Locus 7076

Sequence ID 3L_DroMel_CAF1
Location 19,139,158 – 19,139,308
Length 150
Max. P 0.991543
window11470 window11471 window11472

overview

Window 0

Location 19,139,158 – 19,139,278
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.17
Mean single sequence MFE -26.58
Consensus MFE -23.36
Energy contribution -23.96
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.06
Structure conservation index 0.88
SVM decision value 2.27
SVM RNA-class probability 0.991543
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19139158 120 + 23771897
ACAUAUCAAUUUGGUACCAAGGACUUAAAGACCUAAGUCAACGCGUUACAAAUGAGUUGGAUCAAUUUAAAGCUCAUAAAUCUUGGCGAUCAAUUGAGAGAUCAUUAAUCUCACUGAGUU
.....((((((.(((.(((((((((((......))))))............(((((((..(......)..)))))))....)))))..)))))))))(((((.....)))))........ ( -28.50)
>DroSec_CAF1 2169 120 + 1
ACAAAUCAAUUUGGUACCAAGGACUUAAAGACCUAAGACAACGCGUUACAAAUGAGUUGGAUCAAUUUAAAGCUCAUAAAUCUUGGUGAUCAAUUGAGAGAUCAUUAAUCUCACUGAGCU
.....((((((.((((((((((.((((......))))..............(((((((..(......)..)))))))...))))))).)))))))))(((((.....)))))........ ( -26.60)
>DroSim_CAF1 1707 120 + 1
ACAAAUCAAUUUGGUACCAAGGACUUAAAGACCUAAGACAACGCGUUACAAAUGAGUUGGAUCAAUUUAAAGCUCAUAAAUCUUGGUGAUCAAUUGAGAGAUCAUUAAUCUCACUGAGCU
.....((((((.((((((((((.((((......))))..............(((((((..(......)..)))))))...))))))).)))))))))(((((.....)))))........ ( -26.60)
>DroEre_CAF1 2385 120 + 1
ACAUAUCAAUUUGGUACCAAGGACUUAAAGACCUAAGCCAACGAGUUACAAAUGAGUUUGAUCAAUUUAAUGCUCAUAAAUCUUGGUGAUCAAUUGAGAGAUCAUUAAUCUCACUGAGCU
.....((((((.((((((((((.((((......))))))............((((((((((.....)))).)))))).....))))).)))))))))(((((.....)))))........ ( -25.90)
>DroYak_CAF1 2453 120 + 1
ACUUAUCAAUUUGGUACCAAGGACUUAAAGACCUAAGCCAACGAGUUACAAAUGAGUUGGAUCAAUUUAAAGCUCAUAAAUCUUGGUGAUCAAUUGAAAGAUCAUUAAUCUCACUGAGUU
.......((((..((.....((.((((......))))))...(((......(((((((..(......)..))))))).....(((((((((........))))))))).)))))..)))) ( -25.30)
>consensus
ACAUAUCAAUUUGGUACCAAGGACUUAAAGACCUAAGACAACGCGUUACAAAUGAGUUGGAUCAAUUUAAAGCUCAUAAAUCUUGGUGAUCAAUUGAGAGAUCAUUAAUCUCACUGAGCU
.....((((((...((((((((.((((......))))..............(((((((..(......)..)))))))...))))))))...))))))(((((.....)))))........ (-23.36 = -23.96 +   0.60)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,139,198 – 19,139,308
Length 110
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.30
Mean single sequence MFE -25.72
Consensus MFE -19.39
Energy contribution -20.15
Covariance contribution 0.76
Combinations/Pair 1.03
Mean z-score -1.91
Structure conservation index 0.75
SVM decision value 0.25
SVM RNA-class probability 0.651285
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19139198 110 + 23771897
ACGCGUUACAAAUGAGUUGGAUCAAUUUAAAGCUCAUAAAUCUUGGCGAUCAAUUGAGAGAUCAUUAAUCUCACUGAGUUGUAAGAUGAAUUAA----------CCAUCAAGUGGUACAG
.(((.((((((.(.(((....((((((....((.((.......))))....))))))(((((.....)))))))).).))))))((((......----------.))))..)))...... ( -23.10)
>DroSec_CAF1 2209 119 + 1
ACGCGUUACAAAUGAGUUGGAUCAAUUUAAAGCUCAUAAAUCUUGGUGAUCAAUUGAGAGAUCAUUAAUCUCACUGAGCUGUAAGAUGAAUUAACCAUCAUUAACCAUCAAGUGGUAC-G
..........((((((((((.(((.((((.((((((......(((((((((........)))))))))......)))))).)))).))).)))))..))))).(((((...)))))..-. ( -29.50)
>DroSim_CAF1 1747 109 + 1
ACGCGUUACAAAUGAGUUGGAUCAAUUUAAAGCUCAUAAAUCUUGGUGAUCAAUUGAGAGAUCAUUAAUCUCACUGAGCUGUAAGAAGAAUUAA----------CCAUCAAGUGGUAC-G
.((..((((..(((.(((((.((..((((.((((((......(((((((((........)))))))))......)))))).))))..)).))))----------))))...))))..)-) ( -26.90)
>DroEre_CAF1 2425 109 + 1
ACGAGUUACAAAUGAGUUUGAUCAAUUUAAUGCUCAUAAAUCUUGGUGAUCAAUUGAGAGAUCAUUAAUCUCACUGAGCUGUAAGAUGAAUUAA----------CCAUCAAGUGGUAC-G
....((..((..(((..(((((((.((((..(((((......(((((((((........)))))))))......)))))..)))).)).)))))----------...)))..))..))-. ( -23.40)
>DroYak_CAF1 2493 109 + 1
ACGAGUUACAAAUGAGUUGGAUCAAUUUAAAGCUCAUAAAUCUUGGUGAUCAAUUGAAAGAUCAUUAAUCUCACUGAGUUGUAAGAUGAAUUAA----------CCAUCAAGUGGUAC-G
.((..((((..(((.(((((.(((.((((.((((((......(((((((((........)))))))))......)))))).)))).))).))))----------))))...))))..)-) ( -25.70)
>consensus
ACGCGUUACAAAUGAGUUGGAUCAAUUUAAAGCUCAUAAAUCUUGGUGAUCAAUUGAGAGAUCAUUAAUCUCACUGAGCUGUAAGAUGAAUUAA__________CCAUCAAGUGGUAC_G
.(((.(((((..(((((((...)))))))..(((((......(((((((((........)))))))))......))))))))))((((.................))))..)))...... (-19.39 = -20.15 +   0.76)

