Locus 5785

Sequence ID 3L_DroMel_CAF1
Location 15,667,313 – 15,667,454
Length 141
Max. P 0.999532
window9192 window9193 window9194

overview

Window 2

Location 15,667,313 – 15,667,416
Length 103
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 93.25
Mean single sequence MFE -25.64
Consensus MFE -23.84
Energy contribution -23.70
Covariance contribution -0.14
Combinations/Pair 1.04
Mean z-score -1.19
Structure conservation index 0.93
SVM decision value 0.68
SVM RNA-class probability 0.819555
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15667313 103 - 23771897
AUGGCUCAUUAGGGUCUUAAAUUAAAGCUACUUGGCCCAAGUCGGUCAACUAAGCCGACGUGCGGAGAAA-----------------GAAAAAGAAAGCGGCGCGAAGACAAGACCACAA
............((((((...((...((..(((..((((.((((((.......)))))).)).)).....-----------------........)))..))...))...)))))).... ( -25.16)
>DroSec_CAF1 27019 103 - 1
AUGGCUCAUUAGGGUCUUAAAUUAAAGCUACUUGGCCCAAGUCGGUCAACUAAGCCGACGUGCGGAGAAA-----------------GAAAAAGAAAGCGGCGCGAAGACAAGACCACAA
............((((((...((...((..(((..((((.((((((.......)))))).)).)).....-----------------........)))..))...))...)))))).... ( -25.16)
>DroSim_CAF1 27000 103 - 1
AUGGCUCAUUAGGGUCUUAAAUUAAAGCUACUUGGCCCAAGUCGGUCAACUAAGCCGACGUGCGGAGAAA-----------------GAAAAAGAAAGCGGCGCGAAGACAAGACCACAA
............((((((...((...((..(((..((((.((((((.......)))))).)).)).....-----------------........)))..))...))...)))))).... ( -25.16)
>DroEre_CAF1 26594 102 - 1
AUGGCUCAUUAGGGUCUUAAAUUAAAGCUACUUGGC-CAAGUCGGUCAACUAAGCCGACGUGCGGAGAAA-----------------GAAAAAGAAAGCGGCGCGAAGACAAGACCACAA
............((((((...((...(((.(((.((-...((((((.......))))))..)).)))...-----------------......(....))))...))...)))))).... ( -25.00)
>DroYak_CAF1 27193 103 - 1
AUGGCUCAUUAGGGUCUUAAAUUAAAGCUACUUGGCCCAAGUCGGUCAACUAAGCCGACGUGCGGAGAAA-----------------GAAAAAGAAAGCGGCGCGAAGACAAGACCACAA
............((((((...((...((..(((..((((.((((((.......)))))).)).)).....-----------------........)))..))...))...)))))).... ( -25.16)
>DroAna_CAF1 85641 120 - 1
AUGGCUCAUUAGGGUCUUAAAUUAAAGCUACUUGGCCCAAGUCGGUCAACUAAGCCGACGUGCAAAGAAAUGGGAAAAUGGUAAAUGGGAAAAGAAAGCGGCCCGAAGACAAGACCACAA
.(((((..((.((((((((...))).(((.(((..((((.((((((.......))))))...(..(....)..)...........))))..)))..))))))))...))..)).)))... ( -28.20)
>consensus
AUGGCUCAUUAGGGUCUUAAAUUAAAGCUACUUGGCCCAAGUCGGUCAACUAAGCCGACGUGCGGAGAAA_________________GAAAAAGAAAGCGGCGCGAAGACAAGACCACAA
............((((((...((...(((.(((.((....((((((.......))))))..)).)))..........................(....))))...))...)))))).... (-23.84 = -23.70 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 15,667,346 – 15,667,454
Length 108
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 96.11
Mean single sequence MFE -29.38
Consensus MFE -28.70
Energy contribution -28.87
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.16
Structure conservation index 0.98
SVM decision value 1.57
SVM RNA-class probability 0.964404
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15667346 108 + 23771897
----------UUUCUCCGCACGUCGGCUUAGUUGACCGACUUGGGCCAAGUAGCUUUAAUUUAAGACCCUAAUGAGCCAUUUAGGCAUUCUGGGCUUUGUGUCUUCAAUGCCGACUAC
----------...........((((((...(((((..(((..(((((.((...(((......)))...)).....(((.....)))......)))))...))).)))))))))))... ( -29.30)
>DroSec_CAF1 27052 108 + 1
----------UUUCUCCGCACGUCGGCUUAGUUGACCGACUUGGGCCAAGUAGCUUUAAUUUAAGACCCUAAUGAGCCAUUUAGGCAUUCUGGGCUUUGUGUCUUCAAUGCCGACUAC
----------...........((((((...(((((..(((..(((((.((...(((......)))...)).....(((.....)))......)))))...))).)))))))))))... ( -29.30)
>DroSim_CAF1 27033 108 + 1
----------UUUCUCCGCACGUCGGCUUAGUUGACCGACUUGGGCCAAGUAGCUUUAAUUUAAGACCCUAAUGAGCCAUUUAGGCAUUCUGGGCUUUGUGUCUUCAAUGCCGACUAC
