Locus 2414

Sequence ID 2L_DroMel_CAF1
Location 6,589,662 – 6,589,754
Length 92
Max. P 0.746587
window3884 window3885

overview

Window 4

Location 6,589,662 – 6,589,754
Length 92
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 78.81
Mean single sequence MFE -26.02
Consensus MFE -16.14
Energy contribution -16.03
Covariance contribution -0.11
Combinations/Pair 1.11
Mean z-score -1.67
Structure conservation index 0.62
SVM decision value 0.46
SVM RNA-class probability 0.746587
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6589662 92 + 22407834
CCUUUUGUUGACUA-UUGCGACGGCGAC------GAGGCUUGCACAUUAGUUUUAAUGCAUGUUUCAUGCGCCAUUAGGCUUAAUUAGUGGCAUUC----GCU--
......((((.(..-..)))))(((((.------(((((.((((............)))).)))))....((((((((......))))))))..))----)))-- ( -26.40)
>DroVir_CAF1 21957 92 + 1
--GGUUGGUGUGGGGUG---UGGAUUGC------AAGGAUUGCACAUUAGUUUUAAUGCAUGUUUCAUGCGCCAUUAGGCUUAAUUAGUGGCGUUCAUGCUCG--
--..........(((((---(((((.((------(.(((.((((............))))...))).)))((((((((......)))))))))))))))))).-- ( -27.90)
>DroGri_CAF1 25169 85 + 1
--------AGAGGAUUGGCGAGGAUUGC------AAGGAUUGCACAUUAGUUUUAAUGUAUGUUUCAUGCGCCAUUAGGCUUAAUUAGUGACAUUC----UCG--
--------..........((((((((((------(.....))))((((((((.....(((((...)))))(((....)))..))))))))..))))----)))-- ( -20.70)
>DroEre_CAF1 17917 98 + 1
CCUUUUGUUGACUA-UUGCGACGGCGACGGCGAAGAGGCUUGCACAUUAGUUUUAAUGCAUGUUUCAUGCGCCAUUAGGCUUAAUUAGUGGCAUUC----GCU--
....((((((.(..-..)))))))....(((((((((((.((((............)))).)))))....((((((((......)))))))).)))----)))-- ( -28.00)
>DroYak_CAF1 17799 92 + 1
CUUUUUGUUGACUA-UUGCGACGGCGAC------GAGGCUUGCACAUUAGUUUUAAUGCAUGUUUCAUGCGCCAUUAGGCUUAAUUAGUGGCAUUC----GCU--
......((((.(..-..)))))(((((.------(((((.((((............)))).)))))....((((((((......))))))))..))----)))-- ( -26.40)
>DroAna_CAF1 18387 88 + 1
CCUUUUGUUGACUA-------CGGCGAC------GAGGAUUGCACAUUAGUUUUAAUGCAUGUUUCAUGCGCCAUUAGGCUUAAUUAGUGGCAUUU----GCAGC
((((..((((.(..-------..)))))------)))).(((((.............(((((...)))))((((((((......))))))))...)----)))). ( -26.70)
>consensus
CCUUUUGUUGACUA_UUGCGACGGCGAC______GAGGAUUGCACAUUAGUUUUAAUGCAUGUUUCAUGCGCCAUUAGGCUUAAUUAGUGGCAUUC____GCU__
........................................(((.((((((((.....(((((...)))))(((....)))..)))))))))))............ (-16.14 = -16.03 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 5

Location 6,589,662 – 6,589,754
Length 92
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 78.81
Mean single sequence MFE -18.47
Consensus MFE -11.42
Energy contribution -11.75
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.46
Structure conservation index 0.62
SVM decision value 0.10
SVM RNA-class probability 0.583410
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6589662 92 - 22407834
--AGC----GAAUGCCACUAAUUAAGCCUAAUGGCGCAUGAAACAUGCAUUAAAACUAAUGUGCAAGCCUC------GUCGCCGUCGCAA-UAGUCAACAAAAGG
--.((----((..((..........))....(((((.((((..(.(((((..........))))).)..))------)))))))))))..-.............. ( -19.90)
>DroVir_CAF1 21957 92 - 1
--CGAGCAUGAACGCCACUAAUUAAGCCUAAUGGCGCAUGAAACAUGCAUUAAAACUAAUGUGCAAUCCUU------GCAAUCCA---CACCCCACACCAACC--
--...(((.((..((((........(((....)))(((((...)))))...........)).))..))..)------))......---...............-- ( -16.00)
>DroGri_CAF1 25169 85 - 1
--CGA----GAAUGUCACUAAUUAAGCCUAAUGGCGCAUGAAACAUACAUUAAAACUAAUGUGCAAUCCUU------GCAAUCCUCGCCAAUCCUCU--------
--(((----(...............(((....)))(((.......(((((((....))))))).......)------))....))))..........-------- ( -16.54)
>DroEre_CAF1 17917 98 - 1
--AGC----GAAUGCCACUAAUUAAGCCUAAUGGCGCAUGAAACAUGCAUUAAAACUAAUGUGCAAGCCUCUUCGCCGUCGCCGUCGCAA-UAGUCAACAAAAGG
--.((----((..((.((..((((....))))((((...((..(.(((((..........))))).)..))..)))))).))..))))..-.............. ( -20.50)
>DroYak_CAF1 17799 92 - 1
--AGC----GAAUGCCACUAAUUAAGCCUAAUGGCGCAUGAAACAUGCAUUAAAACUAAUGUGCAAGCCUC------GUCGCCGUCGCAA-UAGUCAACAAAAAG
--.((----((..((..........))....(((((.((((..(.(((((..........))))).)..))------)))))))))))..-.............. ( -19.90)
>DroAna_CAF1 18387 88 - 1
GCUGC----AAAUGCCACUAAUUAAGCCUAAUGGCGCAUGAAACAUGCAUUAAAACUAAUGUGCAAUCCUC------GUCGCCG-------UAGUCAACAAAAGG
(((((----....((..........)).....((((.((((....(((((..........)))))....))------)))))))-------)))).......... ( -18.00)
>consensus
__AGC____GAAUGCCACUAAUUAAGCCUAAUGGCGCAUGAAACAUGCAUUAAAACUAAUGUGCAAGCCUC______GUCGCCGUCGCAA_UAGUCAACAAAAGG
............((.(((.......(((....)))(((((...)))))............)))))........................................ (-11.42 = -11.75 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:28 2006