Locus 5717

Sequence ID 3L_DroMel_CAF1
Location 15,597,457 – 15,597,657
Length 200
Max. P 0.994916
window9045 window9046 window9047

overview

Window 5

Location 15,597,457 – 15,597,577
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 96.94
Mean single sequence MFE -45.68
Consensus MFE -45.41
Energy contribution -45.41
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.73
Structure conservation index 0.99
SVM decision value 0.65
SVM RNA-class probability 0.810509
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15597457 120 + 23771897
CGAAUCCAAGCCCAAGGCCAGCUGCUCCAGUUUGUUAAUGAGUAUGGAGUAGUUGCCGGGCAGAUCGAAGCCGCCAAGAUCGAGUUUUUCGCCACUACUGGUGGAUGCUGCGGCAUCCAA
(((.((...((((..(((.((((((((((...............))))))))))))))))).)))))..(((((........(((..(((((((....))))))).))))))))...... ( -45.66)
>DroSec_CAF1 20717 120 + 1
CGAAUCCAAGCCCAAGGCCAGCUGCUCCAGUUUGUUAAUGAGUAUGGAGUAGUUGCCGGGCAGAUCGAAGCCGCCAAGAUCGAGUUUUUCGCCACUACUGGUGGAUGCUGCGGCAUCCAA
(((.((...((((..(((.((((((((((...............))))))))))))))))).)))))..(((((........(((..(((((((....))))))).))))))))...... ( -45.66)
>DroEre_CAF1 20713 120 + 1
CGAGUCCAAGCCCAGGGCCAGCUGCUCCAGUUUGUUAAUGAGUAUGGAGUAGUUGCCGGGCAGAUCGAAGCCGCCCAGAUCGAGUUUUUCGCCACUAUUGGUGGAUGCUGCGGCGUCCAA
(((.((...((((..(((.((((((((((...............))))))))))))))))).)))))..(((((........(((..(((((((....))))))).))))))))...... ( -45.66)
>DroYak_CAF1 22111 120 + 1
CGAGUCCAAGCCCAAGGCCAGCUGCUCCAGUUUGUUAAUGAGUAUGGAGUAGUUGCCGGGCAGAUCGAAGCCGCCCAGAUCGAGUUUUUCGCCACUAUUGGUGGACGCUGCGGCGUCCAA
.....((((((((..(((.((((((((((...............))))))))))))))))).((((...........))))................))))(((((((....))))))). ( -45.76)
>consensus
CGAAUCCAAGCCCAAGGCCAGCUGCUCCAGUUUGUUAAUGAGUAUGGAGUAGUUGCCGGGCAGAUCGAAGCCGCCAAGAUCGAGUUUUUCGCCACUACUGGUGGAUGCUGCGGCAUCCAA
(((.((...((((..(((.((((((((((...............))))))))))))))))).)))))..(((((........(((..(((((((....))))))).))))))))...... (-45.41 = -45.41 +   0.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,597,537 – 15,597,657
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 94.03
Mean single sequence MFE -45.35
Consensus MFE -45.55
Energy contribution -44.67
Covariance contribution -0.87
Combinations/Pair 1.14
Mean z-score -2.48
Structure conservation index 1.00
SVM decision value 2.52
SVM RNA-class probability 0.994916
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15597537 120 + 23771897
CGAGUUUUUCGCCACUACUGGUGGAUGCUGCGGCAUCCAAGGUCGUUGCAUUGCCAUUAAGGCCUUCACUUAAAGUUGUGGUUGUGGCAGUUGCAAUCGUUAGAUUGCCGGCAUCUUCGA
((((......((.((.(((..(((((((....))))))).))).)).))..((((......(((.((((........))))....)))....((((((....)))))).))))..)))). ( -42.30)
>DroSec_CAF1 20797 120 + 1
CGAGUUUUUCGCCACUACUGGUGGAUGCUGCGGCAUCCAAGGUCGUUGCAUUGCCAUUGAGACCUUCGCUUAAAGUUGUGGUUGUGGCAGUUGCAAUCGUUAGAUUGCCGGCAUCUUCGA
((((.....(((((....)))))(((((..(((((((.((.(..(((((((((((((...((((...((.....))...))))))))))).))))))).)).)).)))))))))))))). ( -42.80)
>DroEre_CAF1 20793 120 + 1
CGAGUUUUUCGCCACUAUUGGUGGAUGCUGCGGCGUCCAAGGUCGUCGCAUUGCCAUUAAGGCCUUCACUUAAAGUUGUGGCUGUGGCAGUUGCAAUCGUCAGAUUGCCGGCAUCUUCGA
((((.....(((((....)))))((((((((((((.(....).))))))((((((((...((((...((.....))...)))))))))))).((((((....)))))).)))))))))). ( -49.50)
>DroYak_CAF1 22191 120 + 1
CGAGUUUUUCGCCACUAUUGGUGGACGCUGCGGCGUCCAAGGUCGUCGCAUUGCCAUUGAGGCCUUCACUUAGAGUUGUGGUUGUGGCAGUUGCAAUCGUUAGAUUGCUGGUGUCUUCGA
((((.....(((((....)))))((((((((((((.(....).))))))((((((((...((((...((.....))...)))))))))))).((((((....)))))).)))))))))). ( -46.80)
>consensus
CGAGUUUUUCGCCACUACUGGUGGAUGCUGCGGCAUCCAAGGUCGUCGCAUUGCCAUUAAGGCCUUCACUUAAAGUUGUGGUUGUGGCAGUUGCAAUCGUUAGAUUGCCGGCAUCUUCGA
((((.....(((((....)))))((((((((((((.(....).))))))((((((((...((((...((.....))...)))))))))))).((((((....)))))).)))))))))). (-45.55 = -44.67 +  -0.87)

