Locus 8853

Sequence ID 3R_DroMel_CAF1
Location 23,746,482 – 23,746,642
Length 160
Max. P 0.798432
window14212 window14213 window14214

overview

Window 2

Location 23,746,482 – 23,746,602
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.33
Mean single sequence MFE -43.42
Consensus MFE -37.44
Energy contribution -37.68
Covariance contribution 0.24
Combinations/Pair 1.08
Mean z-score -1.51
Structure conservation index 0.86
SVM decision value 0.61
SVM RNA-class probability 0.798432
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23746482 120 + 27905053
AUCCUCCUGCUUGGCCUUCAUCUCGUCGAGGGUGACCAGACCAAUGGUCGAGGACUUGAGCUGCUGCUCCACGGCAUCGUAGUGGGUGGCAAACUUGUUCUCAAUCUUGUCCAGCUUGAG
.(((((.......((((((........))))))(((((......))))))))))((..(((((..((.((((.........))))))(((((..(((....)))..))))))))))..)) ( -43.30)
>DroSec_CAF1 196203 120 + 1
AUCCUCCUGCUUGGCCUUCAUCUCGUCGAGGGUGACCAGACCAAUGGUCGAGGACUUGAGCUGCUGCUCCACGGCAUCGUAAUGGGUGGCAAACUUGUUCUCAAUCUUGUCCAGCUUGAG
.(((((.......((((((........))))))(((((......))))))))))((..(((((..((((.(((....)))...))))(((((..(((....)))..))))))))))..)) ( -40.80)
>DroSim_CAF1 196182 120 + 1
AUCCUCCUGCUUGGCCUUCAUCUCGUCGAGGGUGACCAGACCAAUGGUCGAGGACUUGAGCUGCUGCUCCACGGCAUCGUAGUGGGUGGCAAACUUGUUCUCAAUCUUGUCCAGCUUGAG
.(((((.......((((((........))))))(((((......))))))))))((..(((((..((.((((.........))))))(((((..(((....)))..))))))))))..)) ( -43.30)
>DroEre_CAF1 206076 120 + 1
AUCCUGCUGCUUGGCCUUCAUCUCGUCCAGGGUGACCAGGCCAAUGGUCGAGGACUUAAGCUGCUGCUCCACGGCAUCGUAGUGGGUGGCAAACUUGUUCUCGAUCUUUUCCAGCUUCAG
.....((((.(((((((((((((......))))))..))))))).((((((((((......(((..(.((((.........)))))..))).....)))))))))).....))))..... ( -48.80)
>DroYak_CAF1 203429 120 + 1
GUCCUCCUGCUUGGCCUUCAUCUCGUCCAGGGUGACCAGACCAAUGGUCGAGGACUUGAGCUGCUGCUCCACGGCAUCGUAGUGGGUGGCGAACUUGUUCUCAAUCUUGUCCAGCUUCAG
((((((((((...(((........((((.((....)).((((...))))..))))..((((....))))...)))...)))).))).)))(((.(((..(........)..))).))).. ( -40.90)
>consensus
AUCCUCCUGCUUGGCCUUCAUCUCGUCGAGGGUGACCAGACCAAUGGUCGAGGACUUGAGCUGCUGCUCCACGGCAUCGUAGUGGGUGGCAAACUUGUUCUCAAUCUUGUCCAGCUUGAG
...(((..(((.(((((((........))))))(((((......)))))((((((..(((.(((..(.((((.((...)).)))))..)))..)))))))))........).)))..))) (-37.44 = -37.68 +   0.24)

