Locus 6057

Sequence ID 2L_DroMel_CAF1
Location 17,046,624 – 17,046,817
Length 193
Max. P 0.928025
window9615 window9616 window9617 window9618

overview

Window 5

Location 17,046,624 – 17,046,737
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.20
Mean single sequence MFE -29.44
Consensus MFE -27.50
Energy contribution -27.70
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.31
Structure conservation index 0.93
SVM decision value 0.77
SVM RNA-class probability 0.845608
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17046624 113 - 22407834
ACGACACCA-------GCAACCCUGCUGCAACAGCAAAAACAUGUGGCAAGACUACACCAACAACCGGCAGUAAUUUGGACACCUUGUCUAUGUGUGUUUGCUUAGGCGGGCGAUAAAAA
.((...(((-------(((....))))((...((((((.((((((((((((......((((..((.....))...))))....)))).)))))))).))))))...)))).))....... ( -29.70)
>DroSec_CAF1 10726 113 - 1
ACGACACCA-------GCAACCCUGCUGCAACAGCAAAAACAUGUGGCAAGACUACACCAACUACCGGCAGUAAUUUGGACACCUUGUCUAUGUGUGUUUGCUUAGGCGGGCGAUAAAAA
.((...(((-------(((....))))((...((((((.((((((((((((......((((.(((.....)))..))))....)))).)))))))).))))))...)))).))....... ( -31.00)
>DroSim_CAF1 4382 113 - 1
ACGACACCA-------GCAACCCUGCUGCAACAGCAAAAACAUGUGGCAAGACUACACCAACAACCGGCAGUAAUUUGGACACCUUGUCUAUGUGUGUUUGCUUAGGCGGGCGAUAAAAA
.((...(((-------(((....))))((...((((((.((((((((((((......((((..((.....))...))))....)))).)))))))).))))))...)))).))....... ( -29.70)
>DroEre_CAF1 10449 120 - 1
ACGACACCAAGCAACGACAACCCUGCUGCAACAGCAAAAACAUGUGGCAAGACUACACCAACAACCGGCAGUAAUUUGGACACCUUGUCUAUGUGUGUUUGCUUAGGCGGGCGAUAAAAA
.((...((.((((..........))))((...((((((.((((((((((((......((((..((.....))...))))....)))).)))))))).))))))...)))).))....... ( -28.80)
>DroYak_CAF1 8351 113 - 1
ACGACACCA-------GCAACCCUGCUGCAACAGCAAAAACAUGUGGCAAGAAUACACCAACAACCGGCAGUAAUUUGGACACCUUGUCUAUGUGUGUUUGCUUAGGCUGGCGAUAAAAA
....(.(((-------((.....(((((...))))).........((((((.(((((((.......))........(((((.....)))))))))).))))))...))))).)....... ( -28.00)
>consensus
ACGACACCA_______GCAACCCUGCUGCAACAGCAAAAACAUGUGGCAAGACUACACCAACAACCGGCAGUAAUUUGGACACCUUGUCUAUGUGUGUUUGCUUAGGCGGGCGAUAAAAA
....................(((((((.....((((((.((((((((((((......((((..((.....))...))))....)))).)))))))).))))))..)))))).)....... (-27.50 = -27.70 +   0.20)

