Locus 9158

Sequence ID 3R_DroMel_CAF1
Location 24,417,720 – 24,417,814
Length 94
Max. P 0.863020
window14652 window14653

overview

Window 2

Location 24,417,720 – 24,417,814
Length 94
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 77.43
Mean single sequence MFE -31.83
Consensus MFE -22.49
Energy contribution -23.55
Covariance contribution 1.06
Combinations/Pair 1.07
Mean z-score -1.47
Structure conservation index 0.71
SVM decision value 0.84
SVM RNA-class probability 0.863020
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24417720 94 + 27905053
---------------GCUGACGUGCCAAGUGCCAUCGAAAAUGGCAAGUCAUUGGCAUUUCAACUGGACAUGCGGCACCCUUGUUAGCCCGAGCUGUCUCUGACUC----UUU
---------------(((((((((((...((((((.....))))))........((((.((.....)).)))))))))....))))))..((((.......).)))----... ( -29.20)
>DroVir_CAF1 10581 98 + 1
---GUUGACGCUGACGCUGACGGGCCAAGUGCCAUUGAAAAUGGCAAGUCAUUGGCUUUUCAACUGGACAUGCGGCACCCUUGUUAGCC---GCUGUCUGAGCC---------
---......(((.....(((..((((((.((((((.....)))))).....))))))..)))...(((((.(((((..........)))---))))))).))).--------- ( -37.10)
>DroPse_CAF1 14757 91 + 1
---------------GCUGACGUGCCAAGUGCCAUUGAAAAUGGCAAGUCAUUGGCAUUUCAACUGGACAUGCGGCACCCUUGUUAGCCAGAG---UCUCUCUCUC----UCU
---------------(((((((((((..((((((((((((.((.(((....))).)))))))).))).)))..)))))....)))))).((((---.....)))).----... ( -32.30)
>DroGri_CAF1 9946 101 + 1
GAGGCUGACGCUGACGCUGACGCGCCAAGUGCCAUUGAAAAUGGCAAGUCAUUUACAUUUCAACUGGACAUGCGGCACCCUUGUUAGUC---GCUGUCGGAGCC---------
..((((((((((..(((....)))...)))(((((.....)))))..)))................((((.(((((..........)))---))))))..))))--------- ( -31.20)
>DroMoj_CAF1 10576 101 + 1
GACGCUGACUCUGACGCUGACGUGCCAAGUACCAUUGAAAAUGGCAAGUCAUUGGCAUUUCAACUGGACAUGCGGCACCCUUGUUAACC---GCUGUCGUAGCC---------
...((((..........(((.(((((((...((((.....)))).......))))))).)))....((((.((((............))---)))))).)))).--------- ( -27.20)
>DroAna_CAF1 14072 98 + 1
---------------GCUGACGUGCCAAGUGCUAUUGAAAAUGGCAAGUCAUUGGCAUUUCAACUGGACAUGCGGCACCCUUGAUAGCCCGAGCUGUCUCUGGUUCAGACCCA
---------------.((((.(((((..((((((((((((.((.(((....))).)))))))).))).)))..)))))((..((((((....))))))...)).))))..... ( -34.00)
>consensus
_______________GCUGACGUGCCAAGUGCCAUUGAAAAUGGCAAGUCAUUGGCAUUUCAACUGGACAUGCGGCACCCUUGUUAGCC___GCUGUCUCAGCC_________
...............(((((((((((..((((((((((((.((.(((....))).)))))))).))).)))..)))))....))))))......................... (-22.49 = -23.55 +   1.06)

alignment

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secondary structure

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dotplot

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Window 3

Location 24,417,720 – 24,417,814
Length 94
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 77.43
Mean single sequence MFE -31.30
Consensus MFE -22.25
Energy contribution -22.75
Covariance contribution 0.50
Combinations/Pair 1.18
Mean z-score -1.18
Structure conservation index 0.71
SVM decision value 0.39
SVM RNA-class probability 0.719099
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24417720 94 - 27905053
AAA----GAGUCAGAGACAGCUCGGGCUAACAAGGGUGCCGCAUGUCCAGUUGAAAUGCCAAUGACUUGCCAUUUUCGAUGGCACUUGGCACGUCAGC---------------
...----......(.((((...((((((......))).)))..))))).(((((..((((((.(...(((((((...))))))))))))))..)))))--------------- ( -29.40)
>DroVir_CAF1 10581 98 - 1
---------GGCUCAGACAGC---GGCUAACAAGGGUGCCGCAUGUCCAGUUGAAAAGCCAAUGACUUGCCAUUUUCAAUGGCACUUGGCCCGUCAGCGUCAGCGUCAAC---
---------(((.(.((((((---(((..........))))).))))..(((((...(((((.(...((((((.....))))))))))))...)))))....).)))...--- ( -35.90)
>DroPse_CAF1 14757 91 - 1
AGA----GAGAGAGAGA---CUCUGGCUAACAAGGGUGCCGCAUGUCCAGUUGAAAUGCCAAUGACUUGCCAUUUUCAAUGGCACUUGGCACGUCAGC---------------
...----......(.((---(..((((..........))))...)))).(((((..((((((.(...((((((.....)))))))))))))..)))))--------------- ( -26.90)
>DroGri_CAF1 9946 101 - 1
---------GGCUCCGACAGC---GACUAACAAGGGUGCCGCAUGUCCAGUUGAAAUGUAAAUGACUUGCCAUUUUCAAUGGCACUUGGCGCGUCAGCGUCAGCGUCAGCCUC
---------(((...((((((---((((......)))..))).))))...............((((.((((((.....)))))).(((((((....))))))).))))))).. ( -33.10)
>DroMoj_CAF1 10576 101 - 1
---------GGCUACGACAGC---GGUUAACAAGGGUGCCGCAUGUCCAGUUGAAAUGCCAAUGACUUGCCAUUUUCAAUGGUACUUGGCACGUCAGCGUCAGAGUCAGCGUC
---------((((..(((.((---(((..........))))).......(((((..((((((.(...((((((.....)))))))))))))..))))))))..))))...... ( -35.60)
>DroAna_CAF1 14072 98 - 1
UGGGUCUGAACCAGAGACAGCUCGGGCUAUCAAGGGUGCCGCAUGUCCAGUUGAAAUGCCAAUGACUUGCCAUUUUCAAUAGCACUUGGCACGUCAGC---------------
((((..((.(((...((.(((....))).))...)))....))..))))(((((..((((((((.((.............)))).))))))..)))))--------------- ( -26.92)
>consensus
_________GGCAGAGACAGC___GGCUAACAAGGGUGCCGCAUGUCCAGUUGAAAUGCCAAUGACUUGCCAUUUUCAAUGGCACUUGGCACGUCAGC_______________
...............((((((...(((..........))))).))))..(((((..((((((.(...(((((((...))))))))))))))..)))))............... (-22.25 = -22.75 +   0.50)

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 13:27:53 2006