alignment

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secondary structure

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dotplot

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Window 3

Location 23,746,522 – 23,746,642
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.33
Mean single sequence MFE -36.50
Consensus MFE -32.52
Energy contribution -32.56
Covariance contribution 0.04
Combinations/Pair 1.09
Mean z-score -1.26
Structure conservation index 0.89
SVM decision value 0.19
SVM RNA-class probability 0.628552
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23746522 120 + 27905053
CCAAUGGUCGAGGACUUGAGCUGCUGCUCCACGGCAUCGUAGUGGGUGGCAAACUUGUUCUCAAUCUUGUCCAGCUUGAGCUCCUCCUCGAUCUUCUUCUUGCGAAACUCGAUCUCCUGC
.....(((((((((((..(((((..((.((((.........))))))(((((..(((....)))..))))))))))..))....))))))))).........((.....))......... ( -36.20)
>DroSec_CAF1 196243 120 + 1
CCAAUGGUCGAGGACUUGAGCUGCUGCUCCACGGCAUCGUAAUGGGUGGCAAACUUGUUCUCAAUCUUGUCCAGCUUGAGCUCCUCCUCGAUCUUCUUCUUGCGAAACUCGAUCUCCUGC
.....(((((((((((..(((((..((((.(((....)))...))))(((((..(((....)))..))))))))))..))....))))))))).........((.....))......... ( -33.70)
>DroSim_CAF1 196222 120 + 1
CCAAUGGUCGAGGACUUGAGCUGCUGCUCCACGGCAUCGUAGUGGGUGGCAAACUUGUUCUCAAUCUUGUCCAGCUUGAGCUCCUCCUCGAUCUUCUUCUUGCGGAACUCGAUCUCCUGC
.....(((((((((((..(((((..((.((((.........))))))(((((..(((....)))..))))))))))..))....)))))))))........(((((........))).)) ( -38.60)
>DroEre_CAF1 206116 120 + 1
CCAAUGGUCGAGGACUUAAGCUGCUGCUCCACGGCAUCGUAGUGGGUGGCAAACUUGUUCUCGAUCUUUUCCAGCUUCAGCUCCUCCCCGAUCUUCUUCUUGCGGAAUUCGAUCUCCUGC
.....((((((((((......(((..(.((((.........)))))..))).....))))))))))......(((....))).......((((...(((.....)))...))))...... ( -33.80)
>DroYak_CAF1 203469 120 + 1
CCAAUGGUCGAGGACUUGAGCUGCUGCUCCACGGCAUCGUAGUGGGUGGCGAACUUGUUCUCAAUCUUGUCCAGCUUCAGCUCCUCCUCGAUCUUCUUUUUGCGGAACUCGAUCUCCUGC
.....(((((((((...((((((..(((((((.........))))(.(((((..(((....)))..)))))))))..)))))).)))))))))........(((((........))).)) ( -40.20)
>consensus
CCAAUGGUCGAGGACUUGAGCUGCUGCUCCACGGCAUCGUAGUGGGUGGCAAACUUGUUCUCAAUCUUGUCCAGCUUGAGCUCCUCCUCGAUCUUCUUCUUGCGGAACUCGAUCUCCUGC
.....(((((((((((((((((((..(.((((.((...)).)))))..))....(((....)))........)))))))).)))))...((..(((.......)))..))))))...... (-32.52 = -32.56 +   0.04)

alignment

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secondary structure

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dotplot

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Window 4

Location 23,746,522 – 23,746,642
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.33
Mean single sequence MFE -38.40
Consensus MFE -33.04
Energy contribution -32.72
Covariance contribution -0.32
Combinations/Pair 1.12
Mean z-score -1.34
Structure conservation index 0.86
SVM decision value 0.09
SVM RNA-class probability 0.578107
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23746522 120 - 27905053
GCAGGAGAUCGAGUUUCGCAAGAAGAAGAUCGAGGAGGAGCUCAAGCUGGACAAGAUUGAGAACAAGUUUGCCACCCACUACGAUGCCGUGGAGCAGCAGCUCAAGUCCUCGACCAUUGG
...((.((((...((((....))))..))))(((((.(((((...(((((.((((.(((....))).)))))).....(((((....))))))))...)))))...)))))..))..... ( -41.60)
>DroSec_CAF1 196243 120 - 1
GCAGGAGAUCGAGUUUCGCAAGAAGAAGAUCGAGGAGGAGCUCAAGCUGGACAAGAUUGAGAACAAGUUUGCCACCCAUUACGAUGCCGUGGAGCAGCAGCUCAAGUCCUCGACCAUUGG
...((.((((...((((....))))..))))(((((.(((((...((((..((((.(((....))).))))((((.(((....)))..))))..)))))))))...)))))..))..... ( -39.20)
>DroSim_CAF1 196222 120 - 1
GCAGGAGAUCGAGUUCCGCAAGAAGAAGAUCGAGGAGGAGCUCAAGCUGGACAAGAUUGAGAACAAGUUUGCCACCCACUACGAUGCCGUGGAGCAGCAGCUCAAGUCCUCGACCAUUGG
((.((((......))))))........(.(((((((.(((((...(((((.((((.(((....))).)))))).....(((((....))))))))...)))))...))))))).)..... ( -37.40)
>DroEre_CAF1 206116 120 - 1
GCAGGAGAUCGAAUUCCGCAAGAAGAAGAUCGGGGAGGAGCUGAAGCUGGAAAAGAUCGAGAACAAGUUUGCCACCCACUACGAUGCCGUGGAGCAGCAGCUUAAGUCCUCGACCAUUGG
...((.((((...((.(....)))...))))(((((.((((((..(((((...((((.........)))).)).....(((((....))))))))..))))))...)))))..))..... ( -35.10)
>DroYak_CAF1 203469 120 - 1
GCAGGAGAUCGAGUUCCGCAAAAAGAAGAUCGAGGAGGAGCUGAAGCUGGACAAGAUUGAGAACAAGUUCGCCACCCACUACGAUGCCGUGGAGCAGCAGCUCAAGUCCUCGACCAUUGG
((.((((......))))))........(.(((((((.((((((..(((((......(((....))).....)).....(((((....))))))))..))))))...))))))).)..... ( -38.70)
>consensus
GCAGGAGAUCGAGUUCCGCAAGAAGAAGAUCGAGGAGGAGCUCAAGCUGGACAAGAUUGAGAACAAGUUUGCCACCCACUACGAUGCCGUGGAGCAGCAGCUCAAGUCCUCGACCAUUGG
((.((((......))))))........(.(((((((.(((((...(((((...(((((.......))))).)).....(((((....))))))))...)))))...))))))).)..... (-33.04 = -32.72 +  -0.32)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:21:19 2006