Locus 106

Sequence ID 2L_DroMel_CAF1
Location 368,093 – 368,232
Length 139
Max. P 0.918006
window154 window155

overview

Window 4

Location 368,093 – 368,198
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.40
Mean single sequence MFE -21.64
Consensus MFE -15.05
Energy contribution -16.21
Covariance contribution 1.16
Combinations/Pair 1.09
Mean z-score -2.52
Structure conservation index 0.70
SVM decision value 0.99
SVM RNA-class probability 0.895895
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 368093 105 + 22407834
AAUUAAAUUAUGCUGCACCAAC------AACAACAAUGGCCGGUAUACUACGG-----AACA----GAACAAUAACAACUAUGUUGGCCGUGGCUAUUACAGCCAUAAACCCGACAAACA
........(((((((..(((..------........))).)))))))(....)-----....----...............((((((..((((((.....))))))....)))))).... ( -21.10)
>DroSec_CAF1 35657 105 + 1
AAUUAAAUUAUACUGCACCAAC------AACAACAAUGGCCGGUAUACUACAG-----AACA----GAGCAAUAACAACUAUGUUGGCCGUGGCUAUUACAGCCAUAAACCCGACAAACA
........(((((((..(((..------........))).)))))))......-----....----...............((((((..((((((.....))))))....)))))).... ( -20.80)
>DroSim_CAF1 36267 105 + 1
AAUUAAAUUAUGCUGCACCAAC------AACAACAAUGGCCGGUAUACUACAG-----AACA----GAGCAAUAACAACUAUGUUGGCCGUGGCUAUUACAGCCAUAAACCCGACAAACA
........(((((((..(((..------........))).)))))))......-----....----...............((((((..((((((.....))))))....)))))).... ( -20.80)
>DroEre_CAF1 42110 102 + 1
AAUUAAAUUAUGCUGCACCAAC------ACCAACAAUGGCCGGG--------GCACAGAGCA----GAACAAUAACAACAAUGUUGUCCGUGGCUAUUACAGCCAUAAACCCGACAAACA
......................------.(((....))).((((--------((.....)).----(.((((((.......)))))).)((((((.....))))))...))))....... ( -19.50)
>DroYak_CAF1 36683 120 + 1
AAUUAAAUUAUGCUGCACCAACACCAACACCAACAAUGCCCGGUGUUCUACAGCACAGAACAAUAACAACAAUAACAACAAUGUUGGCCGUGGCUAUUACAGCCAUAAACCCGACAAACA
..........(((((....((((((................))))))...)))))..........................((((((..((((((.....))))))....)))))).... ( -25.99)
>consensus
AAUUAAAUUAUGCUGCACCAAC______AACAACAAUGGCCGGUAUACUACAG_____AACA____GAACAAUAACAACUAUGUUGGCCGUGGCUAUUACAGCCAUAAACCCGACAAACA
........(((((((..(((................))).)))))))..................................((((((..((((((.....))))))....)))))).... (-15.05 = -16.21 +   1.16)

alignment

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secondary structure

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dotplot

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Window 5

Location 368,127 – 368,232
Length 105
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.36
Mean single sequence MFE -18.53
Consensus MFE -13.85
Energy contribution -14.47
Covariance contribution 0.61
Combinations/Pair 1.06
Mean z-score -1.91
Structure conservation index 0.75
SVM decision value 1.12
SVM RNA-class probability 0.918006
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 368127 105 + 22407834
CGGUAUACUACGG-----AACA----GAACAAUAACAACUAUGUUGGCCGUGGCUAUUACAGCCAUAAACCCGACAAACACGAAUCGCGUGCAGAAACAAUUUAAAAAACAAU------C
((........)).-----....----...............((((((..((((((.....))))))....))))))..((((.....))))......................------. ( -18.00)
>DroSim_CAF1 36301 105 + 1
CGGUAUACUACAG-----AACA----GAGCAAUAACAACUAUGUUGGCCGUGGCUAUUACAGCCAUAAACCCGACAAACACGAAUCGCGUGCAGAAACAAUUUAAAAAACAAU------C
.............-----....----...............((((((..((((((.....))))))....))))))..((((.....))))......................------. ( -17.50)
>DroEre_CAF1 42144 102 + 1
CGGG--------GCACAGAGCA----GAACAAUAACAACAAUGUUGUCCGUGGCUAUUACAGCCAUAAACCCGACAAACACGAAUCGCGUGCAGAAACAAUUUAAAAAACAAU------C
((((--------((.....)).----(.((((((.......)))))).)((((((.....))))))...)))).....((((.....))))......................------. ( -21.50)
>DroWil_CAF1 75804 101 + 1
------------------AACAGCAACAACAAUCAGAACAAU-UUGGUCAUGGCAAUUACAGCAAUAAAGCCGCCAAACACGAAUCGCGUGCAAAAACAAUUUAAAAAACAAUCAGAAUC
------------------.................((....(-(((((...(((...............)))))))))((((.....)))).....................))...... ( -11.16)
>DroYak_CAF1 36723 114 + 1
CGGUGUUCUACAGCACAGAACAAUAACAACAAUAACAACAAUGUUGGCCGUGGCUAUUACAGCCAUAAACCCGACAAACACGAAUCGCGUGCAGAAACAAUUUAAAAAACAAU------C
...((((((.......))))))...................((((((..((((((.....))))))....))))))..((((.....))))......................------. ( -22.10)
>DroAna_CAF1 47220 86 + 1
----------------------------GCAAUAACAACAAUGUUGGCCAUGGCUAUUACAGCCAUAAAGCCGACAAACACGAAUCGCGUGCAGAAACAAUUUAAAAAACAAU------C
----------------------------.............(((((((.((((((.....))))))...)))))))..((((.....))))......................------. ( -20.90)
>consensus
CGGU________G_____AACA____GAACAAUAACAACAAUGUUGGCCGUGGCUAUUACAGCCAUAAACCCGACAAACACGAAUCGCGUGCAGAAACAAUUUAAAAAACAAU______C
.........................................((((((..((((((.....))))))....))))))..((((.....))))............................. (-13.85 = -14.47 +   0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:25:53 2006