Locus 7496

Sequence ID 2L_DroMel_CAF1
Location 20,799,414 – 20,799,553
Length 139
Max. P 0.996865
window12048 window12049 window12050

overview

Window 8

Location 20,799,414 – 20,799,513
Length 99
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.62
Mean single sequence MFE -28.14
Consensus MFE -18.52
Energy contribution -18.92
Covariance contribution 0.40
Combinations/Pair 1.09
Mean z-score -1.71
Structure conservation index 0.66
SVM decision value 0.07
SVM RNA-class probability 0.569859
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20799414 99 - 22407834
UGAUUCAAAGGAAAAACAUUCAAGAUUUGUACAGC-------CGCGGACAAAUCUCAUG--UUUGCCGCCUCUAAUGGCCAUGAAAA------------CCUGUGACCAUGGUGGUCAAC
...((((..((..((((((...((((((((.(...-------...).)))))))).)))--))).))(((......)))..))))..------------....(((((.....))))).. ( -25.60)
>DroSec_CAF1 22691 106 - 1
UGAUUCAAAGGAAAAACAUUUAAGAUUUGUACAGCAAAGCGUCGCAGACAAAUCUCAUG--UUUGCCGCCUCUAAUGGCCAUGAAAA------------CACUGGUCUUCGGUGGUCAAC
(((((((..((..((((((...((((((((...((........))..)))))))).)))--))).))(((......)))..)))...------------(((((.....))))))))).. ( -27.10)
>DroSim_CAF1 26277 106 - 1
UGAUUCAAAGGAAAAACAUUUAAGAUUUGUACAGCAAAGCGUCGCGGACAAAUCUCAUG--UUUGCCGCCUCUAAUGGCCAUGAAAA------------CACUGGUCUUCGGUGGUCAAC
(((((((..((..((((((...((((((((...((........))..)))))))).)))--))).))(((......)))..)))...------------(((((.....))))))))).. ( -28.20)
>DroEre_CAF1 26195 106 - 1
UGAUUCAAAGGAAAAACAUUCAAGAUUUGUACAGCAAAGCGCCGCGAACAAAUCUCUUG--UUUGCCGCUUCCAAUGGCCAUGGAAA------------CCCUGGUCUUCAGCGGUCAAC
.............(((((....((((((((...((........))..))))))))..))--)))((((((......(((((.((...------------.)))))))...)))))).... ( -28.50)
>DroYak_CAF1 23691 120 - 1
UGCUUCAAAGGAAAAACAUUCAAGAUUUGUACGGCAAGUUGCCGCAAACAAAUCUCUUUUUUUUGCCGCCUCCAAUGGCCAUGAAAAGUGUUUUUACUUCAGUGGUCUUCAGUGGUCAAC
.((..(((((((((........((((((((.((((.....))))...)))))))).)))))))))..))..(((..((((((...(((((....)))))..)))))).....)))..... ( -31.30)
>consensus
UGAUUCAAAGGAAAAACAUUCAAGAUUUGUACAGCAAAGCGCCGCGGACAAAUCUCAUG__UUUGCCGCCUCUAAUGGCCAUGAAAA____________CACUGGUCUUCGGUGGUCAAC
......................((((((((...((........))..)))))))).......((((((((......(((((.....................)))))...))))).))). (-18.52 = -18.92 +   0.40)