alignment

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secondary structure

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dotplot

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Window 2

Location 19,139,198 – 19,139,308
Length 110
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.30
Mean single sequence MFE -23.08
Consensus MFE -17.54
Energy contribution -17.34
Covariance contribution -0.20
Combinations/Pair 1.07
Mean z-score -1.74
Structure conservation index 0.76
SVM decision value 0.10
SVM RNA-class probability 0.581839
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19139198 110 - 23771897
CUGUACCACUUGAUGG----------UUAAUUCAUCUUACAACUCAGUGAGAUUAAUGAUCUCUCAAUUGAUCGCCAAGAUUUAUGAGCUUUAAAUUGAUCCAACUCAUUUGUAACGCGU
..((.......(((((----------.....)))))((((((.(.(((..(((((((.....((((...((((.....))))..))))......)))))))..))).).)))))).)).. ( -21.50)
>DroSec_CAF1 2209 119 - 1
C-GUACCACUUGAUGGUUAAUGAUGGUUAAUUCAUCUUACAGCUCAGUGAGAUUAAUGAUCUCUCAAUUGAUCACCAAGAUUUAUGAGCUUUAAAUUGAUCCAACUCAUUUGUAACGCGU
(-((..((..((((((((((((((((.....)))))(((.((((((...(((((..(((((........)))))....))))).)))))).)))))))).)))..)))..))..)))... ( -28.10)
>DroSim_CAF1 1747 109 - 1
C-GUACCACUUGAUGG----------UUAAUUCUUCUUACAGCUCAGUGAGAUUAAUGAUCUCUCAAUUGAUCACCAAGAUUUAUGAGCUUUAAAUUGAUCCAACUCAUUUGUAACGCGU
(-((..((..((((((----------((((((.....((.((((((...(((((..(((((........)))))....))))).)))))).)))))))).)))..)))..))..)))... ( -23.00)
>DroEre_CAF1 2425 109 - 1
C-GUACCACUUGAUGG----------UUAAUUCAUCUUACAGCUCAGUGAGAUUAAUGAUCUCUCAAUUGAUCACCAAGAUUUAUGAGCAUUAAAUUGAUCAAACUCAUUUGUAACUCGU
.-((..((..((((((----------((((((.(((((((......)))))))(((((....((((...((((.....))))..))))))))))))))))))...)))..))..)).... ( -21.40)
>DroYak_CAF1 2493 109 - 1
C-GUACCACUUGAUGG----------UUAAUUCAUCUUACAACUCAGUGAGAUUAAUGAUCUUUCAAUUGAUCACCAAGAUUUAUGAGCUUUAAAUUGAUCCAACUCAUUUGUAACUCGU
.-......((((.(((----------(((((..(((((((......)))))))...(((....))))))))))).))))....(((((...(((((.((......)))))))...))))) ( -21.40)
>consensus
C_GUACCACUUGAUGG__________UUAAUUCAUCUUACAGCUCAGUGAGAUUAAUGAUCUCUCAAUUGAUCACCAAGAUUUAUGAGCUUUAAAUUGAUCCAACUCAUUUGUAACGCGU
...........(((((...............)))))((((((.(.(((..(((((((.....((((...((((.....))))..))))......)))))))..))).).))))))..... (-17.54 = -17.34 +  -0.20)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:04 2006