Locus 2145

Sequence ID X_DroMel_CAF1
Location 5,813,274 – 5,813,392
Length 118
Max. P 0.990911
window3479 window3480 window3481 window3482

overview

Window 9

Location 5,813,274 – 5,813,376
Length 102
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 96.11
Mean single sequence MFE -39.08
Consensus MFE -31.50
Energy contribution -31.90
Covariance contribution 0.40
Combinations/Pair 1.06
Mean z-score -2.51
Structure conservation index 0.81
SVM decision value 1.58
SVM RNA-class probability 0.965668
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5813274 102 + 22224390
UUUUCUUGCGCGGAAUGCCACAGAUUGUAUCUGGUAGAUAAGGCCAAGUGCCUGGCCAGAAUGCAGCUUCUGCUGGUGGCAGUUGGUCGAUG--UGGAUGCGCU
.......(((((.....(((((.....((((.....)))).((((((.((((..((((....((((...)))))))))))).))))))..))--))).))))). ( -40.20)
>DroSec_CAF1 18859 102 + 1
UUUUCUUGCGCGGAAUGCCACAGAUUGUAUCUGGUAGAUAAGGCCAAGUGCCUGGCCAGAAUGCAGCUUCUGUUGGUGGCAGUUGGUCGAAG--UGGAUGCGCU
.......(((((.....((((......((((.....)))).((((((.((((..((((....((((...)))))))))))).))))))...)--))).))))). ( -38.00)
>DroSim_CAF1 19326 102 + 1
UUUUCUUGCGCGGAAUGCCACAGAUUGUAUCUGGUAGAUAAGGCCAAGUGCCUGGCCAGAAUGCAGCUUCUGCUGGUGGCAGUUGGUCGAUG--UGGAUGCGCU
.......(((((.....(((((.....((((.....)))).((((((.((((..((((....((((...)))))))))))).))))))..))--))).))))). ( -40.20)
>DroEre_CAF1 18492 104 + 1
UUUUCUUGCGCGGAAUGCCACAGAUUGUAUCUGGUAGAUAAGGCCAAGUGCCUGGCCAGAAUGCAGCUUCUGCUGGUGGAAGUUGGUCGAUGUGUGGCUGUGCU
.......(((((....((((((.((((..((((((.....((((.....)))).))))))...(((((((((....)))))))))..)))).))))))))))). ( -42.80)
>DroYak_CAF1 19167 102 + 1
UUUUCUUGCGCGGAAUGCCACAGAUUGUAUGUGGUAGAUAAGGCCAAGUGCCUGGCCAGAAUGCAGCUUCUGCUGGUUGAAGUUGGUCGAUG--UGGAUGUGCU
.......(((((...(((((((.......)))))))(((..(((((......)))))......(((((((........))))))))))....--....))))). ( -34.20)
>consensus
UUUUCUUGCGCGGAAUGCCACAGAUUGUAUCUGGUAGAUAAGGCCAAGUGCCUGGCCAGAAUGCAGCUUCUGCUGGUGGCAGUUGGUCGAUG__UGGAUGCGCU
.......(((((.....((((((((...)))))........((((((.((((..((((....((((...)))))))))))).))))))......))).))))). (-31.50 = -31.90 +   0.40)

