Locus 1733

Sequence ID 2L_DroMel_CAF1
Location 4,754,195 – 4,754,352
Length 157
Max. P 0.698337
window2783 window2784

overview

Window 3

Location 4,754,195 – 4,754,312
Length 117
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.36
Mean single sequence MFE -23.60
Consensus MFE -13.29
Energy contribution -13.29
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.70
Structure conservation index 0.56
SVM decision value -0.01
SVM RNA-class probability 0.527751
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4754195 117 - 22407834
UAGUCAAACAUAAUUUGACCUAAGCCAAGGCAUAAGCAAAUGUGACAGGCUCCAGUCAGCCAUAAAAGCCU---UCUCAGCUAGAACACUCAUGGACACUUCCAUAGUCAUAGUCAUAGU
..((((((.....))))))....((....)).........((((((.((((......)))).....(((..---.....))).....(((.(((((....))))))))....)))))).. ( -24.90)
>DroPse_CAF1 221284 100 - 1
UAGUCAAACAUAAUUUGACCUAAGCCAAGGCAUAAGCAAAUGUGACAGGCUCCAGUCAGGCAUAAAAGCCUGGGUCAC---------AC------ACAU-CCCACCGACUCCGACU----
.((((.......(((((.(.((.((....)).)).))))))(((((.(....)..((((((......)))))))))))---------..------....-......))))......---- ( -24.70)
>DroSec_CAF1 182646 115 - 1
UAGUCAAACAUAAUUUGACCUAAGCCAAGGCAUAAGCAAAUGUGACAGGCUCCAGUCAGCCAUAAAAGCCU---UCUCAGCUAGAACACUCAAGGACAUUUCCACAGUCAUAGUCAUA--
..((((((.....))))))....((....)).........((((((.((((......)))).....(((..---.....)))...........(((....)))...))))))......-- ( -21.90)
>DroYak_CAF1 189230 115 - 1
UAGUCAAACAUAAUUUGACCUAAGCCAAGGCAUAAGCAAAUGUGACAGGCUCCAGUCAGCCAUAAAAGCCU---UCUCAGCUGGAACACUCAUGGCUAUUUCCAUAGUCAUAGACAUA--
..((((((.....))))))(((.((.(((((....((....))....((((......))))......))))---)....)))))....((.((((((((....)))))))))).....-- ( -25.20)
>DroAna_CAF1 201591 90 - 1
UAGUCAAACAUAAUUUGACCUAAGCCAAGGCAUAAGCAAAUGUGACAGGCUCCAGUCGGCCAUAAAAGCCU---C------------AC------ACAUUCCCA-GGUCCCG--------
................(((((..((....))....(..((((((..(((((((....)).......)))))---.------------.)------)))))..))-))))...-------- ( -20.51)
>DroPer_CAF1 229009 100 - 1
UAGUCAAACAUAAUUUGACCUAAGCCAAGGCAUAAGCAAAUGUGACAGGCUCCAGUCAGGCAUAAAAGCCUGGGUCUC---------AC------ACAU-CCCACCGACUCCGACU----
.((((...((((.((((.(.((.((....)).)).)))))))))...((....((((((((......))))(((....---------..------....-)))...))))))))))---- ( -24.40)
>consensus
UAGUCAAACAUAAUUUGACCUAAGCCAAGGCAUAAGCAAAUGUGACAGGCUCCAGUCAGCCAUAAAAGCCU___UCUC_________AC______ACAUUCCCACAGUCACAGACA____
..((((......(((((.(.((.((....)).)).)))))).))))(((((...............)))))................................................. (-13.29 = -13.29 +   0.00)

alignment

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secondary structure

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dotplot

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Window 4

Location 4,754,235 – 4,754,352
Length 117
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 94.48
Mean single sequence MFE -33.78
Consensus MFE -28.31
Energy contribution -28.50
Covariance contribution 0.19
Combinations/Pair 1.03
Mean z-score -1.88
Structure conservation index 0.84
SVM decision value 0.35
SVM RNA-class probability 0.698337
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4754235 117 - 22407834
UGUGCCCGGGGCUUUGUCCGAAAAUUUCGCAUGCCGUUUAUAGUCAAACAUAAUUUGACCUAAGCCAAGGCAUAAGCAAAUGUGACAGGCUCCAGUCAGCCAUAAAAGCCU---UCUCAG
.......((((((((...........((((((...((((((.((((((.....))))))....((....))))))))..))))))..((((......))))...)))))))---)..... ( -31.10)
>DroPse_CAF1 221306 118 - 1
UGUGCCCUGGGCUUUGUCCGAAAAUUUCGCAUGCCGUUUAUAGUCAAACAUAAUUUGACCUAAGCCAAGGCAUAAGCAAAUGUGACAGGCUCCAGUCAGGCAUAAAAGCCUGGGUCAC--
.(((.((..((((((...(((.....))).(((((((((((.((((((.....))))))....((....)))))))).....((((.(....).))))))))).))))))..)).)))-- ( -40.10)
>DroEre_CAF1 191260 117 - 1
UGUGCUCGGGGCUUUGUCCGAAAAUUUCGCAUGCCGUUUAUAGUCAAACAUAAUUUGACCUAAGCCAAGGCAUAAGCAAAUGUGACAGGCUCCAGUCAGCCAUAAAAGCCU---UCUCAG
.......((((((((...........((((((...((((((.((((((.....))))))....((....))))))))..))))))..((((......))))...)))))))---)..... ( -31.10)
>DroYak_CAF1 189268 117 - 1
UGUGCCCGGGGCUUUGUCCGAAAAUUUCGCAUGCCGUUUAUAGUCAAACAUAAUUUGACCUAAGCCAAGGCAUAAGCAAAUGUGACAGGCUCCAGUCAGCCAUAAAAGCCU---UCUCAG
.......((((((((...........((((((...((((((.((((((.....))))))....((....))))))))..))))))..((((......))))...)))))))---)..... ( -31.10)
>DroAna_CAF1 201609 111 - 1
UGUGCCCUGGGCUUUGUCCGAA-AUUUCGCAUGCCGUUUAUAGUCAAACAUAAUUUGACCUAAGCCAAGGCAUAAGCAAAUGUGACAGGCUCCAGUCGGCCAUAAAAGCCU---C-----
((.(((((((((((.(((....-((((.((((((((((((..((((((.....)))))).)))))...)))))..))))))..))))))).))))..))))).........---.----- ( -32.00)
>DroPer_CAF1 229031 118 - 1
UGUGCCCUGGGCUUUGUCCGAAAAUUUCGCAUGCCGUUUAUAGUCAAACAUAAUUUGACCUAAGCCAAGGCAUAAGCAAAUGUGACAGGCUCCAGUCAGGCAUAAAAGCCUGGGUCUC--
...((((.(((((((...(((.....))).(((((((((((.((((((.....))))))....((....)))))))).....((((.(....).))))))))).)))))))))))...-- ( -37.30)
>consensus
UGUGCCCGGGGCUUUGUCCGAAAAUUUCGCAUGCCGUUUAUAGUCAAACAUAAUUUGACCUAAGCCAAGGCAUAAGCAAAUGUGACAGGCUCCAGUCAGCCAUAAAAGCCU___UCUC__
........(((((((...........((((((...((((((.((((((.....))))))....((....))))))))..))))))..((((......))))...)))))))......... (-28.31 = -28.50 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:46 2006