Locus 6893

Sequence ID X_DroMel_CAF1
Location 17,246,348 – 17,246,514
Length 166
Max. P 0.964050
window11272 window11273 window11274

overview

Window 2

Location 17,246,348 – 17,246,438
Length 90
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 75.50
Mean single sequence MFE -31.38
Consensus MFE -19.02
Energy contribution -19.74
Covariance contribution 0.72
Combinations/Pair 1.15
Mean z-score -2.05
Structure conservation index 0.61
SVM decision value 1.44
SVM RNA-class probability 0.954479
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17246348 90 - 22224390
AC---GAGAGGGUGGCAAA-----CAGCCACUUUCCAUUUCGCCGUCGCAGAGAUCCUGGCA-----------------GCAGGAUUUGAUCCAAUUAGAUCGGUCCUAAUCACA
..---(.(((((((((...-----..)))))))))).....(((.......((((((((...-----------------.))))))))((((......))))))).......... ( -29.60)
>DroSec_CAF1 92014 93 - 1
ACGACGAGAGGGUGGCAAA-----CAGCCACUUUCCAUUUCGGCGUCGCAGAGAUCCUGGCA-----------------GCAGGAUUUGAUCCAAUUAGAUCGGUCCUAAUCACA
.(((((.(((((((((...-----..)))))))))........)))))...((((((((...-----------------.))))))))((((......))))............. ( -31.00)
>DroSim_CAF1 94447 93 - 1
ACGACGAGAGGGUGGCAAA-----CAGCCACUUUCCAUUUCGCCGUCGCAGAGAUCCUGGCA-----------------GCAGGAUUUGAUCCAAUUAGAUCGGUCCUAAUCACA
.(((((.(((((((((...-----..)))))))))........)))))...((((((((...-----------------.))))))))((((......))))............. ( -29.90)
>DroEre_CAF1 98361 76 - 1
AC---G-GAGGGUGGCAAG-----CAGCCACUGUCCACU-GAUCCUGGCA-----------------------------GCGGGAGUUGAUCCAAUUAGAUCGGUCCUAAUCACA
..---(-((.((((((...-----..)))))).)))(((-((((.(((((-----------------------------((....))))..)))....))))))).......... ( -30.50)
>DroYak_CAF1 101425 110 - 1
AC---GAGAGGGUGGCAAACCAUCCAGCCAA-CUCCGCU-CCUCGUCGCAGAUAUCCUGGCUGGAAUUGGUAGGAAUUGGCCGGAGUUGAUCCAAUUAGAUCGCUGCUAAUCACA
..---((...((..((......(((.(((((-.(((...-((...((.(((.........)))))...))..))).))))).)))...((((......))))))..))..))... ( -35.90)
>consensus
AC___GAGAGGGUGGCAAA_____CAGCCACUUUCCAUUUCGCCGUCGCAGAGAUCCUGGCA_________________GCAGGAUUUGAUCCAAUUAGAUCGGUCCUAAUCACA
.....(.(((((((((..........)))))))))).............................................((((((.((((......))))))))))....... (-19.02 = -19.74 +   0.72)

alignment

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secondary structure

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dotplot

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Window 3

Location 17,246,383 – 17,246,478
Length 95
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.37
Mean single sequence MFE -34.36
Consensus MFE -23.30
Energy contribution -23.70
Covariance contribution 0.40
Combinations/Pair 1.21
Mean z-score -1.98
Structure conservation index 0.68
SVM decision value 1.48
SVM RNA-class probability 0.957800
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17246383 95 - 22224390
UCACAUUAGCAAUUUUCCACGGCCAGCCCUUUUUGGCCGGAC---GAGAGGGUGGCAAA-----CAGCCACUUUCCAUUUCGCCGUCGCAGAGAUCCUGGCA-----------------G
.....................(((((...(((((((.(((.(---(((((((((((...-----..)))))))))....)))))).).))))))..))))).-----------------. ( -33.10)
>DroSec_CAF1 92049 98 - 1
UCACAUUAGCAAUUUUCCACGGUCAACCCUUUUUGGCCGGACGACGAGAGGGUGGCAAA-----CAGCCACUUUCCAUUUCGGCGUCGCAGAGAUCCUGGCA-----------------G
........((...((((..(((((((......)))))))((((.((((((((((((...-----..)))))))))....))).))))...)))).....)).-----------------. ( -34.60)
>DroSim_CAF1 94482 98 - 1
UCACAUUAGCAAUUUUCCACGGCCAACCCUUUUUGGCCGGACGACGAGAGGGUGGCAAA-----CAGCCACUUUCCAUUUCGCCGUCGCAGAGAUCCUGGCA-----------------G
........((...((((..(((((((......)))))))((((.((((((((((((...-----..)))))))))....))).))))...)))).....)).-----------------. ( -37.30)
>DroEre_CAF1 98396 81 - 1
UCACAUUAGCGAUUUUCCACGGCCAACCCUUUUCGGCUGGAC---G-GAGGGUGGCAAG-----CAGCCACUGUCCACU-GAUCCUGGCA-----------------------------G
.....((((.((((.....(((((..........)))))...---(-((.((((((...-----..)))))).)))...-))))))))..-----------------------------. ( -27.50)
>DroYak_CAF1 101460 115 - 1
UCACAUUAGCAAUUUUCCACGGCCAACCCUUUUUGGACGGAC---GAGAGGGUGGCAAACCAUCCAGCCAA-CUCCGCU-CCUCGUCGCAGAUAUCCUGGCUGGAAUUGGUAGGAAUUGG
.........((((..(((...((((.(((((((.(......)---)))))))))))..((((((((((((.-.((.((.-.......)).)).....))))))))..)))).))))))). ( -39.30)
>consensus
UCACAUUAGCAAUUUUCCACGGCCAACCCUUUUUGGCCGGAC___GAGAGGGUGGCAAA_____CAGCCACUUUCCAUUUCGCCGUCGCAGAGAUCCUGGCA_________________G
........((.........(((((((......)))))))......(.(((((((((..........))))))))))...........))............................... (-23.30 = -23.70 +   0.40)