alignment

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secondary structure

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dotplot

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Window 0

Location 5,813,274 – 5,813,376
Length 102
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 96.11
Mean single sequence MFE -27.56
Consensus MFE -23.68
Energy contribution -24.88
Covariance contribution 1.20
Combinations/Pair 1.00
Mean z-score -2.21
Structure conservation index 0.86
SVM decision value 2.24
SVM RNA-class probability 0.990911
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5813274 102 - 22224390
AGCGCAUCCA--CAUCGACCAACUGCCACCAGCAGAAGCUGCAUUCUGGCCAGGCACUUGGCCUUAUCUACCAGAUACAAUCUGUGGCAUUCCGCGCAAGAAAA
.((((.....--..........((((.....))))..((..((....((((((....)))))).((((.....)))).....))..)).....))))....... ( -31.00)
>DroSec_CAF1 18859 102 - 1
AGCGCAUCCA--CUUCGACCAACUGCCACCAACAGAAGCUGCAUUCUGGCCAGGCACUUGGCCUUAUCUACCAGAUACAAUCUGUGGCAUUCCGCGCAAGAAAA
.(((((((((--(...(.((((.((((.....(((((......)))))....)))).)))).).((((.....))))......)))).))...))))....... ( -28.30)
>DroSim_CAF1 19326 102 - 1
AGCGCAUCCA--CAUCGACCAACUGCCACCAGCAGAAGCUGCAUUCUGGCCAGGCACUUGGCCUUAUCUACCAGAUACAAUCUGUGGCAUUCCGCGCAAGAAAA
.((((.....--..........((((.....))))..((..((....((((((....)))))).((((.....)))).....))..)).....))))....... ( -31.00)
>DroEre_CAF1 18492 104 - 1
AGCACAGCCACACAUCGACCAACUUCCACCAGCAGAAGCUGCAUUCUGGCCAGGCACUUGGCCUUAUCUACCAGAUACAAUCUGUGGCAUUCCGCGCAAGAAAA
......((((((.................((((....))))......((((((....)))))).((((.....)))).....))))))......(....).... ( -25.70)
>DroYak_CAF1 19167 102 - 1
AGCACAUCCA--CAUCGACCAACUUCAACCAGCAGAAGCUGCAUUCUGGCCAGGCACUUGGCCUUAUCUACCACAUACAAUCUGUGGCAUUCCGCGCAAGAAAA
.((.......--..........((((........))))..((.....((((((....)))))).......(((((.......)))))......))))....... ( -21.80)
>consensus
AGCGCAUCCA__CAUCGACCAACUGCCACCAGCAGAAGCUGCAUUCUGGCCAGGCACUUGGCCUUAUCUACCAGAUACAAUCUGUGGCAUUCCGCGCAAGAAAA
.((((.................((((.....))))..((..((....((((((....)))))).((((.....)))).....))..)).....))))....... (-23.68 = -24.88 +   1.20)

alignment

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secondary structure

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dotplot

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Window 1

Location 5,813,300 – 5,813,392
Length 92
Sequences 5
Columns 94
Reading direction forward
Mean pairwise identity 95.26
Mean single sequence MFE -32.80
Consensus MFE -26.48
Energy contribution -27.12
Covariance contribution 0.64
Combinations/Pair 1.04
Mean z-score -1.71
Structure conservation index 0.81
SVM decision value 0.46
SVM RNA-class probability 0.744430
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5813300 92 + 22224390
GUAUCUGGUAGAUAAGGCCAAGUGCCUGGCCAGAAUGCAGCUUCUGCUGGUGGCAGUUGGUCGAUG--UGGAUGCGCUUACUGGGCCAGACAAU
...((((((......((((((.((((..((((....((((...)))))))))))).))))))...(--((....))).......)))))).... ( -33.40)
>DroSec_CAF1 18885 92 + 1
GUAUCUGGUAGAUAAGGCCAAGUGCCUGGCCAGAAUGCAGCUUCUGUUGGUGGCAGUUGGUCGAAG--UGGAUGCGCUUACGGGGCCAGACAAU
...((((((......((((((.((((..((((....((((...)))))))))))).)))))).(((--((....))))).....)))))).... ( -34.40)
>DroSim_CAF1 19352 92 + 1
GUAUCUGGUAGAUAAGGCCAAGUGCCUGGCCAGAAUGCAGCUUCUGCUGGUGGCAGUUGGUCGAUG--UGGAUGCGCUUACUGGGCCAGACAAU
...((((((......((((((.((((..((((....((((...)))))))))))).))))))...(--((....))).......)))))).... ( -33.40)
>DroEre_CAF1 18518 94 + 1
GUAUCUGGUAGAUAAGGCCAAGUGCCUGGCCAGAAUGCAGCUUCUGCUGGUGGAAGUUGGUCGAUGUGUGGCUGUGCUUACUGGGCCAGACAAU
...((((((.....((((.....)))).))))))...(((((((((....))))))))).....(((.(((((..(....)..))))).))).. ( -33.80)
>DroYak_CAF1 19193 92 + 1
GUAUGUGGUAGAUAAGGCCAAGUGCCUGGCCAGAAUGCAGCUUCUGCUGGUUGAAGUUGGUCGAUG--UGGAUGUGCUUACUGGGCCAGACAAU
((((.((((.......)))).))))((((((((...(((.(.((..(..(((((......))))))--..)).))))...)).))))))..... ( -29.00)
>consensus
GUAUCUGGUAGAUAAGGCCAAGUGCCUGGCCAGAAUGCAGCUUCUGCUGGUGGCAGUUGGUCGAUG__UGGAUGCGCUUACUGGGCCAGACAAU
...((((((......((((((.((((..((((....((((...)))))))))))).))))))..............((....)))))))).... (-26.48 = -27.12 +   0.64)

