Locus 6314

Sequence ID 2R_DroMel_CAF1
Location 19,793,231 – 19,793,323
Length 92
Max. P 0.948724
window10089 window10090

overview

Window 9

Location 19,793,231 – 19,793,323
Length 92
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 71.97
Mean single sequence MFE -35.20
Consensus MFE -23.04
Energy contribution -23.64
Covariance contribution 0.60
Combinations/Pair 1.22
Mean z-score -1.61
Structure conservation index 0.65
SVM decision value 1.38
SVM RNA-class probability 0.948724
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19793231 92 + 20766785
CCGAAACCGCUGCUGGCAUUGUUCCCAGCAUC-----------AGACCAGCAUUUUGUUGCCUGCUCUUGGGCGCC-CGACACUGGA-------AAAGAGCAGGGGUGGUG
.....((((((((((((..(((.....)))..-----------.).))))).........(((((((((.....((-.......)).-------.))))))))))))))). ( -33.40)
>DroPse_CAF1 33350 96 + 1
UAGAAACCGCUGCUGGCAUUGUUCCCAGCAGCAGCCCGCACGCAGGCGAACAUUCUGUUGCCUGCUUUUAGGCGUC-AUAAGCAG------------GAGCAGGAGCAG--
........((((((((........)))))))).(((.(....).))).......(((((.((((((((...((...-....)).)------------))))))))))))-- ( -38.80)
>DroSec_CAF1 35718 91 + 1
CGGAAACCGCUGCUGGCAUUGUUCCCAGCAUC-----------AGACCAGCAUUUUGUUGCCUGCUCUUGGGCGCC-CGACACUGCA-------AAAGAGCAGGGGUGGU-
.....((((((((((((..(((.....)))..-----------.).))))).........(((((((((..(((..-......))).-------.)))))))))))))))- ( -36.10)
>DroEre_CAF1 35202 99 + 1
CGGCAACCGCUGCUGGCAUUGUUCCCAGCAUC-----------AGACCAGCAUUUUGUUGCCUGCUUUUGGGCGCCCCAACGCUGCCAGGGAGCAGAGAGCAGGGGCGGU-
.....((((((((((((..(((.....)))..-----------.).)))))..((((((..(((((((..(((((......)).)))..)))))))..))))))))))))- ( -40.00)
>DroYak_CAF1 32884 71 + 1
CGGCAACCGCUGCUGGCAUUGUUCCCAGCAUC-----------AGACCAGCAUUUUGUUGCCUGCUUU----------------------------AGAGCAGGGGCGUC-
.(....)((((((((((..(((.....)))..-----------.).))))).........((((((..----------------------------..))))))))))..- ( -24.10)
>DroPer_CAF1 32970 96 + 1
CAGAAACCGCUGCUGGCAUUGUUCCCAGCAGCAGCCCGCACGCAGGCGAACAUUCUGUUGCCUGCUUUUAGGCGUC-AUAAGCAG------------GAGCAGGAGCAG--
........((((((((........)))))))).(((.(....).))).......(((((.((((((((...((...-....)).)------------))))))))))))-- ( -38.80)
>consensus
CGGAAACCGCUGCUGGCAUUGUUCCCAGCAUC___________AGACCAGCAUUUUGUUGCCUGCUUUUGGGCGCC_CGACGCUG___________AGAGCAGGGGCGGU_
......((((((((((........)))))..................((((.....))))(((((((((..........................)))))))))))))).. (-23.04 = -23.64 +   0.60)

alignment

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secondary structure

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dotplot

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Window 0

Location 19,793,231 – 19,793,323
Length 92
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 71.97
Mean single sequence MFE -35.30
Consensus MFE -18.56
Energy contribution -18.83
Covariance contribution 0.28
Combinations/Pair 1.06
Mean z-score -1.85
Structure conservation index 0.53
SVM decision value 1.07
SVM RNA-class probability 0.910623
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19793231 92 - 20766785
CACCACCCCUGCUCUUU-------UCCAGUGUCG-GGCGCCCAAGAGCAGGCAACAAAAUGCUGGUCU-----------GAUGCUGGGAACAAUGCCAGCAGCGGUUUCGG
..(((((.(((((..((-------((((((((((-(((((......)).((((......)))).))))-----------))))))))))).......))))).)))...)) ( -34.30)
>DroPse_CAF1 33350 96 - 1
--CUGCUCCUGCUC------------CUGCUUAU-GACGCCUAAAAGCAGGCAACAGAAUGUUCGCCUGCGUGCGGGCUGCUGCUGGGAACAAUGCCAGCAGCGGUUUCUA
--((((.(..((..------------..))....-...........(((((((((.....))).))))))).))))(((((((((((........)))))))))))..... ( -40.10)
>DroSec_CAF1 35718 91 - 1
-ACCACCCCUGCUCUUU-------UGCAGUGUCG-GGCGCCCAAGAGCAGGCAACAAAAUGCUGGUCU-----------GAUGCUGGGAACAAUGCCAGCAGCGGUUUCCG
-......(((((((((.-------.((.((....-.))))..)))))))))............((.((-----------(.((((((........)))))).)))...)). ( -31.10)
>DroEre_CAF1 35202 99 - 1
-ACCGCCCCUGCUCUCUGCUCCCUGGCAGCGUUGGGGCGCCCAAAAGCAGGCAACAAAAUGCUGGUCU-----------GAUGCUGGGAACAAUGCCAGCAGCGGUUGCCG
-..((((((.((...(((((....))))).)).))))))..........((((((....(((((((..-----------.....((....))..)))))))...)))))). ( -41.40)
>DroYak_CAF1 32884 71 - 1
-GACGCCCCUGCUCU----------------------------AAAGCAGGCAACAAAAUGCUGGUCU-----------GAUGCUGGGAACAAUGCCAGCAGCGGUUGCCG
-........((((..----------------------------..))))((((((....(((((((..-----------.....((....))..)))))))...)))))). ( -24.80)
>DroPer_CAF1 32970 96 - 1
--CUGCUCCUGCUC------------CUGCUUAU-GACGCCUAAAAGCAGGCAACAGAAUGUUCGCCUGCGUGCGGGCUGCUGCUGGGAACAAUGCCAGCAGCGGUUUCUG
--((((.(..((..------------..))....-...........(((((((((.....))).))))))).))))(((((((((((........)))))))))))..... ( -40.10)
>consensus
_ACCGCCCCUGCUCU___________CAGCGUAG_GGCGCCCAAAAGCAGGCAACAAAAUGCUGGUCU___________GAUGCUGGGAACAAUGCCAGCAGCGGUUUCCG
..((((.((((((................................))))))..............................((((((........))))))))))...... (-18.56 = -18.83 +   0.28)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:02 2006