Locus 7437

Sequence ID 3L_DroMel_CAF1
Location 19,987,702 – 19,987,807
Length 105
Max. P 0.861555
window12082 window12083

overview

Window 2

Location 19,987,702 – 19,987,807
Length 105
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.74
Mean single sequence MFE -28.19
Consensus MFE -20.44
Energy contribution -20.88
Covariance contribution 0.45
Combinations/Pair 1.12
Mean z-score -1.23
Structure conservation index 0.72
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19987702 105 + 23771897
UGAGAAU-GCAUAU-------CCUGUUUUUUGUUCUGUUUGUCUCGCCCUUUUGGGGACAGUCAUUGC-----AUUGCACUUAAGUGCUGGAACUCUUUGUUUCCUUGACACAGACA--C
..((((.-(((...-------..))).))))..(((((.((((...(((....)))))))((((....-----...((((....)))).(((((.....)))))..)))))))))..--. ( -24.70)
>DroSec_CAF1 77755 105 + 1
UGAGAAU-GAAUAU-------CCUGUUUUUUGUGCUGUUUGUCUCGCCCUUUUGGGGACAGUCAUUGC-----AUUGCACUUAAGUGCUGGAACUCUUUGUUCCCUUGACACAGACA--C
.......-......-------..........(((((((.((((...(((....)))))))((((....-----...((((....)))).(((((.....)))))..)))))))).))--) ( -27.90)
>DroSim_CAF1 36502 104 + 1
UGAGAAU-GCAUAC-------CCUGUU-UUUGUGCUGUUUGUCUCGCCCUUUUGGGGACAGUCAUUGC-----AUUGCACUUAAGUGCUGGAACUCUUUGUUCCCUUGACACAGACA--C
.......-(((((.-------......-..)))))(((((((.((.(((....)))))..((((....-----...((((....)))).(((((.....)))))..)))))))))))--. ( -29.10)
>DroEre_CAF1 28260 94 + 1
-----------------------UGUUUUUUGUGCUGUUUGUCUCGC-CUUUUGGGGACAGUCAUUGCAUUGCAUUGCACUUAAGAGCUGCAACUCUUUGUUCCCUUGACACAGACA--C
-----------------------............(((((((.(((.-.....(((((((.....((((......))))...(((((......)))))))))))).))).)))))))--. ( -24.10)
>DroYak_CAF1 29548 110 + 1
UAAGGAUUGCGCACCA---UUUCUGUUUUUUGUGCUGUUUGCCUCGCCCUUUUGGGGACAGUCAUUGC-----AUUGCACUUAAGAGCUGGAACUCUUUGUUCCCUUGACACAGACA--C
........(((((...---...........)))))((((((..((...((((((((..((((......-----))))..))))))))..(((((.....)))))...))..))))))--. ( -25.04)
>DroAna_CAF1 31628 107 + 1
--------GGGCACCCCGGAUGCCCUUUUUCGUCCUGUUUGCCUCGCCCUUUUGGGGACAGUCAUUGC-----AUUGCACUUAAGUGCUGGAGCGCUUUGUUCCCCUGACACAGGCAGGC
--------((((((....).)))))........((((((((..((.(((....)))))..((((....-----...((((....)))).(((((.....)))))..)))).)))))))). ( -38.30)
>consensus
UGAGAAU_GCAUAC_______CCUGUUUUUUGUGCUGUUUGUCUCGCCCUUUUGGGGACAGUCAUUGC_____AUUGCACUUAAGUGCUGGAACUCUUUGUUCCCUUGACACAGACA__C
...............................((.((((.((((((.........))))))((((............((((....)))).(((((.....)))))..)))))))))).... (-20.44 = -20.88 +   0.45)

alignment

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secondary structure

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dotplot

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Window 3

Location 19,987,702 – 19,987,807
Length 105
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.74
Mean single sequence MFE -29.93
Consensus MFE -21.08
Energy contribution -21.88
Covariance contribution 0.81
Combinations/Pair 1.07
Mean z-score -2.36
Structure conservation index 0.70
SVM decision value 0.83
SVM RNA-class probability 0.861555
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19987702 105 - 23771897
G--UGUCUGUGUCAAGGAAACAAAGAGUUCCAGCACUUAAGUGCAAU-----GCAAUGACUGUCCCCAAAAGGGCGAGACAAACAGAACAAAAAACAGG-------AUAUGC-AUUCUCA
(--(.(((((((((.((((........)))).((((....))))...-----....))))(((((((....)))...)))).))))))).......(((-------((....-))))).. ( -25.50)
>DroSec_CAF1 77755 105 - 1
G--UGUCUGUGUCAAGGGAACAAAGAGUUCCAGCACUUAAGUGCAAU-----GCAAUGACUGUCCCCAAAAGGGCGAGACAAACAGCACAAAAAACAGG-------AUAUUC-AUUCUCA
(--((.((((((((..(((((.....))))).((((....))))...-----....))))(((((((....)))...)))).))))))).......(((-------((....-))))).. ( -30.90)
>DroSim_CAF1 36502 104 - 1
G--UGUCUGUGUCAAGGGAACAAAGAGUUCCAGCACUUAAGUGCAAU-----GCAAUGACUGUCCCCAAAAGGGCGAGACAAACAGCACAAA-AACAGG-------GUAUGC-AUUCUCA
(--((.((((((((..(((((.....))))).((((....))))...-----....))))(((((((....)))...)))).)))))))...-....((-------(.....-...))). ( -31.70)
>DroEre_CAF1 28260 94 - 1
G--UGUCUGUGUCAAGGGAACAAAGAGUUGCAGCUCUUAAGUGCAAUGCAAUGCAAUGACUGUCCCCAAAAG-GCGAGACAAACAGCACAAAAAACA-----------------------
(--((.((((((((........((((((....))))))...((((......)))).))))(((((((....)-).).)))).)))))))........----------------------- ( -25.60)
>DroYak_CAF1 29548 110 - 1
G--UGUCUGUGUCAAGGGAACAAAGAGUUCCAGCUCUUAAGUGCAAU-----GCAAUGACUGUCCCCAAAAGGGCGAGGCAAACAGCACAAAAAACAGAAA---UGGUGCGCAAUCCUUA
(--((.((((((((..(((((.....))))).((........))...-----....))))(((((((....)))...)))).)))))))......((....---)).............. ( -27.10)
>DroAna_CAF1 31628 107 - 1
GCCUGCCUGUGUCAGGGGAACAAAGCGCUCCAGCACUUAAGUGCAAU-----GCAAUGACUGUCCCCAAAAGGGCGAGGCAAACAGGACGAAAAAGGGCAUCCGGGGUGCCC--------
((((((((......(((((.......((....((((....))))...-----))........)))))....)))).))))...............((((((.....))))))-------- ( -38.76)
>consensus
G__UGUCUGUGUCAAGGGAACAAAGAGUUCCAGCACUUAAGUGCAAU_____GCAAUGACUGUCCCCAAAAGGGCGAGACAAACAGCACAAAAAACAGG_______GUAUGC_AUUCUCA
...(((((((((((..(((((.....))))).((((....))))............))))(((((((....)))...)))).)))).))).............................. (-21.08 = -21.88 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:02 2006