alignment

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secondary structure

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dotplot

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Window 6

Location 17,046,664 – 17,046,777
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.51
Mean single sequence MFE -27.06
Consensus MFE -23.11
Energy contribution -23.55
Covariance contribution 0.44
Combinations/Pair 1.04
Mean z-score -1.58
Structure conservation index 0.85
SVM decision value 0.82
SVM RNA-class probability 0.858004
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17046664 113 - 22407834
GUUGCUUUCGCCAACAAGGUGGCAACACUGACACCAAGCAACGACACCA-------GCAACCCUGCUGCAACAGCAAAAACAUGUGGCAAGACUACACCAACAACCGGCAGUAAUUUGGA
(((((((..........((((....))))......)))))))....(((-------(.....(((((((....)).......(((((.....))))).........)))))....)))). ( -27.49)
>DroSec_CAF1 10766 113 - 1
GUUGCUUUCGCCAACAAGGUGGCAACACUGACACCAAGCAACGACACCA-------GCAACCCUGCUGCAACAGCAAAAACAUGUGGCAAGACUACACCAACUACCGGCAGUAAUUUGGA
(((((((..........((((....))))......)))))))....(((-------(.....(((((((....)).......(((((.....))))).........)))))....)))). ( -27.49)
>DroSim_CAF1 4422 113 - 1
GUUGCUUUCGCCAACAAGGUGGCAACACUGACACCAAGCCACGACACCA-------GCAACCCUGCUGCAACAGCAAAAACAUGUGGCAAGACUACACCAACAACCGGCAGUAAUUUGGA
(((((...((((.....))))))))).......((((((((((.....(-------(((....))))((....)).......)))))).....(((.((.......))..)))..)))). ( -29.00)
>DroEre_CAF1 10489 120 - 1
GUUGCUUUCGCCAACAAGGUGGCAACACUGACACCAAGCAACGACACCAAGCAACGACAACCCUGCUGCAACAGCAAAAACAUGUGGCAAGACUACACCAACAACCGGCAGUAAUUUGGA
(((((((..........((((....))))......)))))))....(((((..((..(.....(((((...)))))......(((((.....)))))..........)..))..))))). ( -26.99)
>DroYak_CAF1 8391 113 - 1
GCUGCUUUCGCCAACAAGGUGGCAACACUGACACUAAGCAACGACACCA-------GCAACCCUGCUGCAACAGCAAAAACAUGUGGCAAGAAUACACCAACAACCGGCAGUAAUUUGGA
((((((...((((.((.((((....))))........((........((-------(((....))))).....)).......))))))..(.......).......))))))........ ( -24.32)
>consensus
GUUGCUUUCGCCAACAAGGUGGCAACACUGACACCAAGCAACGACACCA_______GCAACCCUGCUGCAACAGCAAAAACAUGUGGCAAGACUACACCAACAACCGGCAGUAAUUUGGA
(((((((..........((((....))))......)))))))....(((.......((..((.(((((...)))))......(((((.....))))).........))..))....))). (-23.11 = -23.55 +   0.44)

alignment

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secondary structure

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Window 7

Location 17,046,704 – 17,046,817
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.28
Mean single sequence MFE -34.98
Consensus MFE -31.18
Energy contribution -31.06
Covariance contribution -0.12
Combinations/Pair 1.07
Mean z-score -1.54
Structure conservation index 0.89
SVM decision value 1.19
SVM RNA-class probability 0.928025
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17046704 113 + 22407834
UUUUUGCUGUUGCAGCAGGGUUGC-------UGGUGUCGUUGCUUGGUGUCAGUGUUGCCACCUUGUUGGCGAAAGCAACUGCAAAAACAAGAAAAGCUAGAAAAGUCUCUAUAACCGAA
(((((((.(((.((((((((((((-------(((..(((.....)))..)))))).....)))))))))((....))))).)))))))..........((((......))))........ ( -33.90)
>DroSec_CAF1 10806 113 + 1
UUUUUGCUGUUGCAGCAGGGUUGC-------UGGUGUCGUUGCUUGGUGUCAGUGUUGCCACCUUGUUGGCGAAAGCAACUGCAAAAACAAGAAAAGCUAGAAAAGUCUUCAUAACCGAA
(((((((.(((.((((((((((((-------(((..(((.....)))..)))))).....)))))))))((....))))).)))))))...(((..(((.....))).)))......... ( -33.70)
>DroSim_CAF1 4462 113 + 1
UUUUUGCUGUUGCAGCAGGGUUGC-------UGGUGUCGUGGCUUGGUGUCAGUGUUGCCACCUUGUUGGCGAAAGCAACUGCAAAAACAAGAAAAGCUAGAAAAGUCUUCAUAACCGAA
(((((((.(((.((((((((((((-------(((..(((.....)))..)))))).....)))))))))((....))))).)))))))...(((..(((.....))).)))......... ( -33.70)
>DroEre_CAF1 10529 120 + 1
UUUUUGCUGUUGCAGCAGGGUUGUCGUUGCUUGGUGUCGUUGCUUGGUGUCAGUGUUGCCACCUUGUUGGCGAAAGCAACUGCAAAAACAAGAAAAACCAGACUAGCAUCUAUAACCGAA
...((((((...))))))((((((.(.((((.(((.(.(((.((((.((.((((.((((((......)))))).....))))))....))))...))).).))))))).).))))))... ( -38.30)
>DroYak_CAF1 8431 113 + 1
UUUUUGCUGUUGCAGCAGGGUUGC-------UGGUGUCGUUGCUUAGUGUCAGUGUUGCCACCUUGUUGGCGAAAGCAGCUGCAAAAACAGGAAAAACAAGAGUAGUUUCUGUAACCGAA
.((((((.(((.(((((((((...-------.((((.((((((.....).))))).)))))))))))))((....))))).))))))(((((((..((....))..)))))))....... ( -35.30)
>consensus
UUUUUGCUGUUGCAGCAGGGUUGC_______UGGUGUCGUUGCUUGGUGUCAGUGUUGCCACCUUGUUGGCGAAAGCAACUGCAAAAACAAGAAAAGCUAGAAAAGUCUCUAUAACCGAA
(((((((.(((.(((((((((.((.......(((..(((.....)))..))).....)).)))))))))((....))))).)))))))................................ (-31.18 = -31.06 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 8

