Locus 3766

Sequence ID X_DroMel_CAF1
Location 9,975,917 – 9,976,007
Length 90
Max. P 0.844310
window6186 window6187

overview

Window 6

Location 9,975,917 – 9,976,007
Length 90
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 63.30
Mean single sequence MFE -24.42
Consensus MFE -10.81
Energy contribution -12.71
Covariance contribution 1.89
Combinations/Pair 1.29
Mean z-score -1.70
Structure conservation index 0.44
SVM decision value 0.76
SVM RNA-class probability 0.844310
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9975917 90 + 22224390
-ACCCACACGCUAAAGUGG-CCUUGUCCUUGUGUUUUAAGCAUGAU-UUACAUGCUGGCCAAAACAAAAACUUUUAAUGGCCAA-GAGUGGCAG--------------------------
-........((((...(((-(((((......((((((.((((((..-...))))))....))))))........))).))))).-...))))..-------------------------- ( -25.14)
>DroPse_CAF1 32704 117 + 1
CGCCCACCCUUC-UGUUGG-ACCUGUCACUGGGCCUUAAGCAUGAU-UUACAUGUCUGCCACAACAAAAACUUUUAAUGGCUGAACAGAAGCAGAAGCAGAAGCCGGCGCCGGCGCCGAA
........((((-((((..-..((((..(((..(.....(((((..-...)))))..((((................)))).)..)))..)))).)))))))).(((((....))))).. ( -33.79)
>DroSec_CAF1 21260 91 + 1
CACCCACUCACUAAAGUGG-CCUUGUCCUUGUGUUUUAAGCAUGAU-UUACAUGCUGGCCAAAACAAAAACUUUUAAUGGCCAA-GAGUGGCAG--------------------------
...((((((((....))((-(((((......((((((.((((((..-...))))))....))))))........))).))))..-))))))...-------------------------- ( -27.04)
>DroEre_CAF1 8584 89 + 1
-ACCCACUCGCUAAAGUGG-CCUUGUCCUUGUGUGUUAAGCAUGAU-UUACAUGCUGGCCAAAACAAAAACUUUUAAUGGCCAA--AGUGGCAG--------------------------
-........((((...(((-((..((..((((..((((.(((((..-...)))))))))....))))..)).......))))).--..))))..-------------------------- ( -25.00)
>DroYak_CAF1 8876 90 + 1
-GCUCACUCGUUUAAGUGG-CCUUGUCCUUGUGUUUUAAGCAUGAU-UUACAUGCUGGCCAAAACAAAAACUUUUAAUGGCCAA-GAGUGGCAG--------------------------
-((.(((((.......(((-(((((......((((((.((((((..-...))))))....))))))........))).))))).-)))))))..-------------------------- ( -28.14)
>DroPer_CAF1 33435 114 + 1
CGCCCACUCUUC-UGUUGAUACCUGUCACUGCGUCUUAAGCAUGAUUUUACAUGUCUGCCACAACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-----
............-.((.((((...((((.(((.......)))))))......)))).))........................................................----- (  -7.40)
>consensus
_ACCCACUCGCUAAAGUGG_CCUUGUCCUUGUGUUUUAAGCAUGAU_UUACAUGCUGGCCAAAACAAAAACUUUUAAUGGCCAA_GAGUGGCAG__________________________
...(((((......)))))...(((((............(((((......)))))((((((................))))))......))))).......................... (-10.81 = -12.71 +   1.89)

alignment

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secondary structure

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dotplot

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Window 7

Location 9,975,917 – 9,976,007
Length 90
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 63.30
Mean single sequence MFE -25.15
Consensus MFE -12.97
Energy contribution -15.20
Covariance contribution 2.23
Combinations/Pair 1.28
Mean z-score -1.27
Structure conservation index 0.52
SVM decision value 0.14
SVM RNA-class probability 0.602912
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9975917 90 - 22224390
--------------------------CUGCCACUC-UUGGCCAUUAAAAGUUUUUGUUUUGGCCAGCAUGUAA-AUCAUGCUUAAAACACAAGGACAAGG-CCACUUUAGCGUGUGGGU-
--------------------------...((((.(-((((((.((....((((((((.((....((((((...-..))))))...)).))))))))))))-)))....))...))))..- ( -24.50)
>DroPse_CAF1 32704 117 - 1
UUCGGCGCCGGCGCCGGCUUCUGCUUCUGCUUCUGUUCAGCCAUUAAAAGUUUUUGUUGUGGCAGACAUGUAA-AUCAUGCUUAAGGCCCAGUGACAGGU-CCAACA-GAAGGGUGGGCG
.((((((....)))))).....(((..(.((((((((..(((((.....))..(..(((.(((((.((((...-..))))))....))))))..)..)))-..))))-)))).)..))). ( -37.70)
>DroSec_CAF1 21260 91 - 1
--------------------------CUGCCACUC-UUGGCCAUUAAAAGUUUUUGUUUUGGCCAGCAUGUAA-AUCAUGCUUAAAACACAAGGACAAGG-CCACUUUAGUGAGUGGGUG
--------------------------...((((((-..((((.((....((((((((.((....((((((...-..))))))...)).))))))))))))-))((....))))))))... ( -28.50)
>DroEre_CAF1 8584 89 - 1
--------------------------CUGCCACU--UUGGCCAUUAAAAGUUUUUGUUUUGGCCAGCAUGUAA-AUCAUGCUUAACACACAAGGACAAGG-CCACUUUAGCGAGUGGGU-
--------------------------...(((((--((((((.((....((((((((..((...((((((...-..))))))...)).))))))))))))-))).......))))))..- ( -27.41)
>DroYak_CAF1 8876 90 - 1
--------------------------CUGCCACUC-UUGGCCAUUAAAAGUUUUUGUUUUGGCCAGCAUGUAA-AUCAUGCUUAAAACACAAGGACAAGG-CCACUUAAACGAGUGAGC-
--------------------------..(((((((-.(((((.((....((((((((.((....((((((...-..))))))...)).))))))))))))-))).......))))).))- ( -25.60)
>DroPer_CAF1 33435 114 - 1
-----NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGUUGUGGCAGACAUGUAAAAUCAUGCUUAAGACGCAGUGACAGGUAUCAACA-GAAGAGUGGGCG
-----..................................................((..(.((((.((((......))))))......)).)..))..((....((.-.....))..)). (  -7.20)
>consensus
__________________________CUGCCACUC_UUGGCCAUUAAAAGUUUUUGUUUUGGCCAGCAUGUAA_AUCAUGCUUAAAACACAAGGACAAGG_CCACUUUAACGAGUGGGC_
............................((((.....))))........((((((((.((....((((((......))))))...)).)))))))).....(((((......)))))... (-12.97 = -15.20 +   2.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:54 2006