Locus 2572

Sequence ID 2R_DroMel_CAF1
Location 9,084,920 – 9,085,055
Length 135
Max. P 0.976189
window4239 window4240 window4241 window4242

overview

Window 9

Location 9,084,920 – 9,085,024
Length 104
Sequences 3
Columns 114
Reading direction forward
Mean pairwise identity 85.15
Mean single sequence MFE -25.67
Consensus MFE -18.00
Energy contribution -18.67
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.79
Structure conservation index 0.70
SVM decision value 1.01
SVM RNA-class probability 0.899459
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9084920 104 + 20766785
AUUUUUCACACGAUCAGACUAU----------AGUAGGUUUACAAUCUGCAUAGGAAAAAAAUAAACGAUCGUCUUUUAUUUUCCCAUGCAACAGGUUUUAGGAUGAAAAUUAA
..((((((..((((((((((..----------....)))))......(((((.((((((.((...((....))...)).)))))).)))))...))))...)..)))))).... ( -18.70)
>DroSec_CAF1 49691 102 + 1
AUUUUUCACACGAUCUGA-UAU----------AUAAGGUUUACAAUCUGCAUGGGAA-AAAAUAAACGACCGCCUUUUAUUUUCCCAUGCAACAGGUUUUGGAAUGAAAAUGAA
..((((((((.((((((.-...----------...((((.....))))(((((((((-(..(((((.(.....).)))))))))))))))..)))))).))...)))))).... ( -26.20)
>DroSim_CAF1 51908 112 + 1
GUUUUUCACACGAUCAGA-UAUUAUAUAUCAGAUUAGGUUUACAAUCUGCAUGGGAA-AAUAUAAAGGACCGACUUUUAUUUUCCCAUGCAACAGGUUUUAGGAUGAAAAUGAA
..((((((..(((((.((-(((...))))).))))............((((((((((-((((.((((......))))))))))))))))))..........)..)))))).... ( -32.10)
>consensus
AUUUUUCACACGAUCAGA_UAU__________AUUAGGUUUACAAUCUGCAUGGGAA_AAAAUAAACGACCGACUUUUAUUUUCCCAUGCAACAGGUUUUAGGAUGAAAAUGAA
..((((((..(((((....................((((.....))))(((((((((...((((((.(.....).)))))))))))))))....))))...)..)))))).... (-18.00 = -18.67 +   0.67)

alignment

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secondary structure

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dotplot

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Window 0

Location 9,084,920 – 9,085,024
Length 104
Sequences 3
Columns 114
Reading direction reverse
Mean pairwise identity 85.15
Mean single sequence MFE -28.23
Consensus MFE -20.51
Energy contribution -20.62
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -3.80
Structure conservation index 0.73
SVM decision value 1.76
SVM RNA-class probability 0.976189
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9084920 104 - 20766785
UUAAUUUUCAUCCUAAAACCUGUUGCAUGGGAAAAUAAAAGACGAUCGUUUAUUUUUUUCCUAUGCAGAUUGUAAACCUACU----------AUAGUCUGAUCGUGUGAAAAAU
....((((((..(...........(((((((((((.((.((((....)))).)).)))))))))))((((((((.......)----------)))))))....)..)))))).. ( -28.50)
>DroSec_CAF1 49691 102 - 1
UUCAUUUUCAUUCCAAAACCUGUUGCAUGGGAAAAUAAAAGGCGGUCGUUUAUUUU-UUCCCAUGCAGAUUGUAAACCUUAU----------AUA-UCAGAUCGUGUGAAAAAU
....(((((((.(..........((((((((((((....((((....))))...))-))))))))))(((((((.....)))----------).)-)).....).))))))).. ( -25.10)
>DroSim_CAF1 51908 112 - 1
UUCAUUUUCAUCCUAAAACCUGUUGCAUGGGAAAAUAAAAGUCGGUCCUUUAUAUU-UUCCCAUGCAGAUUGUAAACCUAAUCUGAUAUAUAAUA-UCUGAUCGUGUGAAAAAC
....((((((..(....((...(((((((((((((((((((......)))).))))-)))))))))))...)).......(((.(((((...)))-)).))).)..)))))).. ( -31.10)
>consensus
UUCAUUUUCAUCCUAAAACCUGUUGCAUGGGAAAAUAAAAGACGGUCGUUUAUUUU_UUCCCAUGCAGAUUGUAAACCUAAU__________AUA_UCUGAUCGUGUGAAAAAU
....(((((((.(..........((((((((((((((((.(.....).))))))...))))))))))((((............................))))).))))))).. (-20.51 = -20.62 +   0.11)

