Locus 5762

Sequence ID 2L_DroMel_CAF1
Location 16,385,367 – 16,385,469
Length 102
Max. P 0.946022
window9127 window9128

overview

Window 7

Location 16,385,367 – 16,385,469
Length 102
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.95
Mean single sequence MFE -18.28
Consensus MFE -13.72
Energy contribution -14.13
Covariance contribution 0.42
Combinations/Pair 1.11
Mean z-score -1.46
Structure conservation index 0.75
SVM decision value 0.37
SVM RNA-class probability 0.706681
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16385367 102 + 22407834
UCUCC-----ACAAUUCGCCCAGCUUCUUUUUACACACUAAACGCCCCUUUUUAUCCGACGAUUUUCCUCAGCUUUUUUGCUGUGGU-------------UCAGCCAAAAAGGGUCUUUU
.....-----.................................(.((((((((....(..((....((.((((......)))).)).-------------))..).)))))))).).... ( -16.50)
>DroSec_CAF1 8900 102 + 1
UCUCC-----UCAACUCGCCCAGCUUCUUUUUACACACUAAACGCCCCUUUUUAUCCGACGAUUUUCCUCAGCUUUUUUGCUGUGGU-------------UCAGCCAAAAAGGGUCUUUU
.....-----.................................(.((((((((....(..((....((.((((......)))).)).-------------))..).)))))))).).... ( -16.50)
>DroSim_CAF1 7014 102 + 1
UCUGC-----UCAAUUCUCCCAGCUUCUUUUUACACACUAAACGCCCCUUUUUAUCCGACGAUUUUCCUCAGCUUUUUUGCUGUGGU-------------UCAGCCAAAAAGGGUCUUUU
...((-----(..........)))...................(.((((((((....(..((....((.((((......)))).)).-------------))..).)))))))).).... ( -16.80)
>DroEre_CAF1 7056 104 + 1
UCUCUUCUCC--AUUUCGCCCAGCUUCUUUUUACACACUAAACGCCCCUUUUUAUCCAAGGAUUUUCCUCAGCUU-UUUGCUGUGGC-------------UCAGCCAAAAAGGGUCUUUU
..........--...............................(.((((((((.....(((.....)))((((..-...)))).(((-------------...))))))))))).).... ( -18.10)
>DroYak_CAF1 10242 107 + 1
UCUCCUCUCCUCAACUCGCUCAGCUUCUUUUUACACACUAAACGCCCCUUUUCAUCCAACGAUUUUCCUCAGCUUUUUUGCUGUGCU-------------UCAGCCAAAAAGGGUCUUUU
...........................................(.(((((((.................((((......)))).((.-------------...))..))))))).).... ( -13.00)
>DroAna_CAF1 6443 101 + 1
-------------------GCAGCUUCUUUUUCGACACUAAACGCCCCUUUUUGUGCGAUGAUUUUCCUCAGCUUUUUCGAUGUGGUGGGUGGGUGGUGCUUCGGCGAAAAGGGUCCUUG
-------------------..((..((((((((...((((..(((((((..(((.((((.(.....).)).)).....)))...)).)))))..))))((....))))))))))..)).. ( -28.80)
>consensus
UCUCC_____UCAAUUCGCCCAGCUUCUUUUUACACACUAAACGCCCCUUUUUAUCCGACGAUUUUCCUCAGCUUUUUUGCUGUGGU_____________UCAGCCAAAAAGGGUCUUUU
...........................................(.(((((((((((....)))...((.((((......)))).))....................)))))))).).... (-13.72 = -14.13 +   0.42)

alignment

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secondary structure

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dotplot

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Window 8

Location 16,385,367 – 16,385,469
Length 102
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.95
Mean single sequence MFE -25.45
Consensus MFE -20.21
Energy contribution -21.52
Covariance contribution 1.31
Combinations/Pair 1.15
Mean z-score -2.67
Structure conservation index 0.79
SVM decision value 1.36
SVM RNA-class probability 0.946022
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16385367 102 - 22407834
AAAAGACCCUUUUUGGCUGA-------------ACCACAGCAAAAAAGCUGAGGAAAAUCGUCGGAUAAAAAGGGGCGUUUAGUGUGUAAAAAGAAGCUGGGCGAAUUGU-----GGAGA
......(((((((((.((((-------------.((.((((......)))).)).......)))).))))))))).((((((((............))))))))......-----..... ( -28.50)
>DroSec_CAF1 8900 102 - 1
AAAAGACCCUUUUUGGCUGA-------------ACCACAGCAAAAAAGCUGAGGAAAAUCGUCGGAUAAAAAGGGGCGUUUAGUGUGUAAAAAGAAGCUGGGCGAGUUGA-----GGAGA
......(((((((((.((((-------------.((.((((......)))).)).......)))).))))))))).((((((((............))))))))......-----..... ( -28.50)
>DroSim_CAF1 7014 102 - 1
AAAAGACCCUUUUUGGCUGA-------------ACCACAGCAAAAAAGCUGAGGAAAAUCGUCGGAUAAAAAGGGGCGUUUAGUGUGUAAAAAGAAGCUGGGAGAAUUGA-----GCAGA
......(((((((((.((((-------------.((.((((......)))).)).......)))).)))))))))..(((((((.....................)))))-----))... ( -25.10)
>DroEre_CAF1 7056 104 - 1
AAAAGACCCUUUUUGGCUGA-------------GCCACAGCAAA-AAGCUGAGGAAAAUCCUUGGAUAAAAAGGGGCGUUUAGUGUGUAAAAAGAAGCUGGGCGAAAU--GGAGAAGAGA
......(((((((((((((.-------------....))))...-...(..(((.....)))..).))))))))).((((((((............))))))))....--.......... ( -29.50)
>DroYak_CAF1 10242 107 - 1
AAAAGACCCUUUUUGGCUGA-------------AGCACAGCAAAAAAGCUGAGGAAAAUCGUUGGAUGAAAAGGGGCGUUUAGUGUGUAAAAAGAAGCUGAGCGAGUUGAGGAGAGGAGA
......(((((((..(((..-------------.((.((((......))))......(((....)))........))(((((((............))))))).)))..))))).))... ( -26.20)
>DroAna_CAF1 6443 101 - 1
CAAGGACCCUUUUCGCCGAAGCACCACCCACCCACCACAUCGAAAAAGCUGAGGAAAAUCAUCGCACAAAAAGGGGCGUUUAGUGUCGAAAAAGAAGCUGC-------------------
......(((((((.((....))............((.((.(......).)).))..............))))))).....((((.((......)).)))).------------------- ( -14.90)
>consensus
AAAAGACCCUUUUUGGCUGA_____________ACCACAGCAAAAAAGCUGAGGAAAAUCGUCGGAUAAAAAGGGGCGUUUAGUGUGUAAAAAGAAGCUGGGCGAAUUGA_____GGAGA
......(((((((((.((((..............((.((((......)))).)).......)))).))))))))).((((((((............))))))))................ (-20.21 = -21.52 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:06 2006