Locus 7231

Sequence ID X_DroMel_CAF1
Location 18,070,791 – 18,071,031
Length 240
Max. P 0.989414
window11831 window11832 window11833 window11834

overview

Window 1

Location 18,070,791 – 18,070,911
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 91.88
Mean single sequence MFE -23.30
Consensus MFE -22.70
Energy contribution -22.70
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.36
Structure conservation index 0.97
SVM decision value 0.21
SVM RNA-class probability 0.636955
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18070791 120 + 22224390
AACACAAAAAAAUGGAUAAAAAACAAGGGAGAAAAUAGAAAAAUAGGACAAAAAUAUCAUGUUGGAAACCAGAGCUGCUCGCUCCGGAGUGACCGGUGCAGGUACGAGUGAGUAUCUGCG
............(((......((((.((............................)).)))).....)))..((((.(((((....))))).))))((((((((......)))))))). ( -24.09)
>DroSec_CAF1 8460 117 + 1
AACUCAAAAAAAUUGAUAAAAAAU---GAAGAAAAUAGAAAAAUAGGACAAAAAUAUCAUGUUGGAAACCAGAGCUGCUCGCUCCGGAGUGACCGGUGCAGGUACGAGUGAGUAUCUGCG
..(((...................---...................((((.........))))(....)..)))(((.(((((....))))).))).((((((((......)))))))). ( -23.10)
>DroSim_CAF1 13057 109 + 1
--------AAAAUUGAUAAAAAAU---GAAGAAAAUAGAAAAAUAGGACAAAAAUAUCAUGUUGGAAACCAGAGCUGCUCGCUCCGGAGUGACCGGUGCAGGUACGAGUGAGUAUCUGCG
--------................---..................................((((...)))).((((.(((((....))))).))))((((((((......)))))))). ( -22.70)
>consensus
AAC_CAAAAAAAUUGAUAAAAAAU___GAAGAAAAUAGAAAAAUAGGACAAAAAUAUCAUGUUGGAAACCAGAGCUGCUCGCUCCGGAGUGACCGGUGCAGGUACGAGUGAGUAUCUGCG
.............................................................((((...)))).((((.(((((....))))).))))((((((((......)))))))). (-22.70 = -22.70 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 18,070,791 – 18,070,911
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 91.88
Mean single sequence MFE -24.37
Consensus MFE -23.80
Energy contribution -23.80
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.63
Structure conservation index 0.98
SVM decision value 2.16
SVM RNA-class probability 0.989414
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18070791 120 - 22224390
CGCAGAUACUCACUCGUACCUGCACCGGUCACUCCGGAGCGAGCAGCUCUGGUUUCCAACAUGAUAUUUUUGUCCUAUUUUUCUAUUUUCUCCCUUGUUUUUUAUCCAUUUUUUUGUGUU
.((((.(((......))).))))...((.....(((((((.....)))))))...)).....((((....)))).............................................. ( -23.80)
>DroSec_CAF1 8460 117 - 1
CGCAGAUACUCACUCGUACCUGCACCGGUCACUCCGGAGCGAGCAGCUCUGGUUUCCAACAUGAUAUUUUUGUCCUAUUUUUCUAUUUUCUUC---AUUUUUUAUCAAUUUUUUUGAGUU
.((((.(((......))).))))...((.....(((((((.....)))))))...))(((..((((....))))...................---........((((.....))))))) ( -25.50)
>DroSim_CAF1 13057 109 - 1
CGCAGAUACUCACUCGUACCUGCACCGGUCACUCCGGAGCGAGCAGCUCUGGUUUCCAACAUGAUAUUUUUGUCCUAUUUUUCUAUUUUCUUC---AUUUUUUAUCAAUUUU--------
.((((.(((......))).))))...((.....(((((((.....)))))))...)).....((((....))))...................---................-------- ( -23.80)
>consensus
CGCAGAUACUCACUCGUACCUGCACCGGUCACUCCGGAGCGAGCAGCUCUGGUUUCCAACAUGAUAUUUUUGUCCUAUUUUUCUAUUUUCUUC___AUUUUUUAUCAAUUUUUUUG_GUU
.((((.(((......))).))))...((.....(((((((.....)))))))...)).....((((....)))).............................................. (-23.80 = -23.80 +   0.00)