----------...........((((((...(((((..(((..(((((.((...(((......)))...)).....(((.....)))......)))))...))).)))))))))))... ( -29.30)
>DroEre_CAF1 26627 107 + 1
----------UUUCUCCGCACGUCGGCUUAGUUGACCGACUUG-GCCAAGUAGCUUUAAUUUAAGACCCUAAUGAGCCAUUUAGGCAUUCUGGGCUUUGUGUCUUCAAUGCCGACUAC
----------...........(((((((.((((....)))).)-)))((((.((((....(((......))).)))).)))).((((((..((((.....))))..)))))))))... ( -29.80)
>DroYak_CAF1 27226 108 + 1
----------UUUCUCCGCACGUCGGCUUAGUUGACCGACUUGGGCCAAGUAGCUUUAAUUUAAGACCCUAAUGAGCCAUUUAGGCAUUCUGGGCUUUGUGUCUUCAAUGCCGACUAC
----------...........((((((...(((((..(((..(((((.((...(((......)))...)).....(((.....)))......)))))...))).)))))))))))... ( -29.30)
>DroAna_CAF1 85681 118 + 1
CAUUUUCCCAUUUCUUUGCACGUCGGCUUAGUUGACCGACUUGGGCCAAGUAGCUUUAAUUUAAGACCCUAAUGAGCCAUUUAGGCAUUCUGGGCUUUGUGUCUUCAAUGCCGACUAC
.....................((((((...(((((..(((..(((((.((...(((......)))...)).....(((.....)))......)))))...))).)))))))))))... ( -29.30)
>consensus
__________UUUCUCCGCACGUCGGCUUAGUUGACCGACUUGGGCCAAGUAGCUUUAAUUUAAGACCCUAAUGAGCCAUUUAGGCAUUCUGGGCUUUGUGUCUUCAAUGCCGACUAC
.....................((((((...(((((..(((..(((((.((...(((......)))...)).....(((.....)))......)))))...))).)))))))))))... (-28.70 = -28.87 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 15,667,346 – 15,667,454
Length 108
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 96.11
Mean single sequence MFE -31.42
Consensus MFE -31.27
Energy contribution -31.27
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.79
Structure conservation index 1.00
SVM decision value 3.69
SVM RNA-class probability 0.999532
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15667346 108 - 23771897
GUAGUCGGCAUUGAAGACACAAAGCCCAGAAUGCCUAAAUGGCUCAUUAGGGUCUUAAAUUAAAGCUACUUGGCCCAAGUCGGUCAACUAAGCCGACGUGCGGAGAAA----------
(((((((((.((((.(((...((((((.((..(((.....)))...)).))).)))........(((....)))....)))..))))....)))))).))).......---------- ( -31.40)
>DroSec_CAF1 27052 108 - 1
GUAGUCGGCAUUGAAGACACAAAGCCCAGAAUGCCUAAAUGGCUCAUUAGGGUCUUAAAUUAAAGCUACUUGGCCCAAGUCGGUCAACUAAGCCGACGUGCGGAGAAA----------
(((((((((.((((.(((...((((((.((..(((.....)))...)).))).)))........(((....)))....)))..))))....)))))).))).......---------- ( -31.40)
>DroSim_CAF1 27033 108 - 1
GUAGUCGGCAUUGAAGACACAAAGCCCAGAAUGCCUAAAUGGCUCAUUAGGGUCUUAAAUUAAAGCUACUUGGCCCAAGUCGGUCAACUAAGCCGACGUGCGGAGAAA----------
(((((((((.((((.(((...((((((.((..(((.....)))...)).))).)))........(((....)))....)))..))))....)))))).))).......---------- ( -31.40)
>DroEre_CAF1 26627 107 - 1
GUAGUCGGCAUUGAAGACACAAAGCCCAGAAUGCCUAAAUGGCUCAUUAGGGUCUUAAAUUAAAGCUACUUGGC-CAAGUCGGUCAACUAAGCCGACGUGCGGAGAAA----------
(((((((((............((((((.((..(((.....)))...)).))).))).............(((((-(.....))))))....)))))).))).......---------- ( -31.50)
>DroYak_CAF1 27226 108 - 1
GUAGUCGGCAUUGAAGACACAAAGCCCAGAAUGCCUAAAUGGCUCAUUAGGGUCUUAAAUUAAAGCUACUUGGCCCAAGUCGGUCAACUAAGCCGACGUGCGGAGAAA----------
(((((((((.((((.(((...((((((.((..(((.....)))...)).))).)))........(((....)))....)))..))))....)))))).))).......---------- ( -31.40)
>DroAna_CAF1 85681 118 - 1
GUAGUCGGCAUUGAAGACACAAAGCCCAGAAUGCCUAAAUGGCUCAUUAGGGUCUUAAAUUAAAGCUACUUGGCCCAAGUCGGUCAACUAAGCCGACGUGCAAAGAAAUGGGAAAAUG
(((((((((.((((.(((...((((((.((..(((.....)))...)).))).)))........(((....)))....)))..))))....)))))).)))................. ( -31.40)
>consensus
GUAGUCGGCAUUGAAGACACAAAGCCCAGAAUGCCUAAAUGGCUCAUUAGGGUCUUAAAUUAAAGCUACUUGGCCCAAGUCGGUCAACUAAGCCGACGUGCGGAGAAA__________
(((((((((.((((.(((...((((((.((..(((.....)))...)).))).)))........(((....)))....)))..))))....)))))).)))................. (-31.27 = -31.27 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:55 2006