alignment

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secondary structure

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dotplot

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Window 1

Location 9,084,950 – 9,085,055
Length 105
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 92.04
Mean single sequence MFE -25.63
Consensus MFE -19.12
Energy contribution -19.90
Covariance contribution 0.78
Combinations/Pair 1.03
Mean z-score -3.19
Structure conservation index 0.75
SVM decision value 0.53
SVM RNA-class probability 0.772176
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9084950 105 + 20766785
UACAAUCUGCAUAGGAAAAAAAUAAACGAUCGUCUUUUAUUUUCCCAUGCAACAGGUUUUAGGAUGAAAAUUAAAUAUCACAAUUUUUCCAGGACUCAGGUAACA
(((....(((((.((((((.((...((....))...)).)))))).)))))...((((((.(((..((((((.........)))))))))))))))...)))... ( -17.80)
>DroSec_CAF1 49720 104 + 1
UACAAUCUGCAUGGGAA-AAAAUAAACGACCGCCUUUUAUUUUCCCAUGCAACAGGUUUUGGAAUGAAAAUGAACUAUCAUAAUUUUCCCAGGACUCAGGUAACA
(((....((((((((((-(..(((((.(.....).))))))))))))))))...((((((((...((((((...........))))))))))))))...)))... ( -27.90)
>DroSim_CAF1 51947 104 + 1
UACAAUCUGCAUGGGAA-AAUAUAAAGGACCGACUUUUAUUUUCCCAUGCAACAGGUUUUAGGAUGAAAAUGAACUAUCACAAUUUUCCCAGGACUCAGGUAACA
(((....((((((((((-((((.((((......))))))))))))))))))...((((((.(((......(((....)))......))).))))))...)))... ( -31.20)
>consensus
UACAAUCUGCAUGGGAA_AAAAUAAACGACCGACUUUUAUUUUCCCAUGCAACAGGUUUUAGGAUGAAAAUGAACUAUCACAAUUUUCCCAGGACUCAGGUAACA
(((....((((((((((...((((((.(.....).))))))))))))))))...((((((.((..((((((...........))))))))))))))...)))... (-19.12 = -19.90 +   0.78)

alignment

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secondary structure

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dotplot

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Window 2

Location 9,084,950 – 9,085,055
Length 105
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 92.04
Mean single sequence MFE -27.60
Consensus MFE -20.90
Energy contribution -21.13
Covariance contribution 0.23
Combinations/Pair 1.13
Mean z-score -2.65
Structure conservation index 0.76
SVM decision value 0.27
SVM RNA-class probability 0.660777
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9084950 105 - 20766785
UGUUACCUGAGUCCUGGAAAAAUUGUGAUAUUUAAUUUUCAUCCUAAAACCUGUUGCAUGGGAAAAUAAAAGACGAUCGUUUAUUUUUUUCCUAUGCAGAUUGUA
.........((((..((((((((((.......)))))))..)))..........((((((((((((.((.((((....)))).)).))))))))))))))))... ( -24.30)
>DroSec_CAF1 49720 104 - 1
UGUUACCUGAGUCCUGGGAAAAUUAUGAUAGUUCAUUUUCAUUCCAAAACCUGUUGCAUGGGAAAAUAAAAGGCGGUCGUUUAUUUU-UUCCCAUGCAGAUUGUA
.........((((.(((((..(..((((....))))..)..)))))........((((((((((((....((((....))))...))-))))))))))))))... ( -27.60)
>DroSim_CAF1 51947 104 - 1
UGUUACCUGAGUCCUGGGAAAAUUGUGAUAGUUCAUUUUCAUCCUAAAACCUGUUGCAUGGGAAAAUAAAAGUCGGUCCUUUAUAUU-UUCCCAUGCAGAUUGUA
.........((((.(((((..(..((((....))))..)..)))))........((((((((((((((((((......)))).))))-))))))))))))))... ( -30.90)
>consensus
UGUUACCUGAGUCCUGGGAAAAUUGUGAUAGUUCAUUUUCAUCCUAAAACCUGUUGCAUGGGAAAAUAAAAGACGGUCGUUUAUUUU_UUCCCAUGCAGAUUGUA
.........((((.(((((..(..((((....))))..)..)))))........((((((((((((((((.(.....).))))))...))))))))))))))... (-20.90 = -21.13 +   0.23)

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 10:33:29 2006