Locus 4150

Sequence ID 3R_DroMel_CAF1
Location 11,320,955 – 11,321,075
Length 120
Max. P 0.699331
window6647 window6648

overview

Window 7

Location 11,320,955 – 11,321,075
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.50
Mean single sequence MFE -47.98
Consensus MFE -33.93
Energy contribution -35.37
Covariance contribution 1.44
Combinations/Pair 1.17
Mean z-score -1.81
Structure conservation index 0.71
SVM decision value 0.35
SVM RNA-class probability 0.699331
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11320955 120 + 27905053
GAACUCUUCGCCACCUACGGCAACAUCGUGGAUGUGAACUUGCUGCGCCACAAGUUCAACAAUAGGUCCCGUGGCGUGGCCUUCUUGCAAUUUGAGUUGGUCCGCGACGCCGAGGUGGCC
.........(((((((.((((....((((((((..(((...((..((((((....((.......))....))))))..)).)))...((((....)))))))))))).))))))))))). ( -51.00)
>DroSec_CAF1 60178 120 + 1
GAGCUCUUUGCCCCCUUCGGCAACAUCUUGGAUGUGACCUUGCUGCGCCACAGGUUCAACAAUAAGUUCCGUGGCGUGGCCUUCUUGGAUUUCGAGCUGGUCCGCGACGCCGAGGAGGCC
.........(((.(((.((((.(((((...)))))((((..((..((((((.((..(........)..))))))))..))...((((.....))))..))))......))))))).))). ( -46.80)
>DroSim_CAF1 56418 120 + 1
GAGCUCUUUGCCCCCUACGGCAAACUCUUGGAUGUGACCUUGCUGCGCCACAGGUUCAACAAUAAGUUCCGUGGCGUGGCCUUCUUGGAUUUCGAGCUGGCCCGCGACGCCGAGGAGGCC
.........(((.(((.((((........((......))((((.(((((((.((..(........)..)))))))))((((..((((.....))))..)))).)))).))))))).))). ( -46.50)
>DroEre_CAF1 55391 120 + 1
GAGCUCUUCGCCGUCUACGGCAUCGUCUUGGAUGUGAACUUGCUGCGCCACAAGUUCAACCGAACUUCCCGCGGAGUGGCCUUCGUGCACUUCAAGCACUGGCGGGACGCCGAGAUGGCC
.........(((((((.((((...((.((((...((((((((........)))))))).)))))).((((((((((....))))((((.......))))..)))))).))))))))))). ( -52.10)
>DroYak_CAF1 56877 120 + 1
GAGCUCUUCGCCACCUACGGCAACGUCUUGGAUAUCAAUUUGCUGCGCCACAAGUUCAGCAAAAUGUCCCGUGGCGUGGCCUUCGUACAUUUCGAGCACUGCCGGGACGCCGAGAUGGCC
..((.....(((......)))..((((((((.......(((((((.((.....)).)))))))..(((((..((((..((..(((.......)))))..))))))))).)))))))))). ( -43.50)
>consensus
GAGCUCUUCGCCACCUACGGCAACAUCUUGGAUGUGAACUUGCUGCGCCACAAGUUCAACAAUAAGUCCCGUGGCGUGGCCUUCUUGCAUUUCGAGCUGGGCCGCGACGCCGAGGUGGCC
.........(((((((.((((....((((((..........((..((((((...................))))))..))...((((.....)))).....)))))).))))))))))). (-33.93 = -35.37 +   1.44)

alignment

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secondary structure

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dotplot

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Window 8

Location 11,320,955 – 11,321,075
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.50
Mean single sequence MFE -47.82
Consensus MFE -34.20
Energy contribution -34.28
Covariance contribution 0.08
Combinations/Pair 1.27
Mean z-score -1.78
Structure conservation index 0.72
SVM decision value 0.33
SVM RNA-class probability 0.691642
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11320955 120 - 27905053
GGCCACCUCGGCGUCGCGGACCAACUCAAAUUGCAAGAAGGCCACGCCACGGGACCUAUUGUUGAACUUGUGGCGCAGCAAGUUCACAUCCACGAUGUUGCCGUAGGUGGCGAAGAGUUC
.(((((((((((((((.(((............((((..(((((.((...)))).))).))))(((((((((......)))))))))..))).))))...)))).)))))))......... ( -48.20)
>DroSec_CAF1 60178 120 - 1
GGCCUCCUCGGCGUCGCGGACCAGCUCGAAAUCCAAGAAGGCCACGCCACGGAACUUAUUGUUGAACCUGUGGCGCAGCAAGGUCACAUCCAAGAUGUUGCCGAAGGGGGCAAAGAGCUC
.((((((((((((.....((((...((.........))..((..(((((((((((.....)))....))))))))..))..))))(((((...)))))))))).)))))))......... ( -46.10)
>DroSim_CAF1 56418 120 - 1
GGCCUCCUCGGCGUCGCGGGCCAGCUCGAAAUCCAAGAAGGCCACGCCACGGAACUUAUUGUUGAACCUGUGGCGCAGCAAGGUCACAUCCAAGAGUUUGCCGUAGGGGGCAAAGAGCUC
.(((((((((((((.(((((((..((.(.....).))..)))).))).)).((((((.((((((..((...))..))))))((......))..)))))))))).)))))))......... ( -49.20)
>DroEre_CAF1 55391 120 - 1
GGCCAUCUCGGCGUCCCGCCAGUGCUUGAAGUGCACGAAGGCCACUCCGCGGGAAGUUCGGUUGAACUUGUGGCGCAGCAAGUUCACAUCCAAGACGAUGCCGUAGACGGCGAAGAGCUC
.(((.((((((((((((((..((((.......))))...((.....)))))))).(((.((.(((((((((......)))))))))...))..)))..))))).))).)))......... ( -47.80)
>DroYak_CAF1 56877 120 - 1
GGCCAUCUCGGCGUCCCGGCAGUGCUCGAAAUGUACGAAGGCCACGCCACGGGACAUUUUGCUGAACUUGUGGCGCAGCAAAUUGAUAUCCAAGACGUUGCCGUAGGUGGCGAAGAGCUC
.(((((((((((((((((...((((.......))))...(((...))).))))))..(((((((..(.....)..))))))).................)))).)))))))......... ( -47.80)
>consensus
GGCCACCUCGGCGUCGCGGACCAGCUCGAAAUGCAAGAAGGCCACGCCACGGGACUUAUUGUUGAACUUGUGGCGCAGCAAGUUCACAUCCAAGACGUUGCCGUAGGGGGCGAAGAGCUC
.((((((((((((((..(((.....((.........))..((..(((((((((.............)))))))))..)).........)))..)))...)))).)))))))......... (-34.20 = -34.28 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:27 2006