Locus 176

Sequence ID 4_DroMel_CAF1
Location 1,098,363 – 1,098,523
Length 160
Max. P 0.999676
window279 window280 window281

overview

Window 9

Location 1,098,363 – 1,098,483
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.67
Mean single sequence MFE -28.24
Consensus MFE -26.76
Energy contribution -27.20
Covariance contribution 0.44
Combinations/Pair 1.04
Mean z-score -2.36
Structure conservation index 0.95
SVM decision value 3.87
SVM RNA-class probability 0.999676
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1098363 120 + 1281640
UUGCAAAAUAUCCUCUGGGUGCAAUAAUCCAGUCAUCCCAACCUAGUGCUUUGAAAGAAACAUAAAAAGAUUCUUUACAGCACUGUCCAUUUAAAGCUCCGCCACAAUCUACGGCGCGUC
..((..........((((((......))))))...........(((((((...((((((.(.......).))))))..)))))))..........))..((((.........)))).... ( -26.10)
>DroSec_CAF1 13080 120 + 1
UUGCGAAAUAUCCUCUGGGUGCAAUAAUCCAGUCAUCCCAACCCAGUGCUUUGAAAGAAACAUAAAAUGAUUCUUUACAGCACUGUCCAUUUAAAGCUCCGCCACAAUCUACGGCGCGUC
..((.((((.....((((((......))))))...........(((((((...((((((.(((...))).))))))..)))))))...))))...))..((((.........)))).... ( -29.60)
>DroSim_CAF1 3063 120 + 1
UUGCGAAAUAUCCUCUGGGUGCAAUAAUCCAGUCAUCCCAACCCAGUGCUUUGAAAGAAACAUAAAAUGAUUCUUUACAGCACUGUCCAUUUAAAGCUCCGCCACAAUCUACGGCGCGUC
..((.((((.....((((((......))))))...........(((((((...((((((.(((...))).))))))..)))))))...))))...))..((((.........)))).... ( -29.60)
>DroEre_CAF1 12520 120 + 1
UCGCGAAAUAUCCCCUGGGUGCAAUAAUCCAGUCAUCCCAACCCAGUGCUUUGAAAGAAACAUAAAAUGAUUCUUUACAGCACUGUCCAUUUAAAGCUCCGCCACAAUCUACGGCGCGUC
..((.((((.....((((((......))))))...........(((((((...((((((.(((...))).))))))..)))))))...))))...))..((((.........)))).... ( -30.10)
>DroYak_CAF1 4313 120 + 1
UCGCGAAAUAUCCCCUGGGUGCAAUAAUCCAGUCAUCCCAACCCAGUGCUUUGAAAGAAACAUAAAAUGAUUCCUUACAGCACUGCCCAUUUAAAGCUCCGCCACAAUCUAUGGCUCGUC
..((((........((((((......))))))...........(((((((.(((..(((.(((...))).))).))).)))))))...............((((.......)))))))). ( -25.80)
>consensus
UUGCGAAAUAUCCUCUGGGUGCAAUAAUCCAGUCAUCCCAACCCAGUGCUUUGAAAGAAACAUAAAAUGAUUCUUUACAGCACUGUCCAUUUAAAGCUCCGCCACAAUCUACGGCGCGUC
..((..........((((((......))))))...........(((((((...((((((.(((...))).))))))..)))))))..........))..((((.........)))).... (-26.76 = -27.20 +   0.44)

