Locus 7490

Sequence ID X_DroMel_CAF1
Location 18,679,076 – 18,679,276
Length 200
Max. P 0.931547
window12286 window12287 window12288 window12289

overview

Window 6

Location 18,679,076 – 18,679,196
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.67
Mean single sequence MFE -48.77
Consensus MFE -45.89
Energy contribution -46.67
Covariance contribution 0.78
Combinations/Pair 1.03
Mean z-score -1.70
Structure conservation index 0.94
SVM decision value 0.23
SVM RNA-class probability 0.644459
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18679076 120 - 22224390
UCCAGAAACUCAAGGGCCGCCUGCACAGCAGGCACAUCUUGCUUGCUCGCCACUUCGCGGGUGAACUCGGUGGCCUCCUUCUUGGGCACCGUAUAGUAGCGGCCAUCCUUGAACGAGCGC
.........(((((((((((.(((...(((((((.....)))))))(((((........)))))...(((((.((........)).)))))....))))))))...))))))........ ( -47.20)
>DroSim_CAF1 4618 120 - 1
UCCAGAAACUCGAGGGCCGCCUGCACAGCAGGCACAUCUUGCUUGCUCGCCACUUCGCGGGUGAACUCGGUGGCCUCCUUCUUGGGCACCGUGUAGUAGCGGCCAUCCUUGAACGAGCGC
.........(((((((((((((((((.(((((((.....)))))))(((((........)))))....((((.((........)).))))))))))..)))))...))))))........ ( -51.20)
>DroYak_CAF1 4464 120 - 1
UCCAGAAACUCGAGGGCCGCCUGCACAGCAGGCACAUCCUGCUUGCUCGCCACUUCGCGGGUGAACUCGGUGGCCUCCUUCUUGGGCACCGUGUAAUAGCGUCCGUCCUUGAACGAGCGC
.........((((((((.((((((...)))))).......(((..(((((......)))))..)((.(((((.((........)).))))).))....))....))))))))........ ( -47.90)
>consensus
UCCAGAAACUCGAGGGCCGCCUGCACAGCAGGCACAUCUUGCUUGCUCGCCACUUCGCGGGUGAACUCGGUGGCCUCCUUCUUGGGCACCGUGUAGUAGCGGCCAUCCUUGAACGAGCGC
.........(((((((((((((((((.(((((((.....)))))))(((((........)))))....((((.((........)).))))))))))..)))))...))))))........ (-45.89 = -46.67 +   0.78)

alignment

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secondary structure

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dotplot

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Window 7

Location 18,679,116 – 18,679,236
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 95.56
Mean single sequence MFE -48.77
Consensus MFE -43.62
Energy contribution -43.73
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.22
Structure conservation index 0.89
SVM decision value 0.65
SVM RNA-class probability 0.810088
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18679116 120 - 22224390
CAGCGAAUCCCUGUCCCAAUGGGCAGGCAGAACACUGCUGUCCAGAAACUCAAGGGCCGCCUGCACAGCAGGCACAUCUUGCUUGCUCGCCACUUCGCGGGUGAACUCGGUGGCCUCCUU
(((((..(((((((((....)))))))..))....))))).............((((((((......(((((((.....)))))))(((((........)))))....)))))))).... ( -46.40)
>DroSim_CAF1 4658 120 - 1
CAGAGAAUCCCUGUCCCAAUGGGCAGGCAGAACACUGCUAUCCAGAAACUCGAGGGCCGCCUGCACAGCAGGCACAUCUUGCUUGCUCGCCACUUCGCGGGUGAACUCGGUGGCCUCCUU
..(((.....((((((....))))))((((....))))..........)))(..(((((((......(((((((.....)))))))(((((........)))))....)))))))..).. ( -48.70)
>DroYak_CAF1 4504 120 - 1
CAGCGAGUCCCUAUCCCAGUGGGCAGGCAGCACACUGCUGUCCAGAAACUCGAGGGCCGCCUGCACAGCAGGCACAUCCUGCUUGCUCGCCACUUCGCGGGUGAACUCGGUGGCCUCCUU
...(((((.(((((....)))))..((((((.....)))))).....))))).((((((((.(((.((((((.....)))))))))(((((........)))))....)))))))).... ( -51.20)
>consensus
CAGCGAAUCCCUGUCCCAAUGGGCAGGCAGAACACUGCUGUCCAGAAACUCGAGGGCCGCCUGCACAGCAGGCACAUCUUGCUUGCUCGCCACUUCGCGGGUGAACUCGGUGGCCUCCUU
...................(((((((.(((....)))))))))).........((((((((.(((.((((((.....)))))))))(((((........)))))....)))))))).... (-43.62 = -43.73 +   0.11)

