Locus 3620

Sequence ID 2R_DroMel_CAF1
Location 12,009,172 – 12,009,273
Length 101
Max. P 0.749509
window5894 window5895

overview

Window 4

Location 12,009,172 – 12,009,273
Length 101
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 84.62
Mean single sequence MFE -28.05
Consensus MFE -20.16
Energy contribution -21.63
Covariance contribution 1.48
Combinations/Pair 1.13
Mean z-score -2.20
Structure conservation index 0.72
SVM decision value 0.08
SVM RNA-class probability 0.574719
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12009172 101 + 20766785
AUGCCCACCAAUUGGCAGCAGCCGCAGAAGAAGGAAUCAUCAGCAAUUGGCUAAUUGAAGCGAAUUGCAAGGAUGAGGAAUAUUCCUGCAGCAACCGA-AAC
.((((........))))...((.((((..(((....(((((.((((((.(((......))).))))))...)))))......))))))).))......-... ( -31.30)
>DroSec_CAF1 10490 101 + 1
AUGCCCACCAAUUGGCAGCAGGCGCCGAAGAAGGA-CCAUCAGCAAUUGGCUAAUUGAAGCGAAUUGCAAGGAUGAGAAAUAUUCCUGCAGCAACCGACAAC
.((((........))))(((((..((......)).-.((((.((((((.(((......))).))))))...)))).........)))))............. ( -30.10)
>DroSim_CAF1 10515 101 + 1
AUGCCCACCAAUUGGCAGCAGCCGCAGAAGAAGGA-CCAUCAGCAAUUGGCUAAUUGAAGCGAAUUGCAAGGAUGAGGAAUAUUCCUGCAGCAACCGACAAC
.((((........))))...((.((((..(((...-(((((.((((((.(((......))).))))))...)))).).....))))))).)).......... ( -29.30)
>DroEre_CAF1 8233 100 + 1
AUGCCCACGAAUUGGCAGCAGCCGCAGAAGAAGGA-CCAUCAGCAAUUGGCUAAUUGAAGCGAAUUGCAAGGAUGAGGAAUAUUCCUGCAGCAAACCG-AAC
.((((........))))...((.((((..(((...-(((((.((((((.(((......))).))))))...)))).).....))))))).))......-... ( -29.30)
>DroYak_CAF1 10313 100 + 1
AUGCCCACCAAUUGGCAGCAGCCGUAGAAGAAGGA-CCAUCAGCAAUUGGCUAAUUGAGGCCAAUUGCAAGGAUGAGGAAUAUUCCUGCAGCAAGCCA-AAC
...........(((((.((.((.............-.((((.((((((((((......))))))))))...))))((((....)))))).))..))))-).. ( -32.70)
>DroAna_CAF1 6433 87 + 1
AUGCCGAACAAUUGGCAGGAGCAGUACAAGAAGUAUCCAACAGCAAUUGGCUAAUUGAAGCGAAU-ACGAGGUCUUUGUAUAU--------------ACAAA
.((((((....))))))......((((((((.((((.(..(((...)))(((......)))).))-))....)).))))))..--------------..... ( -15.60)
>consensus
AUGCCCACCAAUUGGCAGCAGCCGCAGAAGAAGGA_CCAUCAGCAAUUGGCUAAUUGAAGCGAAUUGCAAGGAUGAGGAAUAUUCCUGCAGCAACCGA_AAC
.((((........))))...((.((((..........((((.((((((.(((......))).))))))...))))..........)))).)).......... (-20.16 = -21.63 +   1.48)

alignment

Postscript

secondary structure

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dotplot

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Window 5

Location 12,009,172 – 12,009,273
Length 101
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 84.62
Mean single sequence MFE -30.96
Consensus MFE -23.35
Energy contribution -25.36
Covariance contribution 2.00
Combinations/Pair 1.15
Mean z-score -2.50
Structure conservation index 0.75
SVM decision value 0.47
SVM RNA-class probability 0.749509
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12009172 101 - 20766785
GUU-UCGGUUGCUGCAGGAAUAUUCCUCAUCCUUGCAAUUCGCUUCAAUUAGCCAAUUGCUGAUGAUUCCUUCUUCUGCGGCUGCUGCCAAUUGGUGGGCAU
...-..(((.(((((((((.......(((((...((((((.(((......))).)))))).))))).......))))))))).)))(((........))).. ( -35.44)
>DroSec_CAF1 10490 101 - 1
GUUGUCGGUUGCUGCAGGAAUAUUUCUCAUCCUUGCAAUUCGCUUCAAUUAGCCAAUUGCUGAUGG-UCCUUCUUCGGCGCCUGCUGCCAAUUGGUGGGCAU
.(..((((((((.(((((.........((((...((((((.(((......))).)))))).))))(-((.......))).))))).).)))))))..).... ( -31.50)
>DroSim_CAF1 10515 101 - 1
GUUGUCGGUUGCUGCAGGAAUAUUCCUCAUCCUUGCAAUUCGCUUCAAUUAGCCAAUUGCUGAUGG-UCCUUCUUCUGCGGCUGCUGCCAAUUGGUGGGCAU
..(((((((.(((((((((.......(((((...((((((.(((......))).)))))).)))))-......))))))))).)))(((....))).)))). ( -35.82)
>DroEre_CAF1 8233 100 - 1
GUU-CGGUUUGCUGCAGGAAUAUUCCUCAUCCUUGCAAUUCGCUUCAAUUAGCCAAUUGCUGAUGG-UCCUUCUUCUGCGGCUGCUGCCAAUUCGUGGGCAU
...-.(((..(((((((((.......(((((...((((((.(((......))).)))))).)))))-......))))))))).)))(((........))).. ( -33.22)
>DroYak_CAF1 10313 100 - 1
GUU-UGGCUUGCUGCAGGAAUAUUCCUCAUCCUUGCAAUUGGCCUCAAUUAGCCAAUUGCUGAUGG-UCCUUCUUCUACGGCUGCUGCCAAUUGGUGGGCAU
...-..(((..(((.((((.......(((((...(((((((((........))))))))).)))))-)))).)......(((....)))....))..))).. ( -34.11)
>DroAna_CAF1 6433 87 - 1
UUUGU--------------AUAUACAAAGACCUCGU-AUUCGCUUCAAUUAGCCAAUUGCUGUUGGAUACUUCUUGUACUGCUCCUGCCAAUUGUUCGGCAU
...((--------------(..(((((.((....((-((((((..(((((....)))))..).))))))).))))))).)))...((((........)))). ( -15.70)
>consensus
GUU_UCGGUUGCUGCAGGAAUAUUCCUCAUCCUUGCAAUUCGCUUCAAUUAGCCAAUUGCUGAUGG_UCCUUCUUCUGCGGCUGCUGCCAAUUGGUGGGCAU
..........(((((((((.......(((((...((((((.(((......))).)))))).))))).......)))))))))...((((........)))). (-23.35 = -25.36 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:05 2006