Locus 601

Sequence ID 3L_DroMel_CAF1
Location 1,745,228 – 1,745,428
Length 200
Max. P 0.759441
window918 window919 window920

overview

Window 8

Location 1,745,228 – 1,745,348
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 85.22
Mean single sequence MFE -34.31
Consensus MFE -23.69
Energy contribution -23.37
Covariance contribution -0.33
Combinations/Pair 1.30
Mean z-score -2.74
Structure conservation index 0.69
SVM decision value 0.06
SVM RNA-class probability 0.566043
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1745228 120 - 23771897
ACAUUGAUCCCAUGUACCAGUUCUCACUCAACUGGUACAUUAAUCUCUACAUGUACUCCAUUGAGACGGCCAACAAGUCCAAGGAUCUGCCGCGGCGCAUCAAGUUCCUGGUGGAUGGCU
.....(((...(((((((((((.......)))))))))))..))).......((.(((....)))))(((((.....((....))((..(((.((.((.....)).)))))..))))))) ( -34.40)
>DroVir_CAF1 2436 120 - 1
AUAUUGAUCCCAUGUACCAGUUCUCCCUCAACUGGUACAUCAACCUGUAUAUGUACUCCAUUGAAACGGCCAACAAAUCGAAGGAUCUGCCACGACGCAUCAAGUUUCUGGUCGAUGGAU
((((.......(((((((((((.......)))))))))))......))))......((((((((.........((.(((....))).))(((.((.((.....)).))))))))))))). ( -30.72)
>DroGri_CAF1 2740 120 - 1
ACAUCGAUCCGAUGUACCAGUUCUCGCUGAAUUGGUACAUCAAUCUGUACAUGUACUCCAUUGAGACGGCCAACAAGUCCAAGGAUUUGCCACGUCGCAUCAAAUUCCUCGUCGAUGGCU
.(((((((..(((((((((((((.....))))))))))))).....(((....)))....((((..((((...((((((....))))))....))))..)))).......)))))))... ( -43.30)
>DroWil_CAF1 2427 120 - 1
AUAUAGAUCCCAUGUAUCAGUUCUCUCUGAAUUGGUAUAUUAAUCUAUAUAUGUAUUCCAUUGAGACGGCCAACAAAUCAAAAGAUUUACCCAGACGCAUUAAAUUUCUGGUGGAUGGUU
((((((((...((((((((((((.....))))))))))))..)))))))).......(((((............(((((....))))).((((((...........))))).)))))).. ( -29.40)
>DroMoj_CAF1 2433 120 - 1
ACAUCGAUCCGAUGUAUCAGUUUUCACUCAACUGGUAUAUCAAUCUCUACAUGUACUCCAUUGAGACGGCAAACAAGUCGAAGGAGCUGCCGCGACGCAUUAAGUUCCUGGUCGAUGGCU
.((((((((.((((((((((((.......))))))))))))..((((...(((.....))).))))((((......)))).(((((((...((...))....)))))))))))))))... ( -40.20)
>DroAna_CAF1 2446 120 - 1
ACAUAGACCCCAUGUAUCAGUUCUCUCUUAACUGGUACAUAAAUCUCUACAUGUACUCCAUUGAAACGGCCAACAAGUCCAAGGACCUUCCACGACGUAUCAAGUUCCUGGUCGAUGGCU
.(((.((((..(((((((((((.......)))))))))))....................((((.(((........(((....))).........))).))))......)))).)))... ( -27.83)
>consensus
ACAUAGAUCCCAUGUACCAGUUCUCACUCAACUGGUACAUCAAUCUCUACAUGUACUCCAUUGAGACGGCCAACAAGUCCAAGGAUCUGCCACGACGCAUCAAGUUCCUGGUCGAUGGCU
.((((((((..(((((((((((.......)))))))))))....................((((..((.....((.(((....))).))......))..))))......))))))))... (-23.69 = -23.37 +  -0.33) 