alignment

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secondary structure

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dotplot

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Window 8

Location 18,679,156 – 18,679,276
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.89
Mean single sequence MFE -52.23
Consensus MFE -49.26
Energy contribution -49.27
Covariance contribution 0.01
Combinations/Pair 1.08
Mean z-score -1.90
Structure conservation index 0.94
SVM decision value 0.68
SVM RNA-class probability 0.819701
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18679156 120 + 22224390
AAGAUGUGCCUGCUGUGCAGGCGGCCCUUGAGUUUCUGGACAGCAGUGUUCUGCCUGCCCAUUGGGACAGGGAUUCGCUGUUCGGGCUGACGAACAUCUCGAGCGAUGACGAGGGCGAGA
......(((((((...)))))))(((((((.(((((((((((((((....)).(((((((...))).)))).....))))))))))..)))...((((......)))).))))))).... ( -51.80)
>DroSim_CAF1 4698 120 + 1
AAGAUGUGCCUGCUGUGCAGGCGGCCCUCGAGUUUCUGGAUAGCAGUGUUCUGCCUGCCCAUUGGGACAGGGAUUCUCUGUUCGGGCUGACGAACAUCUCGAGCGAUGACGAGGGCGAGA
......(((((((...)))))))((((((((((..(((....((((....))))...(((...))).)))..))))..((((((((.((.....)).)))))))).....)))))).... ( -51.40)
>DroYak_CAF1 4544 120 + 1
AGGAUGUGCCUGCUGUGCAGGCGGCCCUCGAGUUUCUGGACAGCAGUGUGCUGCCUGCCCACUGGGAUAGGGACUCGCUGUUCGGCCUCACGAACAUCUCCAGCGAUGACGAGGGCGAGA
......(((((((...)))))))(((((((.(((.(((((((((.....))))(((((((...))).)))).....(.((((((......)))))).)))))).)))..))))))).... ( -53.50)
>consensus
AAGAUGUGCCUGCUGUGCAGGCGGCCCUCGAGUUUCUGGACAGCAGUGUUCUGCCUGCCCAUUGGGACAGGGAUUCGCUGUUCGGGCUGACGAACAUCUCGAGCGAUGACGAGGGCGAGA
......(((((((...)))))))(((((((.(((.(((((((((((....)).(((((((...))).)))).....)))))))))...)))...((((......)))).))))))).... (-49.26 = -49.27 +   0.01)

alignment

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secondary structure

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dotplot

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Window 9

Location 18,679,156 – 18,679,276
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 93.89
Mean single sequence MFE -47.59
Consensus MFE -41.60
Energy contribution -42.60
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.84
Structure conservation index 0.87
SVM decision value 1.21
SVM RNA-class probability 0.931547
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18679156 120 - 22224390
UCUCGCCCUCGUCAUCGCUCGAGAUGUUCGUCAGCCCGAACAGCGAAUCCCUGUCCCAAUGGGCAGGCAGAACACUGCUGUCCAGAAACUCAAGGGCCGCCUGCACAGCAGGCACAUCUU
..((((.((((........)))).((((((......))))))))))..((((.......(((((((.(((....))))))))))........))))..((((((...))))))....... ( -45.46)
>DroSim_CAF1 4698 120 - 1
UCUCGCCCUCGUCAUCGCUCGAGAUGUUCGUCAGCCCGAACAGAGAAUCCCUGUCCCAAUGGGCAGGCAGAACACUGCUAUCCAGAAACUCGAGGGCCGCCUGCACAGCAGGCACAUCUU
....(((((((((.((....)))))(((((......))))).(((.....((((((....))))))((((....))))..........))))))))).((((((...))))))....... ( -45.80)
>DroYak_CAF1 4544 120 - 1
UCUCGCCCUCGUCAUCGCUGGAGAUGUUCGUGAGGCCGAACAGCGAGUCCCUAUCCCAGUGGGCAGGCAGCACACUGCUGUCCAGAAACUCGAGGGCCGCCUGCACAGCAGGCACAUCCU
....(((((((...((((((....((..(....)..))..))))))((((((.....)).)))).((((((.....))))))........))))))).((((((...))))))....... ( -51.50)
>consensus
UCUCGCCCUCGUCAUCGCUCGAGAUGUUCGUCAGCCCGAACAGCGAAUCCCUGUCCCAAUGGGCAGGCAGAACACUGCUGUCCAGAAACUCGAGGGCCGCCUGCACAGCAGGCACAUCUU
....(((((((...(((((......(((((......)))))))))).............(((((((.(((....))))))))))......))))))).((((((...))))))....... (-41.60 = -42.60 +   1.00)

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 12:40:15 2006