alignment

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secondary structure

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dotplot

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Window 3

Location 18,070,831 – 18,070,951
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 100.00
Mean single sequence MFE -32.60
Consensus MFE -32.60
Energy contribution -32.60
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.92
Structure conservation index 1.00
SVM decision value 0.92
SVM RNA-class probability 0.881664
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18070831 120 - 22224390
AAUGAAUAUUUUAUAGAAAAAUGUGCAAUGUUCGCAAGGCCGCAGAUACUCACUCGUACCUGCACCGGUCACUCCGGAGCGAGCAGCUCUGGUUUCCAACAUGAUAUUUUUGUCCUAUUU
...(((((((.....((((...(.((..(((((((......((((.(((......))).)))).((((.....)))).))))))))).)...))))......)))))))........... ( -32.60)
>DroSec_CAF1 8497 120 - 1
AAUGAAUAUUUUAUAGAAAAAUGUGCAAUGUUCGCAAGGCCGCAGAUACUCACUCGUACCUGCACCGGUCACUCCGGAGCGAGCAGCUCUGGUUUCCAACAUGAUAUUUUUGUCCUAUUU
...(((((((.....((((...(.((..(((((((......((((.(((......))).)))).((((.....)))).))))))))).)...))))......)))))))........... ( -32.60)
>DroSim_CAF1 13086 120 - 1
AAUGAAUAUUUUAUAGAAAAAUGUGCAAUGUUCGCAAGGCCGCAGAUACUCACUCGUACCUGCACCGGUCACUCCGGAGCGAGCAGCUCUGGUUUCCAACAUGAUAUUUUUGUCCUAUUU
...(((((((.....((((...(.((..(((((((......((((.(((......))).)))).((((.....)))).))))))))).)...))))......)))))))........... ( -32.60)
>consensus
AAUGAAUAUUUUAUAGAAAAAUGUGCAAUGUUCGCAAGGCCGCAGAUACUCACUCGUACCUGCACCGGUCACUCCGGAGCGAGCAGCUCUGGUUUCCAACAUGAUAUUUUUGUCCUAUUU
...(((((((.....((((...(.((..(((((((......((((.(((......))).)))).((((.....)))).))))))))).)...))))......)))))))........... (-32.60 = -32.60 +   0.00)

alignment

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secondary structure

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dotplot

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Window 4

Location 18,070,911 – 18,071,031
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 100.00
Mean single sequence MFE -32.90
Consensus MFE -32.90
Energy contribution -32.90
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.34
Structure conservation index 1.00
SVM decision value 0.02
SVM RNA-class probability 0.543349
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18070911 120 + 22224390
GCCUUGCGAACAUUGCACAUUUUUCUAUAAAAUAUUCAUUAACCCGAUAUUCAUUAAAAUGACGCCGCCUCGUUAGGGUUAAUGGCGCCAGUGGCCCCCAGUCGGUCGCCAAGCGCUCCG
....(((((...)))))...................((((((((((.....).......(((((......))))))))))))))((((...((((..((....))..)))).)))).... ( -32.90)
>DroSec_CAF1 8577 120 + 1
GCCUUGCGAACAUUGCACAUUUUUCUAUAAAAUAUUCAUUAACCCGAUAUUCAUUAAAAUGACGCCGCCUCGUUAGGGUUAAUGGCGCCAGUGGCCCCCAGUCGGUCGCCAAGCGCUCCG
....(((((...)))))...................((((((((((.....).......(((((......))))))))))))))((((...((((..((....))..)))).)))).... ( -32.90)
>DroSim_CAF1 13166 120 + 1
GCCUUGCGAACAUUGCACAUUUUUCUAUAAAAUAUUCAUUAACCCGAUAUUCAUUAAAAUGACGCCGCCUCGUUAGGGUUAAUGGCGCCAGUGGCCCCCAGUCGGUCGCCAAGCGCUCCG
....(((((...)))))...................((((((((((.....).......(((((......))))))))))))))((((...((((..((....))..)))).)))).... ( -32.90)
>consensus
GCCUUGCGAACAUUGCACAUUUUUCUAUAAAAUAUUCAUUAACCCGAUAUUCAUUAAAAUGACGCCGCCUCGUUAGGGUUAAUGGCGCCAGUGGCCCCCAGUCGGUCGCCAAGCGCUCCG
....(((((...)))))...................((((((((((.....).......(((((......))))))))))))))((((...((((..((....))..)))).)))).... (-32.90 = -32.90 +  -0.00)

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 12:33:40 2006