Locus 586

Sequence ID 2L_DroMel_CAF1
Location 1,786,635 – 1,786,855
Length 220
Max. P 0.982243
window963 window964 window965 window966

overview

Window 3

Location 1,786,635 – 1,786,741
Length 106
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 99.37
Mean single sequence MFE -28.27
Consensus MFE -28.10
Energy contribution -28.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.66
Structure conservation index 0.99
SVM decision value 0.48
SVM RNA-class probability 0.754238
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1786635 106 + 22407834
AUUAGUUCGCCGAAAUGCGCCAUCGCAUGCUCAUGAGGCAGACUCGUAAAUUCCAUCGAUAAUUUCCGCUAUCAUUCUGUUUUUGUCUGGCGGAAUAUUUAUUGGU
((.(((..(((...(((.((........)).)))..)))..))).)).......((((((((.((((((((.((.........))..))))))))...)))))))) ( -28.10)
>DroSec_CAF1 43546 106 + 1
AUUAGUUCGCCGAAAUGCGCCAUCGCGUGCUCAUGAGGCAGACUCGUAAAUUCCAUCGAUAAUUUCCGCUAUCAUUCUGUUUUUGUCUGGCGGAAUAUUUAUUGGU
((.(((..(((.....((((......))))......)))..))).)).......((((((((.((((((((.((.........))..))))))))...)))))))) ( -28.60)
>DroYak_CAF1 54775 106 + 1
AUUAGUUCGCCGAAAUGCGCCAUCGCAUGCUCAUGAGGCAGACUCGUAAAUUCCAUCGAUAAUUUCCGCUAUCAUUCUGUUUUUGUCUGGCGGAAUAUUUAUUGGU
((.(((..(((...(((.((........)).)))..)))..))).)).......((((((((.((((((((.((.........))..))))))))...)))))))) ( -28.10)
>consensus
AUUAGUUCGCCGAAAUGCGCCAUCGCAUGCUCAUGAGGCAGACUCGUAAAUUCCAUCGAUAAUUUCCGCUAUCAUUCUGUUUUUGUCUGGCGGAAUAUUUAUUGGU
((.(((..(((...(((.((........)).)))..)))..))).)).......((((((((.((((((((.((.........))..))))))))...)))))))) (-28.10 = -28.10 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 4

Location 1,786,675 – 1,786,781
Length 106
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 98.11
Mean single sequence MFE -29.73
Consensus MFE -28.90
Energy contribution -29.23
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.87
Structure conservation index 0.97
SVM decision value 1.91
SVM RNA-class probability 0.982243
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1786675 106 + 22407834
GACUCGUAAAUUCCAUCGAUAAUUUCCGCUAUCAUUCUGUUUUUGUCUGGCGGAAUAUUUAUUGGUGCAGCCAUUAUUUUAUGGCAAUAUAAAAGUCACUCGGGGU
((((..((.....(((((((((.((((((((.((.........))..))))))))...)))))))))..(((((......)))))....))..))))......... ( -30.60)
>DroSec_CAF1 43586 105 + 1
GACUCGUAAAUUCCAUCGAUAAUUUCCGCUAUCAUUCUGUUUUUGUCUGGCGGAAUAUUUAUUGGUACAGCCAU-AUUUUAUGGCAAUAUAAAAGUCACUCGGGGU
((((..((......((((((((.((((((((.((.........))..))))))))...))))))))...(((((-(...))))))....))..))))......... ( -28.00)
>DroYak_CAF1 54815 106 + 1
GACUCGUAAAUUCCAUCGAUAAUUUCCGCUAUCAUUCUGUUUUUGUCUGGCGGAAUAUUUAUUGGUGCAGCCAUUAUUUUAUGGCAAUAUAAAAGUCAGUCGGGGU
((((..((.....(((((((((.((((((((.((.........))..))))))))...)))))))))..(((((......)))))....))..))))......... ( -30.60)
>consensus
GACUCGUAAAUUCCAUCGAUAAUUUCCGCUAUCAUUCUGUUUUUGUCUGGCGGAAUAUUUAUUGGUGCAGCCAUUAUUUUAUGGCAAUAUAAAAGUCACUCGGGGU
((((..((.....(((((((((.((((((((.((.........))..))))))))...)))))))))..(((((......)))))....))..))))......... (-28.90 = -29.23 +   0.33)

