Locus 5569

Sequence ID 2L_DroMel_CAF1
Location 15,839,093 – 15,839,283
Length 190
Max. P 0.702438
window8834 window8835 window8836

overview

Window 4

Location 15,839,093 – 15,839,213
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 94.17
Mean single sequence MFE -22.81
Consensus MFE -18.14
Energy contribution -18.37
Covariance contribution 0.23
Combinations/Pair 1.06
Mean z-score -2.18
Structure conservation index 0.80
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15839093 120 - 22407834
CCGAUAAGGGACUUAUCGGAAAAUGUGUAUGUGUAAAAAAAUAUACUCGCUUAUAAAUAAAUUAUUUGAUUGUGAAGAAGAUGUGUCAGAUAUUCUAAAGAAAAAGUUUGUAAAAAACAA
((((((((...)))))))).....(.((((((........)))))).)..((((((((....((((((((..............))))))))(((....)))...))))))))....... ( -22.24)
>DroSec_CAF1 11105 120 - 1
CCGAUAAGGGACUUAUCGGAAAAUGUGUAUGUGGAAAAAAAUAUACCCGCUUAUAAAUAAAUUAGUUGAUUGUGAAGAAGUUGAGUCACACAUUUUAAAGAAAAAGUUUAUAAAAAACAA
((((((((...))))))))(((((((((..((((............))))((((((.(((.....))).))))))............))))))))).........((((.....)))).. ( -22.70)
>DroSim_CAF1 11079 120 - 1
CCGAUAAGGGACUUAUCGGAAAAUGUGUAUGUGGAAAAAAAUAUACCCGCUUAUAAAUAAAUUAGUUGAUUGUGAAGAAGUUGCGUCACACAUUUUAAAGGAAAAGUUUAUAAAAAACAA
((((((((...))))))))(((((((((..((((............)))).................(((.(..(.....)..))))))))))))).........((((.....)))).. ( -23.50)
>consensus
CCGAUAAGGGACUUAUCGGAAAAUGUGUAUGUGGAAAAAAAUAUACCCGCUUAUAAAUAAAUUAGUUGAUUGUGAAGAAGUUGAGUCACACAUUUUAAAGAAAAAGUUUAUAAAAAACAA
((((((((...))))))))....(((((((((........))))))....((((((((...((..((((.(((((..........)))))....))))..))...))))))))...))). (-18.14 = -18.37 +   0.23)

alignment

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secondary structure

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dotplot

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Window 5

Location 15,839,133 – 15,839,253
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 98.33
Mean single sequence MFE -17.47
Consensus MFE -17.22
Energy contribution -17.00
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -1.43
Structure conservation index 0.99
SVM decision value 0.06
SVM RNA-class probability 0.562875
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15839133 120 + 22407834
CUUCUUCACAAUCAAAUAAUUUAUUUAUAAGCGAGUAUAUUUUUUUACACAUACACAUUUUCCGAUAAGUCCCUUAUCGGCCUGCAACUGAACUUCAUCACCCGUGGGCUAUUUAUAUUU
................................(((((((.......................(((((((...)))))))(((..(...(((......)))...)..)))....))))))) ( -17.60)
>DroSec_CAF1 11145 120 + 1
CUUCUUCACAAUCAACUAAUUUAUUUAUAAGCGGGUAUAUUUUUUUCCACAUACACAUUUUCCGAUAAGUCCCUUAUCGGCCUGCAACUGAACUUCAUCACCCGUGGGCUAUUUAUAUUU
..............................((((((.........................((((((((...)))))))).........((......))))))))............... ( -17.40)
>DroSim_CAF1 11119 120 + 1
CUUCUUCACAAUCAACUAAUUUAUUUAUAAGCGGGUAUAUUUUUUUCCACAUACACAUUUUCCGAUAAGUCCCUUAUCGGCCUGCAACUGAACUUCAUCACCCGUGGGCUAUUUAUAUUU
..............................((((((.........................((((((((...)))))))).........((......))))))))............... ( -17.40)
>consensus
CUUCUUCACAAUCAACUAAUUUAUUUAUAAGCGGGUAUAUUUUUUUCCACAUACACAUUUUCCGAUAAGUCCCUUAUCGGCCUGCAACUGAACUUCAUCACCCGUGGGCUAUUUAUAUUU
................................(((((((.......................(((((((...)))))))(((..(...(((......)))...)..)))....))))))) (-17.22 = -17.00 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,839,173 – 15,839,283
Length 110
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.89
Mean single sequence MFE -23.47
Consensus MFE -21.33
Energy contribution -21.67
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.87
Structure conservation index 0.91
SVM decision value 0.36
SVM RNA-class probability 0.702438
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15839173 110 + 22407834
UUUUUUACACAUACACAUUUUCCGAUAAGUCCCUUAUCGGCCUGCAACUGAACUUCAUCACCCGUGGGCUAUUUAUAUUUAUUACUAUUUAUUGGCUUAUGAGUCUGGCA----------
......................(((((((...)))))))(((.((...(((......)))..(((((((((...(((........)))....))))))))).))..))).---------- ( -20.40)
>DroSec_CAF1 11185 120 + 1
UUUUUUCCACAUACACAUUUUCCGAUAAGUCCCUUAUCGGCCUGCAACUGAACUUCAUCACCCGUGGGCUAUUUAUAUUUAUUACUAUUUAUUGGCUUAUGAGUCUGGCAGAAAUGAUAU
...............(((((.((((((((...)))))))).((((.(((((......))...(((((((((...(((........)))....))))))))))))...))))))))).... ( -25.00)
>DroSim_CAF1 11159 120 + 1
UUUUUUCCACAUACACAUUUUCCGAUAAGUCCCUUAUCGGCCUGCAACUGAACUUCAUCACCCGUGGGCUAUUUAUAUUUAUUACUAUUUAUUGGCUUAUGAGUCUGGCAGAAAUGAUAU
...............(((((.((((((((...)))))))).((((.(((((......))...(((((((((...(((........)))....))))))))))))...))))))))).... ( -25.00)
>consensus
UUUUUUCCACAUACACAUUUUCCGAUAAGUCCCUUAUCGGCCUGCAACUGAACUUCAUCACCCGUGGGCUAUUUAUAUUUAUUACUAUUUAUUGGCUUAUGAGUCUGGCAGAAAUGAUAU
.....................((((((((...)))))))).((((.(((((......))...(((((((((...(((........)))....))))))))))))...))))......... (-21.33 = -21.67 +   0.33)

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 11:47:24 2006