alignment

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secondary structure

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dotplot

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Window 0

Location 1,098,403 – 1,098,523
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.42
Mean single sequence MFE -28.57
Consensus MFE -23.84
Energy contribution -24.52
Covariance contribution 0.68
Combinations/Pair 1.09
Mean z-score -1.45
Structure conservation index 0.83
SVM decision value 0.23
SVM RNA-class probability 0.642972
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1098403 120 + 1281640
ACCUAGUGCUUUGAAAGAAACAUAAAAAGAUUCUUUACAGCACUGUCCAUUUAAAGCUCCGCCACAAUCUACGGCGCGUCGCCUAACACGCCUUGUUCUGGAUGAUUCUGUAUGAAGUAC
.....(((((((.((((((.(.......).))))))((((.(..(((((....(((....(((.........)))((((........)))))))....)))))..).))))..))))))) ( -26.10)
>DroSec_CAF1 13120 120 + 1
ACCCAGUGCUUUGAAAGAAACAUAAAAUGAUUCUUUACAGCACUGUCCAUUUAAAGCUCCGCCACAAUCUACGGCGCGUCGCCUGACACGCCUUUUUCUGUAUGAUUCUGUAUGAAGUAC
...(((((((...((((((.(((...))).))))))..)))))))..........(((.((.((.(((((((((((.(((....))).)))).......))).)))).))..)).))).. ( -29.11)
>DroSim_CAF1 3103 120 + 1
ACCCAGUGCUUUGAAAGAAACAUAAAAUGAUUCUUUACAGCACUGUCCAUUUAAAGCUCCGCCACAAUCUACGGCGCGUCGCCUGACACGCCUUGUUCUGGAUGAUUCUGUAUGAAGUAC
...(((((((...((((((.(((...))).))))))..)))))))..(((......(((((..((((.....((((.(((....))).))))))))..)))).).......)))...... ( -31.02)
>DroEre_CAF1 12560 120 + 1
ACCCAGUGCUUUGAAAGAAACAUAAAAUGAUUCUUUACAGCACUGUCCAUUUAAAGCUCCGCCACAAUCUACGGCGCGUCGCCUAACGCGCCUUGUUUUAGAUGAUUCUGUAUGAAGUAC
...(((((((...((((((.(((...))).))))))..)))))))..((((((((((...(..........)(((((((......)))))))..)))))))))).(((.....))).... ( -35.00)
>DroYak_CAF1 4353 120 + 1
ACCCAGUGCUUUGAAAGAAACAUAAAAUGAUUCCUUACAGCACUGCCCAUUUAAAGCUCCGCCACAAUCUAUGGCUCGUCGCCUAACGCGCCUUGUUCUUGAUGAUUCUGUAUGAAGUAC
...(((((((.(((..(((.(((...))).))).))).)))))))..........(((.(((((.......))))((((((...((((.....))))..))))))........).))).. ( -21.60)
>consensus
ACCCAGUGCUUUGAAAGAAACAUAAAAUGAUUCUUUACAGCACUGUCCAUUUAAAGCUCCGCCACAAUCUACGGCGCGUCGCCUAACACGCCUUGUUCUGGAUGAUUCUGUAUGAAGUAC
...(((((((...((((((.(((...))).))))))..)))))))..((((((.(((...(((.........)))((((........))))...))).)))))).(((.....))).... (-23.84 = -24.52 +   0.68)

alignment

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secondary structure

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dotplot

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Window 1

Location 1,098,403 – 1,098,523
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.42
Mean single sequence MFE -35.28
Consensus MFE -33.10
Energy contribution -33.06
Covariance contribution -0.04
Combinations/Pair 1.09
Mean z-score -1.62
Structure conservation index 0.94
SVM decision value 1.99
SVM RNA-class probability 0.984846
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1098403 120 - 1281640
GUACUUCAUACAGAAUCAUCCAGAACAAGGCGUGUUAGGCGACGCGCCGUAGAUUGUGGCGGAGCUUUAAAUGGACAGUGCUGUAAAGAAUCUUUUUAUGUUUCUUUCAAAGCACUAGGU
....(((((..(((.((..(((.(((..((((((((....))))))))...).)).)))..))..)))..))))).((((((..((((((.(.......).))))))...)))))).... ( -31.50)
>DroSec_CAF1 13120 120 - 1
GUACUUCAUACAGAAUCAUACAGAAAAAGGCGUGUCAGGCGACGCGCCGUAGAUUGUGGCGGAGCUUUAAAUGGACAGUGCUGUAAAGAAUCAUUUUAUGUUUCUUUCAAAGCACUGGGU
...((((...((.((((.(((.......((((((((....))))))))))))))).))..))))...........(((((((..((((((.(((...))).))))))...)))))))... ( -38.61)
>DroSim_CAF1 3103 120 - 1
GUACUUCAUACAGAAUCAUCCAGAACAAGGCGUGUCAGGCGACGCGCCGUAGAUUGUGGCGGAGCUUUAAAUGGACAGUGCUGUAAAGAAUCAUUUUAUGUUUCUUUCAAAGCACUGGGU
....(((((..(((.((..(((.(((..((((((((....))))))))...).)).)))..))..)))..)))))(((((((..((((((.(((...))).))))))...)))))))... ( -38.10)
>DroEre_CAF1 12560 120 - 1
GUACUUCAUACAGAAUCAUCUAAAACAAGGCGCGUUAGGCGACGCGCCGUAGAUUGUGGCGGAGCUUUAAAUGGACAGUGCUGUAAAGAAUCAUUUUAUGUUUCUUUCAAAGCACUGGGU
...((((.((((.....(((((......((((((((....)))))))).)))))))))..))))...........(((((((..((((((.(((...))).))))))...)))))))... ( -37.90)
>DroYak_CAF1 4353 120 - 1
GUACUUCAUACAGAAUCAUCAAGAACAAGGCGCGUUAGGCGACGAGCCAUAGAUUGUGGCGGAGCUUUAAAUGGGCAGUGCUGUAAGGAAUCAUUUUAUGUUUCUUUCAAAGCACUGGGU
...((((.(((((..((.....))....(((.((((....)))).))).....)))))..))))...........(((((((..((((((.(((...))).))))))...)))))))... ( -30.30)
>consensus
GUACUUCAUACAGAAUCAUCCAGAACAAGGCGUGUUAGGCGACGCGCCGUAGAUUGUGGCGGAGCUUUAAAUGGACAGUGCUGUAAAGAAUCAUUUUAUGUUUCUUUCAAAGCACUGGGU
...((((...((.((((.(....)....((((((((....))))))))...)))).))..))))...........(((((((..((((((.(((...))).))))))...)))))))... (-33.10 = -33.06 +  -0.04)

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 09:38:12 2006