alignment

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secondary structure

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dotplot

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Window 4

Location 17,246,406 – 17,246,514
Length 108
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 90.62
Mean single sequence MFE -30.92
Consensus MFE -26.46
Energy contribution -26.54
Covariance contribution 0.08
Combinations/Pair 1.21
Mean z-score -1.83
Structure conservation index 0.86
SVM decision value 1.56
SVM RNA-class probability 0.964050
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17246406 108 - 22224390
ACCCUAAUGCGUCUAUAAUUCGAGCCAUUAGUGCAAUCACAUUAGCAAUUUUCCACGGCCAGCCCUUUUUGGCCGGAC---GAGAGGGUGGCAAA-----CAGCCACUUUCCAUUU
.........((((..........((...(((((......))))))).........(((((((......))))))))))---).(((((((((...-----..)))))))))..... ( -32.80)
>DroSec_CAF1 92072 111 - 1
ACCCUAAUGCGUCUAUAAUUCGAGCCAUUAGUGCAAUCACAUUAGCAAUUUUCCACGGUCAACCCUUUUUGGCCGGACGACGAGAGGGUGGCAAA-----CAGCCACUUUCCAUUU
.........((((..........((...(((((......))))))).........(((((((......)))))))))))..(.(((((((((...-----..)))))))))).... ( -30.90)
>DroSim_CAF1 94505 111 - 1
ACCCUAAUGCGUCUAUAAUUCGAGCCAUUAGUGCAAUCACAUUAGCAAUUUUCCACGGCCAACCCUUUUUGGCCGGACGACGAGAGGGUGGCAAA-----CAGCCACUUUCCAUUU
.........((((..........((...(((((......))))))).........(((((((......)))))))))))..(.(((((((((...-----..)))))))))).... ( -33.60)
>DroEre_CAF1 98407 106 - 1
ACCCUAAUGCGUCUAUAAUUCGGGCCAUUAGUGCAAUCACAUUAGCGAUUUUCCACGGCCAACCCUUUUCGGCUGGAC---G-GAGGGUGGCAAG-----CAGCCACUGUCCACU-
...((((((.((((.......))))))))))...((((.(....).)))).....(((((..........)))))...---(-((.((((((...-----..)))))).)))...- ( -33.10)
>DroYak_CAF1 101500 111 - 1
ACCCUAAUGCGUCUAUAAUUCGAGCCAUUAGUGCAAUCACAUUAGCAAUUUUCCACGGCCAACCCUUUUUGGACGGAC---GAGAGGGUGGCAAACCAUCCAGCCAA-CUCCGCU-
(((((....((((..........((...(((((......))))))).........((.((((......)))).)))))---)..)))))(((..........)))..-.......- ( -24.20)
>consensus
ACCCUAAUGCGUCUAUAAUUCGAGCCAUUAGUGCAAUCACAUUAGCAAUUUUCCACGGCCAACCCUUUUUGGCCGGAC___GAGAGGGUGGCAAA_____CAGCCACUUUCCAUUU
...((((((..((........))..))))))(((..........)))........(((((((......)))))))......(.(((((((((..........)))))))))).... (-26.46 = -26.54 +   0.08)

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 12:25:19 2006