alignment

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secondary structure

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dotplot

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Window 5

Location 1,786,741 – 1,786,855
Length 114
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 90.40
Mean single sequence MFE -30.03
Consensus MFE -25.68
Energy contribution -25.47
Covariance contribution -0.22
Combinations/Pair 1.12
Mean z-score -2.36
Structure conservation index 0.86
SVM decision value 0.76
SVM RNA-class probability 0.844403
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1786741 114 + 22407834
GCAGCCAUUAUUUUAUGGCAAUAUAAAAGUCACUCGGGGUAGGGAGCGU------GUGUUUUAUUGGGCACCUACGUUAAAUUAUACGUAAUAGCUUUCCAAUUAUCCAAAUGACUUAGU
...(((((......))))).......((((((....((((((..((((.------((((((....)))))))(((((........)))))...)))..)....)))))...))))))... ( -32.50)
>DroSec_CAF1 43652 113 + 1
ACAGCCAU-AUUUUAUGGCAAUAUAAAAGUCACUCGGGGUAGGGAGCGU------GUGUUUUAUUGGGCACCUACGUUAAAUUAUAUGUAAUAGCUUUCCAAUUAUCCAAAUGACUUAGU
...(((((-(...)))))).......((((((....((((((..((((.------((((((....)))))))(((((........)))))...)))..)....)))))...))))))... ( -30.40)
>DroYak_CAF1 54881 120 + 1
GCAGCCAUUAUUUUAUGGCAAUAUAAAAGUCAGUCGGGGUAGGCAACAUAUACUCGUAUUUUAUUGGGCCCCUACAUUAAAUUACAUGUAAUAGCUUUCCAAUUAUCCAAAUGACUUAGU
...(((((......))))).......((((((....((((((....)...(((..(((.((((.((........)).)))).)))..))).............)))))...))))))... ( -27.20)
>consensus
GCAGCCAUUAUUUUAUGGCAAUAUAAAAGUCACUCGGGGUAGGGAGCGU______GUGUUUUAUUGGGCACCUACGUUAAAUUAUAUGUAAUAGCUUUCCAAUUAUCCAAAUGACUUAGU
...(((((......))))).......((((((....((((((((((((........)))))).((((((...(((((........)))))...))...))))))))))...))))))... (-25.68 = -25.47 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 6

Location 1,786,741 – 1,786,855
Length 114
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 90.40
Mean single sequence MFE -27.35
Consensus MFE -24.65
Energy contribution -25.10
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -2.36
Structure conservation index 0.90
SVM decision value 1.16
SVM RNA-class probability 0.923659
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1786741 114 - 22407834
ACUAAGUCAUUUGGAUAAUUGGAAAGCUAUUACGUAUAAUUUAACGUAGGUGCCCAAUAAAACAC------ACGCUCCCUACCCCGAGUGACUUUUAUAUUGCCAUAAAAUAAUGGCUGC
...(((((((((((......((..(((..((((((........))))))(((..........)))------..))).))....))))))))))).......(((((......)))))... ( -28.30)
>DroSec_CAF1 43652 113 - 1
ACUAAGUCAUUUGGAUAAUUGGAAAGCUAUUACAUAUAAUUUAACGUAGGUGCCCAAUAAAACAC------ACGCUCCCUACCCCGAGUGACUUUUAUAUUGCCAUAAAAU-AUGGCUGU
...(((((((((((.....(((....)))................(((((.((............------..))..))))).))))))))))).......((((((...)-)))))... ( -25.34)
>DroYak_CAF1 54881 120 - 1
ACUAAGUCAUUUGGAUAAUUGGAAAGCUAUUACAUGUAAUUUAAUGUAGGGGCCCAAUAAAAUACGAGUAUAUGUUGCCUACCCCGACUGACUUUUAUAUUGCCAUAAAAUAAUGGCUGC
...((((((.((((...(((((...(((.((((((........)))))).)))))))).........(((.....))).....)))).)))))).......(((((......)))))... ( -28.40)
>consensus
ACUAAGUCAUUUGGAUAAUUGGAAAGCUAUUACAUAUAAUUUAACGUAGGUGCCCAAUAAAACAC______ACGCUCCCUACCCCGAGUGACUUUUAUAUUGCCAUAAAAUAAUGGCUGC
...(((((((((((...(((((...((..((((((........))))))..)))))))...............(....)....))))))))))).......(((((......)))))... (-24.65 = -25.10 +   0.45)

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 09:40:21 2006