Locus 4700

Sequence ID 2L_DroMel_CAF1
Location 13,498,664 – 13,498,791
Length 127
Max. P 0.844508
window7438 window7439

overview

Window 8

Location 13,498,664 – 13,498,758
Length 94
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 78.95
Mean single sequence MFE -42.77
Consensus MFE -30.48
Energy contribution -30.73
Covariance contribution 0.25
Combinations/Pair 1.14
Mean z-score -1.52
Structure conservation index 0.71
SVM decision value 0.68
SVM RNA-class probability 0.821912
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13498664 94 - 22407834
GCUGGUGGAUGAGGCGGUGGCCACCGUCGAAGGCGCCGGCAGCGGCAGCAGACUAAUCGCUGUCGUGGUGGGCGGCAAUG---UGA---AGGCAGUUCCC
(((..((.((..((((((....))))))...(.((((.((.((((((((.((....)))))))))).)).)))).).)).---)).---.)))....... ( -40.70)
>DroSec_CAF1 97486 94 - 1
GCUGGUGGAUGAGGCGGUGGCCACCGUCGAAGGCGCCGGCAGCGGCAGCAAACUAAUCGUUGUCGUGGUGGGCGGCAAUG---UGA---AGGCAGUUCCC
(((..((.((..((((((....))))))...(.((((.((.((((((((.........)))))))).)).)))).).)).---)).---.)))....... ( -37.90)
>DroSim_CAF1 99022 94 - 1
GCUGGUGGAUGAGGCGGUGGCCACCGUCGAAGGCGCCGGCAGCGGCAGCAAACUAAUCGCUGUCGUGGUGGGCGGCAAUG---UGA---AGGCAGUUCCC
(((..((.((..((((((....))))))...(.((((.((.((((((((.........)))))))).)).)))).).)).---)).---.)))....... ( -40.30)
>DroEre_CAF1 101994 94 - 1
GCUGGUGGAUGAGGCGGUGGCCACCGUCGAAGGCGCCGGCAGCGGCAGCAAGCUAAUUGCUGUCGUGGUGGGCGGCAUUG---UGA---AGGCAGUGCCC
(((((((..(..((((((....))))))..)..))))))).((((((((((.....)))))))))).......(((((((---(..---..)))))))). ( -49.50)
>DroAna_CAF1 161805 87 - 1
----------GGGGCGGUGGCCAUUGUCGGCGGCGCCGGCAGCGGCAGCAAACUGAUCGUUGUGGUGGUGGGAGGCUGCG---UUCCUGCUGCCGUUCCC
----------(((((((..(((.((((((((...)))))))).)(((((...((.((((......)))).))..))))).---.....))..))))))). ( -42.20)
>DroPer_CAF1 118659 83 - 1
--------------CCGUGGCCAUUGUCGGCGGCGCCGGCAGCGGCAGCAGGCUGAUCGUUGUCGUGGUGGGCGGCAGGGCCGCGA---AUGCGGAUGCG
--------------.(((((((.((((((.(.((..((((((((((((....))).)))))))))..)).).))))))))))))).---..((....)). ( -46.00)
>consensus
GCUGGUGGAUGAGGCGGUGGCCACCGUCGAAGGCGCCGGCAGCGGCAGCAAACUAAUCGCUGUCGUGGUGGGCGGCAAUG___UGA___AGGCAGUUCCC
............((((((....))))))...(.((((.((.((((((((.........)))))))).)).)))).)........................ (-30.48 = -30.73 +   0.25)

alignment

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secondary structure

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dotplot

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Window 9

Location 13,498,689 – 13,498,791
Length 102
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 78.71
Mean single sequence MFE -43.67
Consensus MFE -29.34
Energy contribution -28.62
Covariance contribution -0.72
Combinations/Pair 1.24
Mean z-score -1.67
Structure conservation index 0.67
SVM decision value 0.76
SVM RNA-class probability 0.844508
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13498689 102 - 22407834
CAGCACCUGGCCGGGAAUACUGGCUAUCGUUGUGCUGGUGGAUGAGGCGGUGGCCACCGUCGAAGGCGCCGGCAGCGGCAGCAGACUAAUCGCUGUCGUGGU
((((...(((((((.....)))))))..))))((((((((..(..((((((....))))))..)..))))))))((((((((.((....))))))))))... ( -49.10)
>DroPse_CAF1 141217 84 - 1
CGGCACCUGGCCAGGAAUACUGGUCAUCG------------------CCGUGGCCAUUGUCGGCGGCGCCGGUAGCGGCAGCAGGCUGAUCGUUGUCGUGGU
((((...(((((((.....)))))))..(------------------(((((((....))).)))))))))...((((((((.........))))))))... ( -38.50)
>DroSec_CAF1 97511 102 - 1
CAGCACCUGGCCGGGAAUACAGGCUAUCGUUGUGCUGGUGGAUGAGGCGGUGGCCACCGUCGAAGGCGCCGGCAGCGGCAGCAAACUAAUCGUUGUCGUGGU
((((...(((((.(.....).)))))..))))((((((((..(..((((((....))))))..)..))))))))((((((((.........))))))))... ( -42.40)
>DroYak_CAF1 99633 102 - 1
CAGCACCUGGCCGGGAAUACUGGCUAUCGUUGUGCUGGUGGAUGAGGCGGUGGCCACCGUCGGAGGCGCCGGCAGCGGCAGCAAACUAAUUGCUGUCGUGGU
((((...(((((((.....)))))))..))))((((((((..(..((((((....))))))..)..))))))))((((((((((.....))))))))))... ( -50.90)
>DroAna_CAF1 161833 87 - 1
CAGGACCUGGCCGGGAAUGCUGGCCACA---------------GGGGCGGUGGCCAUUGUCGGCGGCGCCGGCAGCGGCAGCAAACUGAUCGUUGUGGUGGU
....(((.((((((.....))))))(((---------------(.((((((.(((.((((((((...)))))))).))).....)))).)).)))))))... ( -39.20)
>DroPer_CAF1 118687 84 - 1
CGGCACCUGGCCAGGAAUACUGGUCAUCG------------------CCGUGGCCAUUGUCGGCGGCGCCGGCAGCGGCAGCAGGCUGAUCGUUGUCGUGGU
.(((...(((((((.....)))))))..(------------------(((((((....))).))))))))(((((((((((....))).))))))))..... ( -41.90)
>consensus
CAGCACCUGGCCGGGAAUACUGGCCAUCG______________GAGGCGGUGGCCACCGUCGGAGGCGCCGGCAGCGGCAGCAAACUAAUCGUUGUCGUGGU
....(((..(((((.......((((((......................))))))..(((.....)))))))).((((((((.........))))))))))) (-29.34 = -28.62 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:04 2006