Locus 6803

Sequence ID 2L_DroMel_CAF1
Location 19,019,735 – 19,019,869
Length 134
Max. P 0.990605
window10858 window10859 window10860

overview

Window 8

Location 19,019,735 – 19,019,829
Length 94
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 79.83
Mean single sequence MFE -27.18
Consensus MFE -23.22
Energy contribution -23.00
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -1.64
Structure conservation index 0.85
SVM decision value 1.14
SVM RNA-class probability 0.921907
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19019735 94 + 22407834
--------------------------AAUAGAUAACGAUAUAUUUAUUUAUGCCAAUAAAACAGGUGAAAUUACCCAUAGUGCGGCGUAUUGUACGUGCUCUUACACCGCACAGUGUGGC
--------------------------.((((((((........))))))))((((........((((....))))(((.((((((.(((..((....))...))).)))))).))))))) ( -26.00)
>DroSec_CAF1 23761 117 + 1
GAAAUACAAA---UCAUCGUAUCUUAAGUAGUUACCGAUAUAUUUAUUUAUGCCAACAAAACAGGUGAAGUUGCCCAUAGUGCGGCGUAUUGUACGUGCUCUUACACCGCACAGUGUGGC
..........---((((((((.((.....)).))).(.((((......)))).).........)))))....((((((.((((((.(((..((....))...))).)))))).))).))) ( -27.90)
>DroSim_CAF1 21368 120 + 1
GAAAUACAAAUAAUCAUCGUAUCUUAAGUAGUUAACAAUAUGUUUAUUUUAGCCAACAAAACAGGUGAAAUUGCCCAUAGUGCGGCGUAUUGUACGUGCUCUUACACCGCACAGUGUGGC
.............(((((............(((((.((((....)))))))))..........)))))....((((((.((((((.(((..((....))...))).)))))).))).))) ( -27.65)
>consensus
GAAAUACAAA___UCAUCGUAUCUUAAGUAGUUAACGAUAUAUUUAUUUAUGCCAACAAAACAGGUGAAAUUGCCCAUAGUGCGGCGUAUUGUACGUGCUCUUACACCGCACAGUGUGGC
...................................................((((........(((......)))(((.((((((.(((..((....))...))).)))))).))))))) (-23.22 = -23.00 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 9

Location 19,019,735 – 19,019,829
Length 94
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 79.83
Mean single sequence MFE -29.21
Consensus MFE -24.49
Energy contribution -24.72
Covariance contribution 0.23
Combinations/Pair 1.07
Mean z-score -2.18
Structure conservation index 0.84
SVM decision value 1.93
SVM RNA-class probability 0.982940
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19019735 94 - 22407834
GCCACACUGUGCGGUGUAAGAGCACGUACAAUACGCCGCACUAUGGGUAAUUUCACCUGUUUUAUUGGCAUAAAUAAAUAUAUCGUUAUCUAUU--------------------------
((((....((((((((((.............)))))))))).((((((......)))))).....)))).........................-------------------------- ( -25.02)
>DroSec_CAF1 23761 117 - 1
GCCACACUGUGCGGUGUAAGAGCACGUACAAUACGCCGCACUAUGGGCAACUUCACCUGUUUUGUUGGCAUAAAUAAAUAUAUCGGUAACUACUUAAGAUACGAUGA---UUUGUAUUUC
(((.((..((((((((((.............))))))))))..)))))......((((((((((((......)))))).)))..))).........((((((((...---.)))))))). ( -31.32)
>DroSim_CAF1 21368 120 - 1
GCCACACUGUGCGGUGUAAGAGCACGUACAAUACGCCGCACUAUGGGCAAUUUCACCUGUUUUGUUGGCUAAAAUAAACAUAUUGUUAACUACUUAAGAUACGAUGAUUAUUUGUAUUUC
(((.((..((((((((((.............))))))))))..)))))..........((...((((((...............)))))).))...((((((((.......)))))))). ( -31.28)
>consensus
GCCACACUGUGCGGUGUAAGAGCACGUACAAUACGCCGCACUAUGGGCAAUUUCACCUGUUUUGUUGGCAUAAAUAAAUAUAUCGUUAACUACUUAAGAUACGAUGA___UUUGUAUUUC
(((.((..((((((((((.............))))))))))..)))))............((((((......))))))..................((((((((.......)))))))). (-24.49 = -24.72 +   0.23)

alignment

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secondary structure

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dotplot

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Window 0

Location 19,019,749 – 19,019,869
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.67
Mean single sequence MFE -34.25
Consensus MFE -34.23
Energy contribution -33.79
Covariance contribution -0.44
Combinations/Pair 1.06
Mean z-score -2.80
Structure conservation index 1.00
SVM decision value 2.22
SVM RNA-class probability 0.990605
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19019749 120 - 22407834
CGGCUAAAGAGAGAAAAAUGACUAAAUCAAAAGGAAGUGCGCCACACUGUGCGGUGUAAGAGCACGUACAAUACGCCGCACUAUGGGUAAUUUCACCUGUUUUAUUGGCAUAAAUAAAUA
..(((((.((((.(....(((.....)))....(((((..(((.((..((((((((((.............))))))))))..))))).)))))...).)))).)))))........... ( -32.12)
>DroSec_CAF1 23798 120 - 1
CGGCUAAAGAGAGAAAAAUGACUAAAUCAAAAGGAAGUGCGCCACACUGUGCGGUGUAAGAGCACGUACAAUACGCCGCACUAUGGGCAACUUCACCUGUUUUGUUGGCAUAAAUAAAUA
..(((((.((((.(....(((.....)))....(((((..(((.((..((((((((((.............))))))))))..))))).)))))...).)))).)))))........... ( -36.02)
>DroSim_CAF1 21408 120 - 1
CGGCUAAAGAGAGAAAAAUGACUAAAUCAAAAGGAAGUGCGCCACACUGUGCGGUGUAAGAGCACGUACAAUACGCCGCACUAUGGGCAAUUUCACCUGUUUUGUUGGCUAAAAUAAACA
.((((((.((((.(....(((.....)))....(((((..(((.((..((((((((((.............))))))))))..))))).)))))...).)))).)))))).......... ( -34.62)
>consensus
CGGCUAAAGAGAGAAAAAUGACUAAAUCAAAAGGAAGUGCGCCACACUGUGCGGUGUAAGAGCACGUACAAUACGCCGCACUAUGGGCAAUUUCACCUGUUUUGUUGGCAUAAAUAAAUA
..(((((.((((.(....(((.....)))....(((((..(((.((..((((((((((.............))))))))))..))))).)))))...).)))).)))))........... (-34.23 = -33.79 +  -0.44)

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 12:20:19 2006