Locus 819

Sequence ID X_DroMel_CAF1
Location 2,291,552 – 2,291,644
Length 92
Max. P 0.984447
window1323 window1324

overview

Window 3

Location 2,291,552 – 2,291,644
Length 92
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 78.00
Mean single sequence MFE -28.10
Consensus MFE -14.75
Energy contribution -16.83
Covariance contribution 2.09
Combinations/Pair 1.07
Mean z-score -2.67
Structure conservation index 0.52
SVM decision value 1.61
SVM RNA-class probability 0.967461
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2291552 92 + 22224390
-UGUCCGAUGUCCAUUGUGUCCAUCCGGAGGCGAGGGAGUCUC-----CUGCAUUUAAUAAAUAAAUAGCAGGCGACAGACAGACACACAGAUAGACA
-((((.....(((.((((.(((....))).)))).)))(((.(-----(((((((((.....))))).))))).))).))))................ ( -30.30)
>DroSec_CAF1 5762 92 + 1
-UGUCCGAUGUCCAUUGUGUCCAUCCGGAGGCGAGGGAGUCUC-----CUGCAUUUAAUAAAUAAAUAGCAGGCGACAGACAGACACACAGAGAGACA
-.((((..(((((.((((.(((....))).)))).)))(((.(-----(((((((((.....))))).))))).)))...........))..).))). ( -31.50)
>DroSim_CAF1 5374 92 + 1
-UGUCCGAUGUCCAUUGUGUCCAUCCGGAGGCGAGGGAGUCUC-----CUGCAUUUAAUAAAUAAAUAGCAGGCGACAGACAGACACACAGAGAGACA
-.((((..(((((.((((.(((....))).)))).)))(((.(-----(((((((((.....))))).))))).)))...........))..).))). ( -31.50)
>DroEre_CAF1 5753 81 + 1
-UGUCCGAUGUCCAUUGUGUCCAUCCGGAGGCGAGGGAGUCUC-----CUGCAUUUAAUAAAUAAAUAGCAGACGACAGACAGACAG-----------
-((((.(...(((.((((.(((....))).)))).)))(((..-----(((((((((.....))))).))))..)))...).)))).----------- ( -26.10)
>DroWil_CAF1 18080 81 + 1
-CGACCAAGAUCCAUU--GUCCAUUCUUAUAUAUGGAAGACUUUGGUCUGUCAUUUAAUAAAUAAAUAGCAAGAGACAGC--------------GGCA
-.(((((((.((....--.(((((........))))).)).))))))).((((((((.....))))).((........))--------------))). ( -17.90)
>DroYak_CAF1 5783 91 + 1
UUGUCCGCUGUCCAUUGUGUCCAUCCGCAGGCGAGGGAGUCUC-----CUGCAUUUAAUAAAUAAAUAGCAGGCGACAGACAGACAGACAGCA--UUU
......((((((...(.((((..(((........))).(((.(-----(((((((((.....))))).))))).))).)))).)..)))))).--... ( -31.30)
>consensus
_UGUCCGAUGUCCAUUGUGUCCAUCCGGAGGCGAGGGAGUCUC_____CUGCAUUUAAUAAAUAAAUAGCAGGCGACAGACAGACACACAGA__GACA
.((((.....(((.((((.(((....))).)))).)))((((......(((((((((.....))))).)))).....)))).))))............ (-14.75 = -16.83 +   2.09)

alignment

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secondary structure

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dotplot

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Window 4

Location 2,291,552 – 2,291,644
Length 92
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 78.00
Mean single sequence MFE -29.45
Consensus MFE -14.00
Energy contribution -14.70
Covariance contribution 0.70
Combinations/Pair 1.17
Mean z-score -3.11
Structure conservation index 0.48
SVM decision value 1.97
SVM RNA-class probability 0.984447
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2291552 92 - 22224390
UGUCUAUCUGUGUGUCUGUCUGUCGCCUGCUAUUUAUUUAUUAAAUGCAG-----GAGACUCCCUCGCCUCCGGAUGGACACAAUGGACAUCGGACA-
(((((((...((((((((((((..((((((.(((((.....)))))))))-----(((.....)))))...))))))))))))))))))).......- ( -33.80)
>DroSec_CAF1 5762 92 - 1
UGUCUCUCUGUGUGUCUGUCUGUCGCCUGCUAUUUAUUUAUUAAAUGCAG-----GAGACUCCCUCGCCUCCGGAUGGACACAAUGGACAUCGGACA-
.((((.((((((((((((((((..((((((.(((((.....)))))))))-----(((.....)))))...))))))))))).)))))....)))).- ( -32.50)
>DroSim_CAF1 5374 92 - 1
UGUCUCUCUGUGUGUCUGUCUGUCGCCUGCUAUUUAUUUAUUAAAUGCAG-----GAGACUCCCUCGCCUCCGGAUGGACACAAUGGACAUCGGACA-
.((((.((((((((((((((((..((((((.(((((.....)))))))))-----(((.....)))))...))))))))))).)))))....)))).- ( -32.50)
>DroEre_CAF1 5753 81 - 1
-----------CUGUCUGUCUGUCGUCUGCUAUUUAUUUAUUAAAUGCAG-----GAGACUCCCUCGCCUCCGGAUGGACACAAUGGACAUCGGACA-
-----------......(((((((..((((.(((((.....)))))))))-----..))).............((((..(.....)..)))))))).- ( -23.10)
>DroWil_CAF1 18080 81 - 1
UGCC--------------GCUGUCUCUUGCUAUUUAUUUAUUAAAUGACAGACCAAAGUCUUCCAUAUAUAAGAAUGGAC--AAUGGAUCUUGGUCG-
....--------------..((((..(((.((......)).)))..))))((((((..((((((((........))))).--...)))..)))))).- ( -19.60)
>DroYak_CAF1 5783 91 - 1
AAA--UGCUGUCUGUCUGUCUGUCGCCUGCUAUUUAUUUAUUAAAUGCAG-----GAGACUCCCUCGCCUGCGGAUGGACACAAUGGACAGCGGACAA
...--...((((((.(((((((((.(((((.(((((.....)))))))))-----).)))(((.(((....)))..)))......)))))))))))). ( -35.20)
>consensus
UGUC__UCUGUGUGUCUGUCUGUCGCCUGCUAUUUAUUUAUUAAAUGCAG_____GAGACUCCCUCGCCUCCGGAUGGACACAAUGGACAUCGGACA_
............(((((((((.....((((.(((((.....)))))))))......)))).............((((..(.....)..))))))))). (-14.00 = -14.70 +   0.70)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:32 2006