Locus 9805

Sequence ID 3R_DroMel_CAF1
Location 26,058,399 – 26,058,522
Length 123
Max. P 0.726244
window15659 window15660

overview

Window 9

Location 26,058,399 – 26,058,492
Length 93
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 82.49
Mean single sequence MFE -15.01
Consensus MFE -9.80
Energy contribution -9.80
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.68
Structure conservation index 0.65
SVM decision value -0.01
SVM RNA-class probability 0.529471
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26058399 93 + 27905053
AUC------GCUGUCAUUCAACUAUC--CACUUAUACUUAUUUAUGCUUUUAAUAAGCAGCAUGACAUGC--UGCAAAUGUCAAACUUCGG--CUGUCAUUCAAA-
...------((((.............--................(((((.....)))))...((((((..--.....)))))).....)))--)...........- ( -14.80)
>DroPse_CAF1 56038 95 + 1
CUC------AGAAUCCCACUAUCAUC--CACUUAUACUUAUUUAUGCUUUUAAUAAGCAGCAUGACAUGCUCUGCAAAUGUCAAACCUCGG--CUGUCAUUCAAA-
...------.((((..((((......--................(((((.....)))))...((((((.........))))))......))--.))..))))...- ( -13.70)
>DroEre_CAF1 55492 93 + 1
AUC------GCUGCCAUUCAACCAUC--CACUUAUACUUAUUUAUGCUUUUAAUAAGCAACAUGACAUGC--UGCAAAUGUCAAACCUCGG--CUGUCAUUCAAA-
...------((.(((...........--................(((((.....)))))...((((((..--.....))))))......))--).))........- ( -16.40)
>DroWil_CAF1 64837 93 + 1
ACC------CC---UACUAAACUAUC--CACUUAUGCUUAUUUAUGCUUUUAAUAAGCAACAUGACAUGC--UGCAAAUGUCAAUACUCGGUCCUGUCAUUCAAAA
(((------..---............--......((((((((.........))))))))...((((((..--.....))))))......))).............. ( -14.40)
>DroAna_CAF1 54012 101 + 1
GUCUCCCCCUCUGCGAUAUAAGUACUGACACUUAUACUUAUUUAUGCUUUUAAUAAGCAACAUGACAUGC--UGCAAAUGUCAAACCUCGG--CUGUCAUUCAAG-
................(((((((......)))))))........(((((.....)))))..((((((.((--((..............)))--))))))).....- ( -17.04)
>DroPer_CAF1 58644 95 + 1
CUC------AGAAUCCCACUAUCAUC--CACUUAUACUUAUUUAUGCUUUUAAUAAGCAGCAUGACAUGCUCUGCAAAUGUCAAACCUCGG--CUGUCAUUCAAA-
...------.((((..((((......--................(((((.....)))))...((((((.........))))))......))--.))..))))...- ( -13.70)
>consensus
AUC______ACUGUCACACAACCAUC__CACUUAUACUUAUUUAUGCUUUUAAUAAGCAACAUGACAUGC__UGCAAAUGUCAAACCUCGG__CUGUCAUUCAAA_
............................................(((((.....)))))...((((((.........))))))....................... ( -9.80 =  -9.80 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 26,058,428 – 26,058,522
Length 94
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 83.82
Mean single sequence MFE -17.15
Consensus MFE -12.92
Energy contribution -13.78
Covariance contribution 0.86
Combinations/Pair 1.05
Mean z-score -2.18
Structure conservation index 0.75
SVM decision value 0.41
SVM RNA-class probability 0.726244
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26058428 94 + 27905053
UUAUUUAUGCUUUUAAUAAGCAGCAUGACAUGC--UGCAAAUGUCAAACUUCGGCUGUCAUUCAAAUGUAGCCAUGCAGCACUGCCCUUCACUUCC
.......(((((.....)))))(((.(...(((--((((...(........)(((((.(((....)))))))).)))))))))))........... ( -22.60)
>DroPse_CAF1 56067 91 + 1
UUAUUUAUGCUUUUAAUAAGCAGCAUGACAUGCUCUGCAAAUGUCAAACCUCGGCUGUCAUUCAAAUGUUACAU-----UUCUCCCCCUUAUUCAC
.(((((.(((((.....)))))(.(((((((((...)))...(((.......))))))))).))))))......-----................. ( -11.90)
>DroEre_CAF1 55521 80 + 1
UUAUUUAUGCUUUUAAUAAGCAACAUGACAUGC--UGCAAAUGUCAAACCUCGGCUGUCAUUCAAAUGUAGCCA-------CUGCCU-------GC
.......(((((.....)))))...((((((..--.....))))))......(((((.(((....)))))))).-------......-------.. ( -18.70)
>DroYak_CAF1 52867 87 + 1
UUAUUUAUGCUUUUAAUAAGCAACAUGACAUGC--UGCAAAUGUCAAACCUCGGCUGUCAUUCAAAUGUAGCCA-------CUGCCCUUCACUUUC
.......(((((.....)))))...((((((..--.....))))))......(((((.(((....)))))))).-------............... ( -18.70)
>DroAna_CAF1 54049 81 + 1
UUAUUUAUGCUUUUAAUAAGCAACAUGACAUGC--UGCAAAUGUCAAACCUCGGCUGUCAUUCAAGUGAAGCCA-------CUACUCU------CC
.......(((((.....)))))...((((((..--.....))))))......((((.((((....)))))))).-------.......------.. ( -19.10)
>DroPer_CAF1 58673 91 + 1
UUAUUUAUGCUUUUAAUAAGCAGCAUGACAUGCUCUGCAAAUGUCAAACCUCGGCUGUCAUUCAAAUGUAACAU-----UUCUCCCCCUUAUUCAC
.(((((.(((((.....)))))(.(((((((((...)))...(((.......))))))))).))))))......-----................. ( -11.90)
>consensus
UUAUUUAUGCUUUUAAUAAGCAACAUGACAUGC__UGCAAAUGUCAAACCUCGGCUGUCAUUCAAAUGUAGCCA_______CUGCCCUU_A_U_AC
.......(((((.....)))))...((((((.........))))))......(((((.(((....))))))))....................... (-12.92 = -13.78 +   0.86)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:42:35 2006