Locus 6516

Sequence ID 2L_DroMel_CAF1
Location 18,336,287 – 18,336,385
Length 98
Max. P 0.613148
window10397 window10398

overview

Window 7

Location 18,336,287 – 18,336,385
Length 98
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 80.05
Mean single sequence MFE -25.96
Consensus MFE -15.84
Energy contribution -16.51
Covariance contribution 0.67
Combinations/Pair 1.31
Mean z-score -1.65
Structure conservation index 0.61
SVM decision value 0.16
SVM RNA-class probability 0.613148
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18336287 98 + 22407834
UAUGGCUGCCUUGCCUGCGUGGAUAU----AAUUAUGCCUAUUUCCUAUGUGCGCCACAUUUCCAUGAGAGCUGCA----CUGGUAUAUACA----UAUGUAUAUGUUGA
...(((......))).(((((.((((----(..((((((..........(((((((.(((....))).).)).)))----).))))))....----))))).)))))... ( -21.50)
>DroSec_CAF1 179991 89 + 1
---------CGCGUCUGCGUGGAUAU----AAUUAUGCCUAUUUCCUAUGUGCGCCACAUUUCCAUGCGAGCUGCG----CUGGCAUAUACA----UAUGUAUAUGUUAA
---------((((..((((((((...----.....(((.(((.....))).))).......))))))))..).)))----.((((((((((.----...)))))))))). ( -27.96)
>DroSim_CAF1 188171 98 + 1
UAUGGCUGCCUUGCCUGCGUGGAUAU----AAUUAUGCCUAUUUCCUAUGUGCGCCACAUUUCCAUGCGAGCUGCG----CUGGCAUAUACA----UAUGUAUAUGUUAA
...(((.((...((.((((((((...----.....(((.(((.....))).))).......)))))))).)).)))----))(((((((((.----...))))))))).. ( -29.16)
>DroEre_CAF1 181331 94 + 1
UAUGGCUGCCUUGCCUGCGUGGAUAU----AAUUAUGCCUAUUUCCUAUGUGCGCCGCAUUUCCAUGCGAGCUGCG----CUGCUAU--------AUACAUAUAUGUUAA
((((((.((...((.((((((((...----.....(((.(((.....))).))).......)))))))).))...)----).)))))--------).............. ( -25.26)
>DroYak_CAF1 191129 106 + 1
UAUGGCUGCCCUGCCUGCGUGGAUAUAUGUAAUUAUGCCUAUUUCCUAUGUGCGCCACAUUUCCAUGCGAGCUGCG----CUGGUAUAUAUGUAUAUACAUAUAUGUUAA
...(((.((...((.((((((((...((((.....(((.(((.....))).)))..)))).)))))))).)).)))----))..(((((((((....))))))))).... ( -28.60)
>DroAna_CAF1 163681 102 + 1
GACGGGUUCCUCGCCCGUGUGGAUCU----GAUUAUGCCAAUUUCCUAUGUGCGCCCCAUUUCCAUACUGGCUCCGGGCACAACUAUAUACG----CACUCAUAUGUUAA
(((((((.....))))(((((.....----......((((........)).))((((.....((.....))....))))...........))----)))......))).. ( -23.30)
>consensus
UAUGGCUGCCUUGCCUGCGUGGAUAU____AAUUAUGCCUAUUUCCUAUGUGCGCCACAUUUCCAUGCGAGCUGCG____CUGGUAUAUACA____UACGUAUAUGUUAA
............((.((((((((........................(((((...))))).)))))))).)).........(((((((((((......))))))))))). (-15.84 = -16.51 +   0.67)

alignment

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secondary structure

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dotplot

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Window 8

Location 18,336,287 – 18,336,385
Length 98
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 80.05
Mean single sequence MFE -26.25
Consensus MFE -13.77
Energy contribution -15.13
Covariance contribution 1.36
Combinations/Pair 1.26
Mean z-score -1.96
Structure conservation index 0.52
SVM decision value -0.04
SVM RNA-class probability 0.515670
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18336287 98 - 22407834
UCAACAUAUACAUA----UGUAUAUACCAG----UGCAGCUCUCAUGGAAAUGUGGCGCACAUAGGAAAUAGGCAUAAUU----AUAUCCACGCAGGCAAGGCAGCCAUA
.....((((((...----.))))))....(----(((.(((..(((....))).)))))))...(((.((((......))----)).))).....(((......)))... ( -24.90)
>DroSec_CAF1 179991 89 - 1
UUAACAUAUACAUA----UGUAUAUGCCAG----CGCAGCUCGCAUGGAAAUGUGGCGCACAUAGGAAAUAGGCAUAAUU----AUAUCCACGCAGACGCG---------
....(((((((...----.)))))))...(----(((.((((((((....)))))).)).....(((.((((......))----)).))).....).))).--------- ( -24.70)
>DroSim_CAF1 188171 98 - 1
UUAACAUAUACAUA----UGUAUAUGCCAG----CGCAGCUCGCAUGGAAAUGUGGCGCACAUAGGAAAUAGGCAUAAUU----AUAUCCACGCAGGCAAGGCAGCCAUA
....(((((((...----.)))))))...(----(((.((.(((((....))))))))).....(((.((((......))----)).)))..)).(((......)))... ( -29.30)
>DroEre_CAF1 181331 94 - 1
UUAACAUAUAUGUAU--------AUAGCAG----CGCAGCUCGCAUGGAAAUGCGGCGCACAUAGGAAAUAGGCAUAAUU----AUAUCCACGCAGGCAAGGCAGCCAUA
...............--------...((.(----(((....(((((....))))))))).....(((.((((......))----)).)))..)).(((......)))... ( -25.60)
>DroYak_CAF1 191129 106 - 1
UUAACAUAUAUGUAUAUACAUAUAUACCAG----CGCAGCUCGCAUGGAAAUGUGGCGCACAUAGGAAAUAGGCAUAAUUACAUAUAUCCACGCAGGCAGGGCAGCCAUA
.....((((((((....))))))))....(----(((.((.(((((....))))))))).....(((.(((............))).)))..)).(((......)))... ( -27.00)
>DroAna_CAF1 163681 102 - 1
UUAACAUAUGAGUG----CGUAUAUAGUUGUGCCCGGAGCCAGUAUGGAAAUGGGGCGCACAUAGGAAAUUGGCAUAAUC----AGAUCCACACGGGCGAGGAACCCGUC
...........(((----((((((....))).((((...((.....))...))))))))))...(((..((((.....))----)).)))..(((((.......))))). ( -26.00)
>consensus
UUAACAUAUACAUA____UGUAUAUACCAG____CGCAGCUCGCAUGGAAAUGUGGCGCACAUAGGAAAUAGGCAUAAUU____AUAUCCACGCAGGCAAGGCAGCCAUA
.....(((((((......)))))))..........((.((((((((....)))))).)).....(((....................)))..)).(((......)))... (-13.77 = -15.13 +   1.36)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:05 2006