alignment

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secondary structure

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dotplot

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Window 9

Location 1,745,268 – 1,745,388
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 83.94
Mean single sequence MFE -24.13
Consensus MFE -15.02
Energy contribution -13.88
Covariance contribution -1.14
Combinations/Pair 1.26
Mean z-score -3.32
Structure conservation index 0.62
SVM decision value 0.50
SVM RNA-class probability 0.759441
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1745268 120 - 23771897
CACUCAUCCAUUCUCUAUUACUCGAUCACGGAUCUUCCCAACAUUGAUCCCAUGUACCAGUUCUCACUCAACUGGUACAUUAAUCUCUACAUGUACUCCAUUGAGACGGCCAACAAGUCC
....................((((((...(((((...........))))).(((((((((((.......)))))))))))...................))))))..(((......))). ( -25.20)
>DroVir_CAF1 2476 120 - 1
CACUCCUCUAUACUGUAUUAUUCCAUAACCGAUUUGCCCAAUAUUGAUCCCAUGUACCAGUUCUCCCUCAACUGGUACAUCAACCUGUAUAUGUACUCCAUUGAAACGGCCAACAAAUCG
.............................(((((((.((.............((((((((((.......))))))))))((((...(((....)))....))))...))....))))))) ( -22.30)
>DroGri_CAF1 2780 120 - 1
CAUUCCUCCAUUCUCUACUAUUCCAUCACCGACCUACCAAACAUCGAUCCGAUGUACCAGUUCUCGCUGAAUUGGUACAUCAAUCUGUACAUGUACUCCAUUGAGACGGCCAACAAGUCC
..............................(((............(((..(((((((((((((.....))))))))))))).)))(((...(((.(((....))))))....))).))). ( -26.60)
>DroWil_CAF1 2467 120 - 1
CACUCGUCCAUAUUAUAUUAUUCGAUUACCGAUCUACCCAAUAUAGAUCCCAUGUAUCAGUUCUCUCUGAAUUGGUAUAUUAAUCUAUAUAUGUAUUCCAUUGAGACGGCCAACAAAUCA
...(((((((...(((((...(((.....)))........((((((((...((((((((((((.....))))))))))))..)))))))))))))......)).)))))........... ( -26.00)
>DroMoj_CAF1 2473 120 - 1
CACUCUUCCAUUUUGUACUACUCGAUCACGGACUUGCCCAACAUCGAUCCGAUGUAUCAGUUUUCACUCAACUGGUAUAUCAAUCUCUACAUGUACUCCAUUGAGACGGCAAACAAGUCG
..(((.........((((...(((((...((......))...)))))...((((((((((((.......))))))))))))...........))))......))).((((......)))) ( -27.16)
>DroAna_CAF1 2486 120 - 1
CAUUCCUCCAUUCUAUACUACUCCAUCACGGAUCUGCCCAACAUAGACCCCAUGUAUCAGUUCUCUCUUAACUGGUACAUAAAUCUCUACAUGUACUCCAUUGAAACGGCCAACAAGUCC
.....................(((.....)))...(((..(((((((....(((((((((((.......))))))))))).....))))..))).(......)....))).......... ( -17.50)
>consensus
CACUCCUCCAUUCUAUACUACUCCAUCACCGAUCUGCCCAACAUAGAUCCCAUGUACCAGUUCUCACUCAACUGGUACAUCAAUCUCUACAUGUACUCCAUUGAGACGGCCAACAAGUCC
..............................(((..................(((((((((((.......)))))))))))...........(((...((........))...))).))). (-15.02 = -13.88 +  -1.14) 

alignment

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secondary structure

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dotplot

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Window 0

Location 1,745,308 – 1,745,428
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.06
Mean single sequence MFE -27.11
Consensus MFE -12.56
Energy contribution -12.32
Covariance contribution -0.25
Combinations/Pair 1.29
Mean z-score -2.52
Structure conservation index 0.46
SVM decision value 0.37
SVM RNA-class probability 0.707180
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1745308 120 - 23771897
GAUAGAGGCCUUCCGGCUGAACUACAAGCCCGUGGCAGUCCACUCAUCCAUUCUCUAUUACUCGAUCACGGAUCUUCCCAACAUUGAUCCCAUGUACCAGUUCUCACUCAACUGGUACAU
((((((((......((((........)))).((((....))))........))))))))..........(((((...........))))).(((((((((((.......))))))))))) ( -36.50)
>DroVir_CAF1 2516 120 - 1
AAUUGAGGCAUUCCGCCUUAACUACAAGCCCGUCGCAGUGCACUCCUCUAUACUGUAUUAUUCCAUAACCGAUUUGCCCAAUAUUGAUCCCAUGUACCAGUUCUCCCUCAACUGGUACAU
..(((((((.....)))))))......((..(((((((((..........)))))).((((...))))..)))..))..............(((((((((((.......))))))))))) ( -26.60)
>DroGri_CAF1 2820 120 - 1
AAUCGAAGCAUUUCGUCUCAAUUACAAACCGGUUGCCAUUCAUUCCUCCAUUCUCUACUAUUCCAUCACCGACCUACCAAACAUCGAUCCGAUGUACCAGUUCUCGCUGAAUUGGUACAU
.(((((.((.....))..............(((((..................................))))).........)))))...((((((((((((.....)))))))))))) ( -20.98)
>DroWil_CAF1 2507 120 - 1
AAUAGAUGCUUUCCGUUUGAACUAUAAGCCAGUGGCCGUGCACUCGUCCAUAUUAUAUUAUUCGAUUACCGAUCUACCCAAUAUAGAUCCCAUGUAUCAGUUCUCUCUGAAUUGGUAUAU
.............((..(((..(((((....((((.((......)).)))).))))))))..))......((((((.......))))))..((((((((((((.....)))))))))))) ( -24.10)
>DroMoj_CAF1 2513 120 - 1
GAUCGAGGCAUUCCGUCUGAAUUACAAGCCCGUUGCGGUCCACUCUUCCAUUUUGUACUACUCGAUCACGGACUUGCCCAACAUCGAUCCGAUGUAUCAGUUUUCACUCAACUGGUAUAU
((((((((((.(((((.(((..(((((((.....))((.........))...)))))....)))...)))))..)))).....))))))..(((((((((((.......))))))))))) ( -31.00)
>DroAna_CAF1 2526 120 - 1
GAUCGAGACCUUCCGUCUUAACUACAAGCCCGUGGCUGUGCAUUCCUCCAUUCUAUACUACUCCAUCACGGAUCUGCCCAACAUAGACCCCAUGUAUCAGUUCUCUCUUAACUGGUACAU
(((((((((.....)))))...((((.(((...)))))))..............................)))).................(((((((((((.......))))))))))) ( -23.50)
>consensus
AAUCGAGGCAUUCCGUCUGAACUACAAGCCCGUGGCAGUGCACUCCUCCAUUCUAUACUACUCCAUCACCGAUCUGCCCAACAUAGAUCCCAUGUACCAGUUCUCACUCAACUGGUACAU
.....((((.....)))).........((.....)).......................................................(((((((((((.......))))))))))) (-12.56 = -12.32 +  -0.25) 

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 09:46:22 2006