alignment

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secondary structure

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dotplot

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Window 9

Location 20,799,442 – 20,799,553
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.99
Mean single sequence MFE -31.90
Consensus MFE -23.21
Energy contribution -22.82
Covariance contribution -0.39
Combinations/Pair 1.09
Mean z-score -1.93
Structure conservation index 0.73
SVM decision value 0.20
SVM RNA-class probability 0.629180
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20799442 111 + 22407834
GGCCAUUAGAGGCGGCAAA--CAUGAGAUUUGUCCGCG-------GCUGUACAAAUCUUGAAUGUUUUUCCUUUGAAUCAGCCAUAAUUUAGUUGAAUUGUCUGAAAUGGCUGAUGAAAU
.....(((((((....(((--((((((((((((.((..-------..)).)))))))))..))))))..)))))))(((((((((..(((((.........))))))))))))))..... ( -32.50)
>DroSec_CAF1 22719 118 + 1
GGCCAUUAGAGGCGGCAAA--CAUGAGAUUUGUCUGCGACGCUUUGCUGUACAAAUCUUAAAUGUUUUUCCUUUGAAUCAGCCAUAAUUUAGUUGAAUUGUCUGAAAUGACUGAUGAAAU
.....(((((((....(((--(((((((((((((.((((....)))).).)))))))))..))))))..)))))))(((((.(((..(((((.........)))))))).)))))..... ( -29.40)
>DroSim_CAF1 26305 118 + 1
GGCCAUUAGAGGCGGCAAA--CAUGAGAUUUGUCCGCGACGCUUUGCUGUACAAAUCUUAAAUGUUUUUCCUUUGAAUCAGCCAUAAUUUAGUUGAAUUGUCUGAAAUGACUGAUGAAAU
.....(((((((....(((--(((((((((((((.((((....)))).).)))))))))..))))))..)))))))(((((.(((..(((((.........)))))))).)))))..... ( -29.40)
>DroEre_CAF1 26223 118 + 1
GGCCAUUGGAAGCGGCAAA--CAAGAGAUUUGUUCGCGGCGCUUUGCUGUACAAAUCUUGAAUGUUUUUCCUUUGAAUCAGCCAUAAUUUAGUUGAAUUGUCUGAGACGACUGAUGAAAU
(((.(((.((((.((.(((--((.(((((((((..(((((.....))))))))))))))...))))).)))))).)))..))).....(((((((..((....))..)))))))...... ( -33.70)
>DroYak_CAF1 23731 120 + 1
GGCCAUUGGAGGCGGCAAAAAAAAGAGAUUUGUUUGCGGCAACUUGCCGUACAAAUCUUGAAUGUUUUUCCUUUGAAGCAGCCAUAAUUUAGUUGAAUUGUCUGAAAUGACUGAUGAAAU
((.((((..(((((((........(((((((((..(((((.....))))))))))))))...((((((......)))))))))..(((((....)))))))))..)))).))........ ( -34.50)
>consensus
GGCCAUUAGAGGCGGCAAA__CAUGAGAUUUGUCCGCGACGCUUUGCUGUACAAAUCUUGAAUGUUUUUCCUUUGAAUCAGCCAUAAUUUAGUUGAAUUGUCUGAAAUGACUGAUGAAAU
...((((((....(((........((((((((((.((((....)))).).)))))))))...((.(((......))).)))))(((((((....))))))).........)))))).... (-23.21 = -22.82 +  -0.39)

alignment

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secondary structure

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dotplot

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Window 0

Location 20,799,442 – 20,799,553
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.99
Mean single sequence MFE -27.38
Consensus MFE -23.14
Energy contribution -22.86
Covariance contribution -0.28
Combinations/Pair 1.12
Mean z-score -2.44
Structure conservation index 0.85
SVM decision value 2.76
SVM RNA-class probability 0.996865
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20799442 111 - 22407834
AUUUCAUCAGCCAUUUCAGACAAUUCAACUAAAUUAUGGCUGAUUCAAAGGAAAAACAUUCAAGAUUUGUACAGC-------CGCGGACAAAUCUCAUG--UUUGCCGCCUCUAAUGGCC
.........((((((..((..................(((((...((((.(((.....)))....))))..))))-------)((((.(((((.....)--))))))))))..)))))). ( -29.40)
>DroSec_CAF1 22719 118 - 1
AUUUCAUCAGUCAUUUCAGACAAUUCAACUAAAUUAUGGCUGAUUCAAAGGAAAAACAUUUAAGAUUUGUACAGCAAAGCGUCGCAGACAAAUCUCAUG--UUUGCCGCCUCUAAUGGCC
.....(((((((((.....................))))))))).....((..((((((...((((((((...((........))..)))))))).)))--))).))(((......))). ( -27.60)
>DroSim_CAF1 26305 118 - 1
AUUUCAUCAGUCAUUUCAGACAAUUCAACUAAAUUAUGGCUGAUUCAAAGGAAAAACAUUUAAGAUUUGUACAGCAAAGCGUCGCGGACAAAUCUCAUG--UUUGCCGCCUCUAAUGGCC
.....(((((((((.....................))))))))).....((..((((((...((((((((...((........))..)))))))).)))--))).))(((......))). ( -28.70)
>DroEre_CAF1 26223 118 - 1
AUUUCAUCAGUCGUCUCAGACAAUUCAACUAAAUUAUGGCUGAUUCAAAGGAAAAACAUUCAAGAUUUGUACAGCAAAGCGCCGCGAACAAAUCUCUUG--UUUGCCGCUUCCAAUGGCC
.....((((((((((...)))((((......))))..))))))).....((((..........(.((((.....)))).)((.((((((((.....)))--))))).))))))....... ( -25.00)
>DroYak_CAF1 23731 120 - 1
AUUUCAUCAGUCAUUUCAGACAAUUCAACUAAAUUAUGGCUGCUUCAAAGGAAAAACAUUCAAGAUUUGUACGGCAAGUUGCCGCAAACAAAUCUCUUUUUUUUGCCGCCUCCAAUGGCC
.........(((......)))................(((......(((((((.....))).((((((((.((((.....))))...)))))))))))).....)))(((......))). ( -26.20)
>consensus
AUUUCAUCAGUCAUUUCAGACAAUUCAACUAAAUUAUGGCUGAUUCAAAGGAAAAACAUUCAAGAUUUGUACAGCAAAGCGCCGCGGACAAAUCUCAUG__UUUGCCGCCUCUAAUGGCC
.....(((((((((.....................))))))))).....((...........((((((((...((........))..))))))))..........))(((......))). (-23.14 = -22.86 +  -0.28)

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 12:38:16 2006