alignment

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secondary structure

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dotplot

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Window 2

Location 5,813,300 – 5,813,392
Length 92
Sequences 5
Columns 94
Reading direction reverse
Mean pairwise identity 95.26
Mean single sequence MFE -24.48
Consensus MFE -20.26
Energy contribution -20.46
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.02
Structure conservation index 0.83
SVM decision value 1.44
SVM RNA-class probability 0.954316
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5813300 92 - 22224390
AUUGUCUGGCCCAGUAAGCGCAUCCA--CAUCGACCAACUGCCACCAGCAGAAGCUGCAUUCUGGCCAGGCACUUGGCCUUAUCUACCAGAUAC
..(((((((((.((...((((.((..--....))....((((.....))))..)).))...))))))))))).((((.........)))).... ( -26.20)
>DroSec_CAF1 18885 92 - 1
AUUGUCUGGCCCCGUAAGCGCAUCCA--CUUCGACCAACUGCCACCAACAGAAGCUGCAUUCUGGCCAGGCACUUGGCCUUAUCUACCAGAUAC
..(((((((....(((((.((.((..--....)).(((.((((.....(((((......)))))....)))).))))))))))...))))))). ( -26.10)
>DroSim_CAF1 19352 92 - 1
AUUGUCUGGCCCAGUAAGCGCAUCCA--CAUCGACCAACUGCCACCAGCAGAAGCUGCAUUCUGGCCAGGCACUUGGCCUUAUCUACCAGAUAC
..(((((((((.((...((((.((..--....))....((((.....))))..)).))...))))))))))).((((.........)))).... ( -26.20)
>DroEre_CAF1 18518 94 - 1
AUUGUCUGGCCCAGUAAGCACAGCCACACAUCGACCAACUUCCACCAGCAGAAGCUGCAUUCUGGCCAGGCACUUGGCCUUAUCUACCAGAUAC
..(((((((....................................((((....))))......((((((....)))))).......))))))). ( -22.40)
>DroYak_CAF1 19193 92 - 1
AUUGUCUGGCCCAGUAAGCACAUCCA--CAUCGACCAACUUCAACCAGCAGAAGCUGCAUUCUGGCCAGGCACUUGGCCUUAUCUACCACAUAC
..(((((((((.((...((.......--....((......))....(((....)))))...)))))))))))..(((.........)))..... ( -21.50)
>consensus
AUUGUCUGGCCCAGUAAGCGCAUCCA__CAUCGACCAACUGCCACCAGCAGAAGCUGCAUUCUGGCCAGGCACUUGGCCUUAUCUACCAGAUAC
..(((((((....(((((..............................(((((......)))))(((((....))))))))))...))))))). (-20.26 = -20.46 +   0.20)

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 10:27:17 2006