Locus 4195

Sequence ID 2L_DroMel_CAF1
Location 12,010,930 – 12,011,061
Length 131
Max. P 0.995505
window6633 window6634

overview

Window 3

Location 12,010,930 – 12,011,024
Length 94
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 95.22
Mean single sequence MFE -22.58
Consensus MFE -21.80
Energy contribution -21.80
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.59
Structure conservation index 0.97
SVM decision value 2.58
SVM RNA-class probability 0.995505
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12010930 94 + 22407834
C----GACUUGUUGCAUGUAAUAAUAAUAAUAACGAACGAAACGGUAU--CGUAGCUGUUUAGUGGAUGAUUAAACUGAAUUUAAUCGUUUGCGAACAGG
.----...((((((....))))))........((((((......)).)--)))..((((((.(..((((((((((.....))))))))))..))))))). ( -22.00)
>DroVir_CAF1 2555 100 + 1
AAGACGACUUGUUGCAUGUAAUAAUAAUAAUAACGAACGAAACGGUAUCUCGUAGCUGUUUAGUGGAUGAUUAAACUGAAUUUAAUCGUUUGCGAACAGG
.......((((((.(........................(((((((........))))))).(..((((((((((.....))))))))))..)))))))) ( -21.80)
>DroGri_CAF1 2718 100 + 1
UGGCCGACUUGUUGCAUGUAAUAAUAAUAAUAACGAACGAAACGGUAUCUCGUAGCUGUUUAGUGGAUGAUUAAACUGAAUUUAAUCGUUUGCGAACAGG
..((((..(((((...(((.((.......)).))))))))..)))).........((((((.(..((((((((((.....))))))))))..))))))). ( -23.70)
>DroSec_CAF1 2423 97 + 1
CGG-GGACUUGUUGCAUGUAAUAAUAAUAAUAACGAACGAAACGGUAU--CGUAGCUGUUUAGUGGAUGAUUAAACUGAAUUUAAUCGUUUGCGAACAGG
.(.-...)((((((....))))))........((((((......)).)--)))..((((((.(..((((((((((.....))))))))))..))))))). ( -23.30)
>DroSim_CAF1 2424 95 + 1
CG---GACUUGUUGCAUGUAAUAAUAAUAAUAACGAACGAAACGGUAU--CGUAGCUGUUUAGUGGAUGAUUAAACUGAAUUUAAUCGUUUGCGAACAGG
..---...((((((....))))))........((((((......)).)--)))..((((((.(..((((((((((.....))))))))))..))))))). ( -22.00)
>DroWil_CAF1 3032 97 + 1
--G-AGACUUGUUGCAUGUAAUAAUAAUAAUAACGAACGAAACGGUAUCUCGUAGCUGUUUAGUGGAUGAUUAAACUGAAUUUAAUCGUUUGCGAACAGG
--(-(((.((((((....)))))).........((.......))...))))....((((((.(..((((((((((.....))))))))))..))))))). ( -22.70)
>consensus
CGG__GACUUGUUGCAUGUAAUAAUAAUAAUAACGAACGAAACGGUAU__CGUAGCUGUUUAGUGGAUGAUUAAACUGAAUUUAAUCGUUUGCGAACAGG
.......((((((.(........................(((((((........))))))).(..((((((((((.....))))))))))..)))))))) (-21.80 = -21.80 +   0.00)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 4

Location 12,010,946 – 12,011,061
Length 115
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.11
Mean single sequence MFE -31.55
Consensus MFE -21.08
Energy contribution -21.73
Covariance contribution 0.66
Combinations/Pair 1.20
Mean z-score -1.91
Structure conservation index 0.67
SVM decision value 0.08
SVM RNA-class probability 0.571388
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12010946 115 + 22407834
AUAAUAAUAAUAACGAACGAAACGGUAU--CGUAGCUGUUUAGUGGAUGAUUAAACUGAAUUUAAUCGUUUGCGAACAGGCGCUCAGCGUCACACAGUCGGU--CGUCCGGCCA-UUAUG
......(((((.((((((......)).)--))).(((((...(..((((((((((.....))))))))))..).....(((((...)))))..))))).(((--(....)))))-)))). ( -31.10)
>DroVir_CAF1 2575 118 + 1
AUAAUAAUAAUAACGAACGAAACGGUAUCUCGUAGCUGUUUAGUGGAUGAUUAAACUGAAUUUAAUCGUUUGCGAACAGGCGCACAGCACUCAACUGUAUGCUGCG--ACGCCUUCUACA
...................(((((((........))))))).(..((((((((((.....))))))))))..)((..((((((.(((((..(....)..))))).)--.))))))).... ( -33.70)
>DroGri_CAF1 2738 99 + 1
AUAAUAAUAAUAACGAACGAAACGGUAUCUCGUAGCUGUUUAGUGGAUGAUUAAACUGAAUUUAAUCGUUUGCGAACAGGCGCACAGCACUCGA----------CG-----------ACC
.......................(((...(((.((((((((.(..((((((((((.....))))))))))..)))))))((.....)).)))))----------..-----------))) ( -24.40)
>DroWil_CAF1 3049 117 + 1
AUAAUAAUAAUAACGAACGAAACGGUAUCUCGUAGCUGUUUAGUGGAUGAUUAAACUGAAUUUAAUCGUUUGCGAACAGGCGCACAGCAGUUGCCAGCCAGC--CGAUGGGCUA-UUAUG
......((((((...........((((.((.....((((((.(..((((((((((.....))))))))))..)))))))((.....)))).)))).....((--(....)))))-)))). ( -30.70)
>DroMoj_CAF1 2763 118 + 1
AUAAUAAUAAUAACGAACGAAACGGUAUCUCGUAGCUGUUUAGUGGAUGAUUAAACUGAAUUUAAUCGUUUGCGAACAGGCGCACAGCAUUUCGCUGUAUGCGACG--GCGCUAUUUACG
.................(((((..((..((((((.((((((.(..((((((((((.....))))))))))..)))))))....(((((.....))))).))))).)--..))..))).)) ( -33.80)
>DroAna_CAF1 2532 117 + 1
AUAAUAAUAAUAACGAACGAAACGGUAUCUCGUAGCUGUUUAGUGGAUGAUUAAACUGAAUUUAAUCGUUUGCGAACAGGCGCUCAGCGGAGCUGGGCUCGU--CGUCGGGCCA-UUAUU
..((((((.....(((.(((.((((....))))..((((((.(..((((((((((.....))))))))))..)))))))(.(((((((...))))))).).)--)))))....)-))))) ( -35.60)
>consensus
AUAAUAAUAAUAACGAACGAAACGGUAUCUCGUAGCUGUUUAGUGGAUGAUUAAACUGAAUUUAAUCGUUUGCGAACAGGCGCACAGCACUCCACAGUAUGC__CG__GGGCCA_UUACG
............((((((......))...))))..((((((.(..((((((((((.....))))))))))..)))))))((.....))........(((((......)))))........ (-21.08 = -21.73 +   0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:10 2006