Locus 8645

Sequence ID 3R_DroMel_CAF1
Location 23,114,619 – 23,114,767
Length 148
Max. P 0.901335
window13885 window13886

overview

Window 5

Location 23,114,619 – 23,114,727
Length 108
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 72.14
Mean single sequence MFE -29.98
Consensus MFE -22.46
Energy contribution -21.43
Covariance contribution -1.02
Combinations/Pair 1.41
Mean z-score -1.07
Structure conservation index 0.75
SVM decision value 1.02
SVM RNA-class probability 0.901335
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23114619 108 + 27905053
UUUGU------GAUCGGCGGA-----CGCACAAGGAAUCAAUCAUGGGCCUGCUAUAUGCGCUGCGCGUGAGGAUCAUGAACUUCAUGAUUUUCUUCCUCCUCAUCAUCCUAAUGCCCG
...((------(((.((.(((-----(((.(((((..(((....))).)))((.....))..)).))))((((((((((.....))))))))))..)).))..)))))........... ( -28.70)
>DroVir_CAF1 1562 115 + 1
UUAGU----GGAAAGGGCGGGUCCAACACAUACGUACGUAGCCAUGGGUCUGCUGAAGGCGUUGCGUGUGAGGAUCAUGAAUUUCAUGAUUUUCUUUCUAAUUAUCAUUUUGCUGCCGG
.(((.----.(((..(((((..(((.....(((....)))....)))..)))))(((((((...)))..((((((((((.....)))))))))))))).........)))..))).... ( -33.20)
>DroPse_CAF1 4990 114 + 1
UUUGUAUUUAGAAUCGGCAGA-----CGCACAACACACCAACCAUGGGCCUGCUUCGAGCCUUGCGUUUGAGAAUCAUGAAUUUCAUGGUUUUCUUCCUGAUAGUUAUAAUCCUGCCCA
...............((((((-----((((...............(((((......).)))))))))..((((((((((.....))))))))))..................))))).. ( -27.96)
>DroEre_CAF1 1518 108 + 1
UUUGU------GAUCGGCGGA-----CGCACAAGAAAUCAAUCAUGGGCCUGUUGUACGCGCUGCGUGUGAGGAUCAUGAACUUCAUGAUUUUCUUCCUCAUCAUCAUCCUGAUGCCCG
(((((------(..((.....-----))))))))...........((((......(((((...))))).((((((((((.....))))))))))......((((......)))))))). ( -28.00)
>DroAna_CAF1 1590 108 + 1
CUUUA------GGCCGGUAGA-----UCCAAAACGAACUAAUCAUGGGUCUGCUGUAUGCUCUACGCGUGAGGAUCAUGAAUUUCAUGAUCUUCUUUCUGAUUAUCAUUCUGCUGCCCG
.....------((((((((((-----((((..............))))))))))).((((.....))))((((((((((.....))))))))))....................))).. ( -34.04)
>DroPer_CAF1 4990 114 + 1
UUUGUUGUUAGAAUCGGCAGA-----CGCACAACACACCAACCAUGGGCCUGCUUCGAGCCUUGCGUUUGAGAAUCAUGAACUUCAUGGUUUUCUUCCUAAUAGUUAUAAUCCUGCCCA
...............((((((-----((((...............(((((......).)))))))))..((((((((((.....))))))))))..................))))).. ( -27.96)
>consensus
UUUGU______AAUCGGCAGA_____CGCACAACAAACCAACCAUGGGCCUGCUGUAAGCGCUGCGUGUGAGGAUCAUGAACUUCAUGAUUUUCUUCCUAAUAAUCAUACUGCUGCCCG
...............(((((.......................(((.((..((.....))...)).)))((((((((((.....))))))))))..................))))).. (-22.46 = -21.43 +  -1.02)

alignment

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secondary structure

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dotplot

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Window 6

Location 23,114,647 – 23,114,767
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.89
Mean single sequence MFE -28.85
Consensus MFE -20.40
Energy contribution -21.23
Covariance contribution 0.84
Combinations/Pair 1.33
Mean z-score -1.50
Structure conservation index 0.71
SVM decision value 0.96
SVM RNA-class probability 0.890979
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23114647 120 + 27905053
AAUCAUGGGCCUGCUAUAUGCGCUGCGCGUGAGGAUCAUGAACUUCAUGAUUUUCUUCCUCCUCAUCAUCCUAAUGCCCGGUCUGCCGCCGCGCACCACCUUCCCCUUCAAGGACUAUAU
....((((.(((((.....))(.((((((.((((((((((.....)))))))))).......................(((....))).)))))).).............))).)))).. ( -32.30)
>DroVir_CAF1 1597 120 + 1
AGCCAUGGGUCUGCUGAAGGCGUUGCGUGUGAGGAUCAUGAAUUUCAUGAUUUUCUUUCUAAUUAUCAUUUUGCUGCCGGGUCUGCCCCCACGCACCACUUUCCCCUAUAAAGAUUUCAC
......(((......(((((.(.((((((.((((((((((.....)))))))))).......................(((....))).)))))).).)))))))).............. ( -32.80)
>DroGri_CAF1 1573 120 + 1
AACAAUGGGCCUGCUCAAAGCGUUGCGUGUGCGAAUCAUGAAUUUCAUGAUAUUCUAUCUAAUUGUUAUUCUGUUGCCCGGUUUGCCACCGCGCACCACUUUCCCCUACAAGGAAUUCAC
......(((...((.....))..((.(((((((.((((((.....))))))............................((....))..))))))))).....))).............. ( -25.40)
>DroMoj_CAF1 1494 120 + 1
AAUCAUGGGACUGUUGCGGUCAAUACGUCUGAGAAUUAUGAAUUUCAUGAUUUUCUUUCUAUUUAUUAUUUUGUUCCCGGGUCUGCCCCCGCGCACAACUUUCCCCUAUAAAGAUUUCAU
......((((.((((((((...........((((((((((.....)))))))))).......................(((....)))))))).)))....))))............... ( -27.50)
>DroAna_CAF1 1618 120 + 1
AAUCAUGGGUCUGCUGUAUGCUCUACGCGUGAGGAUCAUGAAUUUCAUGAUCUUCUUUCUGAUUAUCAUUCUGCUGCCCGGUCUGCCUCCCCGUACCACCUUUCCCUUCAAGGAAUAUAU
......((((..((...((((.....))))((((((((((.....)))))))))).................)).))))(((.((......)).)))....((((......))))..... ( -30.10)
>DroPer_CAF1 5024 120 + 1
AACCAUGGGCCUGCUUCGAGCCUUGCGUUUGAGAAUCAUGAACUUCAUGGUUUUCUUCCUAAUAGUUAUAAUCCUGCCCAACGUGCCGCCUCGCACCACUUUCCCCUACAAAGAAUUUAU
.....(((((........(((..(......((((((((((.....))))))))))......)..)))........)))))..((((......))))........................ ( -24.99)
>consensus
AACCAUGGGCCUGCUGAAAGCGUUGCGUGUGAGAAUCAUGAAUUUCAUGAUUUUCUUUCUAAUUAUCAUUCUGCUGCCCGGUCUGCCCCCGCGCACCACUUUCCCCUACAAAGAAUUCAU
......(((...((.....))..((((((.((((((((((.....)))))))))).......................(((....))).))))))........))).............. (-20.40 = -21.23 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:16:13 2006