alignment

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secondary structure

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dotplot

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Window 7

Location 15,597,537 – 15,597,657
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 94.03
Mean single sequence MFE -36.05
Consensus MFE -34.95
Energy contribution -34.58
Covariance contribution -0.38
Combinations/Pair 1.11
Mean z-score -2.14
Structure conservation index 0.97
SVM decision value 1.82
SVM RNA-class probability 0.978857
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15597537 120 - 23771897
UCGAAGAUGCCGGCAAUCUAACGAUUGCAACUGCCACAACCACAACUUUAAGUGAAGGCCUUAAUGGCAAUGCAACGACCUUGGAUGCCGCAGCAUCCACCAGUAGUGGCGAAAAACUCG
.(((........((((((....))))))...((((((.(((((........)))...(((.....))).............(((((((....)))))))...)).))))))......))) ( -36.40)
>DroSec_CAF1 20797 120 - 1
UCGAAGAUGCCGGCAAUCUAACGAUUGCAACUGCCACAACCACAACUUUAAGCGAAGGUCUCAAUGGCAAUGCAACGACCUUGGAUGCCGCAGCAUCCACCAGUAGUGGCGAAAAACUCG
.(((........((((((....))))))...((((((.((..............((((((......((...))...))))))((((((....))))))....)).))))))......))) ( -36.20)
>DroEre_CAF1 20793 120 - 1
UCGAAGAUGCCGGCAAUCUGACGAUUGCAACUGCCACAGCCACAACUUUAAGUGAAGGCCUUAAUGGCAAUGCGACGACCUUGGACGCCGCAGCAUCCACCAAUAGUGGCGAAAAACUCG
(((..(((((..((((((....))))))...(((((..(((...((.....))...))).....))))).((((.((.(....).)).)))))))))(((.....))).)))........ ( -33.80)
>DroYak_CAF1 22191 120 - 1
UCGAAGACACCAGCAAUCUAACGAUUGCAACUGCCACAACCACAACUCUAAGUGAAGGCCUCAAUGGCAAUGCGACGACCUUGGACGCCGCAGCGUCCACCAAUAGUGGCGAAAAACUCG
.(((........((((((....))))))...((((((...(((........)))...(((.....))).............(((((((....)))))))......))))))......))) ( -37.80)
>consensus
UCGAAGAUGCCGGCAAUCUAACGAUUGCAACUGCCACAACCACAACUUUAAGUGAAGGCCUCAAUGGCAAUGCAACGACCUUGGACGCCGCAGCAUCCACCAAUAGUGGCGAAAAACUCG
.(((........((((((....))))))...((((((..............(((...(((.....)))..)))........(((((((....)))))))......))))))......))) (-34.95 = -34.58 +  -0.38)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:31 2006