Location 17,046,704 – 17,046,817
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.28
Mean single sequence MFE -27.22
Consensus MFE -22.82
Energy contribution -22.50
Covariance contribution -0.32
Combinations/Pair 1.19
Mean z-score -1.28
Structure conservation index 0.84
SVM decision value 0.02
SVM RNA-class probability 0.542794
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17046704 113 - 22407834
UUCGGUUAUAGAGACUUUUCUAGCUUUUCUUGUUUUUGCAGUUGCUUUCGCCAACAAGGUGGCAACACUGACACCAAGCAACGACACCA-------GCAACCCUGCUGCAACAGCAAAAA
...((((.(((((....)))))(((.....((((.((((.(((((...((((.....)))))))))..((....)).)))).))))..)-------)))))).(((((...))))).... ( -28.20)
>DroSec_CAF1 10806 113 - 1
UUCGGUUAUGAAGACUUUUCUAGCUUUUCUUGUUUUUGCAGUUGCUUUCGCCAACAAGGUGGCAACACUGACACCAAGCAACGACACCA-------GCAACCCUGCUGCAACAGCAAAAA
...(((((.((((...))))))))).......(((((((.(((((((..........((((....))))......))))))).....((-------(((....))))).....))))))) ( -27.69)
>DroSim_CAF1 4462 113 - 1
UUCGGUUAUGAAGACUUUUCUAGCUUUUCUUGUUUUUGCAGUUGCUUUCGCCAACAAGGUGGCAACACUGACACCAAGCCACGACACCA-------GCAACCCUGCUGCAACAGCAAAAA
...(((((.((((...))))))))).......(((((((.(((((.............(((((..............)))))......(-------(((....))))))))).))))))) ( -25.64)
>DroEre_CAF1 10529 120 - 1
UUCGGUUAUAGAUGCUAGUCUGGUUUUUCUUGUUUUUGCAGUUGCUUUCGCCAACAAGGUGGCAACACUGACACCAAGCAACGACACCAAGCAACGACAACCCUGCUGCAACAGCAAAAA
..........(.(((.(((..((((.((.((((((.((..(((((((..........((((....))))......)))))))..))..)))))).)).))))..)))))).)........ ( -29.49)
>DroYak_CAF1 8431 113 - 1
UUCGGUUACAGAAACUACUCUUGUUUUUCCUGUUUUUGCAGCUGCUUUCGCCAACAAGGUGGCAACACUGACACUAAGCAACGACACCA-------GCAACCCUGCUGCAACAGCAAAAA
...((....((((((.......))))))))((((.((((((((((((..........((((....))))......)))))..(....).-------........))))))).)))).... ( -25.09)
>consensus
UUCGGUUAUAGAGACUUUUCUAGCUUUUCUUGUUUUUGCAGUUGCUUUCGCCAACAAGGUGGCAACACUGACACCAAGCAACGACACCA_______GCAACCCUGCUGCAACAGCAAAAA
...((((.(((((((................)))))))..(((((((..........((((....))))......)))))))................)))).(((((...))))).... (-22.82 = -22.50 +  -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 11:59:56 2006