Locus 4556

Sequence ID X_DroMel_CAF1
Location 11,980,205 – 11,980,313
Length 108
Max. P 0.785375
window7489 window7490

overview

Window 9

Location 11,980,205 – 11,980,313
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.84
Mean single sequence MFE -24.58
Consensus MFE -10.50
Energy contribution -12.92
Covariance contribution 2.42
Combinations/Pair 1.19
Mean z-score -2.41
Structure conservation index 0.43
SVM decision value 0.57
SVM RNA-class probability 0.785375
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11980205 108 + 22224390
--UUCCGGUUGAUUUUGCAUGC----------AUUUAUUUAUGAUUUCGAUGGAUUUCUAUGGGAAAUUAAAACAAAUUGGUAAAUAAAUAAUGCACACACAACAGCAAAAUCAUGCGAA
--...((..(((((((((.(((----------(((.((((((....(((((.((((((.....)))))).......)))))...)))))))))))).........)))))))))..)).. ( -23.40)
>DroPse_CAF1 116540 116 + 1
ACUCCCGUUCGAAUGUCCAUUCCGGCACUCCAAUUUAUUCAUGAUUCCGAUGGAUUACUUUGCGAGAUGCAAACAUAACGCAAAAUAAAUAAUACACAAGC----UGAAAAUCAUGCGAA
.......((((.(((.......((((...........(((((.......)))))(((.((((((..(((....)))..)))))).)))...........))----)).....))).)))) ( -18.30)
>DroSec_CAF1 19993 108 + 1
--UUCCGGUUGAUUUUGCAUGC----------AUUUAUUUGUGAUUUCGAUGGAUUUCUAUGGGAAAUUAAAACAAAUUGGUUAAUAAAUAAUGCACACACAACGGCAAAAUCAUGCGAA
--...((..(((((((((.(((----------(((.((((((..((((.((((....)))).)))).....(((......))).))))))))))))..(.....))))))))))..)).. ( -24.90)
>DroEre_CAF1 18782 108 + 1
--UUUCGCAUGAUUUCGCAUGC----------AUUUAUUUAUGAUUUCGAUGGAUUUCUAUGGUAAAUUAAAAUAAAUUGGUAAAUAAAUAAUGCACACACAACAGCAAAAUCAUGCGAA
--.((((((((((((.((.(((----------(((.((((((....(((((..((((..((.....))..))))..)))))...)))))))))))).........)).)))))))))))) ( -28.50)
>DroYak_CAF1 19664 108 + 1
--UUCCGGAUGAUUUUGCAUGC----------AUUUAUUUAUGAUUUCGAUGGAUUUCUAUGCGAAAUUAAAACAAAUUGGUAAAUAAAUAAUGCACAUGCAACAGCAAAAUCAUUCGAA
--...(((((((((((((....----------(((((((((((((((((((((....)))).)))))))....(.....)))))))))))..(((....)))...))))))))))))).. ( -34.10)
>DroPer_CAF1 121391 116 + 1
ACUCCCGUUCGAAUGUCCAUUCCGGCACUCCAAUUUAUUCAUGAUUCCGAUGGAUUACUUUGCGAGAUGCAAACAUAACGCAAAAUAAAUAAUACACAAGC----UGAAAAUCAUGCGAA
.......((((.(((.......((((...........(((((.......)))))(((.((((((..(((....)))..)))))).)))...........))----)).....))).)))) ( -18.30)
>consensus
__UUCCGGUUGAUUUUGCAUGC__________AUUUAUUUAUGAUUUCGAUGGAUUUCUAUGCGAAAUUAAAACAAAUUGGUAAAUAAAUAAUGCACACACAACAGCAAAAUCAUGCGAA
.....(((.(((((((((................((((((((....(((((.((((((.....)))))).......)))))...)))))))).............))))))))).))).. (-10.50 = -12.92 +   2.42)

alignment

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secondary structure

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dotplot

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Window 0

Location 11,980,205 – 11,980,313
Length 108
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.84
Mean single sequence MFE -25.53
Consensus MFE -11.69
Energy contribution -13.28
Covariance contribution 1.59
Combinations/Pair 1.21
Mean z-score -2.13
Structure conservation index 0.46
SVM decision value 0.23
SVM RNA-class probability 0.643623
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11980205 108 - 22224390
UUCGCAUGAUUUUGCUGUUGUGUGUGCAUUAUUUAUUUACCAAUUUGUUUUAAUUUCCCAUAGAAAUCCAUCGAAAUCAUAAAUAAAU----------GCAUGCAAAAUCAACCGGAA--
((((..(((((((((........(((((((...((((((....((((.....(((((.....)))))....))))....)))))))))----------)))))))))))))..)))).-- ( -21.60)
>DroPse_CAF1 116540 116 - 1
UUCGCAUGAUUUUCA----GCUUGUGUAUUAUUUAUUUUGCGUUAUGUUUGCAUCUCGCAAAGUAAUCCAUCGGAAUCAUGAAUAAAUUGGAGUGCCGGAAUGGACAUUCGAACGGGAGU
(((((((((((((..----((....)).....((((((((((..(((....)))..))))))))))......)))))))))......((.(((((((.....)).))))).))))))... ( -28.80)
>DroSec_CAF1 19993 108 - 1
UUCGCAUGAUUUUGCCGUUGUGUGUGCAUUAUUUAUUAACCAAUUUGUUUUAAUUUCCCAUAGAAAUCCAUCGAAAUCACAAAUAAAU----------GCAUGCAAAAUCAACCGGAA--
((((..(((((((((........(((((((...((((......((((.....(((((.....)))))....))))......)))))))----------)))))))))))))..)))).-- ( -19.00)
>DroEre_CAF1 18782 108 - 1
UUCGCAUGAUUUUGCUGUUGUGUGUGCAUUAUUUAUUUACCAAUUUAUUUUAAUUUACCAUAGAAAUCCAUCGAAAUCAUAAAUAAAU----------GCAUGCGAAAUCAUGCGAAA--
(((((((((((((((........(((((((((((((...........(((((........))))).......(....))))))).)))----------))))))))))))))))))).-- ( -27.90)
>DroYak_CAF1 19664 108 - 1
UUCGAAUGAUUUUGCUGUUGCAUGUGCAUUAUUUAUUUACCAAUUUGUUUUAAUUUCGCAUAGAAAUCCAUCGAAAUCAUAAAUAAAU----------GCAUGCAAAAUCAUCCGGAA--
((((.((((((((((((((((....)))..(((((((((....((((.....(((((.....)))))....))))....)))))))))----------))).)))))))))).)))).-- ( -27.10)
>DroPer_CAF1 121391 116 - 1
UUCGCAUGAUUUUCA----GCUUGUGUAUUAUUUAUUUUGCGUUAUGUUUGCAUCUCGCAAAGUAAUCCAUCGGAAUCAUGAAUAAAUUGGAGUGCCGGAAUGGACAUUCGAACGGGAGU
(((((((((((((..----((....)).....((((((((((..(((....)))..))))))))))......)))))))))......((.(((((((.....)).))))).))))))... ( -28.80)
>consensus
UUCGCAUGAUUUUGCUGUUGCGUGUGCAUUAUUUAUUUACCAAUUUGUUUUAAUUUCCCAUAGAAAUCCAUCGAAAUCAUAAAUAAAU__________GCAUGCAAAAUCAACCGGAA__
((((..(((((((((...(((.........((((((((.....((((.....(((((.....)))))....)))).....))))))))..........))).)))))))))..))))... (-11.69 = -13.28 +   1.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:02 2006