mean single sequence MFE -19.86
Consensus MFE -12.16
Energy contribution -11.96
Covariance contribution -0.20
Combinations/Pair 1.11
Mean z-score -2.17
Structure conservation index 0.61
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10673095 117 + 23771897
CAUGCAUUAAUCGAAAUUCCAAUAUUCCGCAACCCAUUAUUGCGGACCCUGCUGUGCUCGUCUAUCUACAAGGACAAACAAUCAUGUCCUACACUUGUUCCCAUACUCCCAGCAUCC
.((((......(((.((..((....(((((((.......)))))))...))..))..)))..........((((((........)))))).....................)))).. ( -21.60)
>DroSec_CAF1 7774 114 + 1
CUUGCAUUGAUCGGAAUCCCAAUAUUCCACAACCCAUUAUUGCGGACCCUGCUGUGCUCGU--AUCUACAAGGACAAACAAUCAUGUCCUACACUUGUUCCCAUACUC-CAGCAUCC
...(((......(((((......)))))....((((....)).))....))).(((((.((--((..(((((((((........)))))).....)))....))))..-.))))).. ( -21.00)
>DroSim_CAF1 7675 114 + 1
CAUGCAUUAAUCGGAAUCCCAAUAUUCCACAACCCAUUAUUGCGGACCCUGCUGUGCUCGU--AUCUACAAGGACAAACAAUCAUGUCCUACACUUGUUCCCAUACUC-CAGCAUCC
...(((......(((((......)))))....((((....)).))....))).(((((.((--((..(((((((((........)))))).....)))....))))..-.))))).. ( -21.00)
>DroEre_CAF1 8147 95 + 1
-------------------CAAUAUUCCACAACCCAUUAUUGCGAACCCAGCUGUGCUCGU--AUCUACAAGGACAAACAAUCAUGUCCUACACUUGUUCCCACACUC-CAGCAUCC
-------------------(((((.............)))))........((((.(...((--....(((((((((........)))))).....)))....))...)-)))).... ( -12.42)
>DroYak_CAF1 19104 114 + 1
CAUGUAUUAAUCCGCACAGCAAUAGCCCACAAUCCAUUAUUGCGAACCCCGCUGUGCUCGU--AUCUACAAGGACAAACAAUCAUGUCCUACGCUUGUUCCCAUACUC-CGGCAUCC
..((((.......(((((((.......(.((((.....)))).)......)))))))....--...))))((((((........))))))..(((.((......))..-.))).... ( -23.26)
>consensus
CAUGCAUUAAUCGGAAUCCCAAUAUUCCACAACCCAUUAUUGCGGACCCUGCUGUGCUCGU__AUCUACAAGGACAAACAAUCAUGUCCUACACUUGUUCCCAUACUC_CAGCAUCC
................................((((....)).)).....((((.....((......(((((((((........)))))).....)))......))...)))).... (-12.16 = -11.96 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 10,673,095 – 10,673,212
Length 117
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 86.28
Mean single sequence MFE -32.26
Consensus MFE -23.02
Energy contribution -22.62
Covariance contribution -0.40
Combinations/Pair 1.15
Mean z-score -1.86
Structure conservation index 0.71
SVM decision value 0.31
SVM RNA-class probability 0.681724
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10673095 117 - 23771897
GGAUGCUGGGAGUAUGGGAACAAGUGUAGGACAUGAUUGUUUGUCCUUGUAGAUAGACGAGCACAGCAGGGUCCGCAAUAAUGGGUUGCGGAAUAUUGGAAUUUCGAUUAAUGCAUG
..((((....(((.((..(....((((.(((((........)))))((((......))))))))..(((..((((((((.....))))))))...)))...)..)))))...)))). ( -31.60)
>DroSec_CAF1 7774 114 - 1
GGAUGCUG-GAGUAUGGGAACAAGUGUAGGACAUGAUUGUUUGUCCUUGUAGAU--ACGAGCACAGCAGGGUCCGCAAUAAUGGGUUGUGGAAUAUUGGGAUUCCGAUCAAUGCAAG
((((.(((-.....((....)).((((.(((((........)))))((((....--))))))))..))).)))).......((.((((((((((......))))))..)))).)).. ( -32.70)
>DroSim_CAF1 7675 114 - 1
GGAUGCUG-GAGUAUGGGAACAAGUGUAGGACAUGAUUGUUUGUCCUUGUAGAU--ACGAGCACAGCAGGGUCCGCAAUAAUGGGUUGUGGAAUAUUGGGAUUCCGAUUAAUGCAUG
..((((..-.(((.(((((.(..((((.(((((........)))))((((....--))))))))..(((..((((((((.....))))))))...))).).))))))))...)))). ( -32.70)
>DroEre_CAF1 8147 95 - 1
GGAUGCUG-GAGUGUGGGAACAAGUGUAGGACAUGAUUGUUUGUCCUUGUAGAU--ACGAGCACAGCUGGGUUCGCAAUAAUGGGUUGUGGAAUAUUG-------------------
....((((-(..((((...(((.....((((((........)))))))))...)--)))..).))))....((((((((.....))))))))......------------------- ( -24.60)
>DroYak_CAF1 19104 114 - 1
GGAUGCCG-GAGUAUGGGAACAAGCGUAGGACAUGAUUGUUUGUCCUUGUAGAU--ACGAGCACAGCGGGGUUCGCAAUAAUGGAUUGUGGGCUAUUGCUGUGCGGAUUAAUACAUG
.(((.((.-..(((((....)..(((.((((((........)))))))))..))--))..(((((((((((((((((((.....)))))))))).))))))))))))))........ ( -39.70)
>consensus
GGAUGCUG_GAGUAUGGGAACAAGUGUAGGACAUGAUUGUUUGUCCUUGUAGAU__ACGAGCACAGCAGGGUCCGCAAUAAUGGGUUGUGGAAUAUUGGGAUUCCGAUUAAUGCAUG
((((.(((......((....)).((((.(((((........)))))((((......))))))))..))).))))(((((.....)))))............................ (-23.02 = -22.62 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:36 2006