Locus 5749

Sequence ID X_DroMel_CAF1
Location 14,894,853 – 14,894,984
Length 131
Max. P 0.955819
window9325 window9326 window9327

overview

Window 5

Location 14,894,853 – 14,894,944
Length 91
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 76.10
Mean single sequence MFE -37.78
Consensus MFE -19.76
Energy contribution -19.65
Covariance contribution -0.11
Combinations/Pair 1.35
Mean z-score -1.79
Structure conservation index 0.52
SVM decision value 0.33
SVM RNA-class probability 0.692520
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14894853 91 - 22224390
CAAAAGUCGAAAGGACAAAUCGGCCGCAGCAAUGGCAGCGGCAGCUGCUGCCGCUGUUCUGGAAGGGAAUGCGG------GUGCCGG---GGGACUGGUG
.....(((.....))).......(((((......((((((((((...))))))))))(((.....))).)))))------..(((((---....))))). ( -38.10)
>DroEre_CAF1 39724 91 - 1
CAAAAGUCGGAAGGAUAAAUCGGCAGCAGCAAUGGCAGCGGCAGCUGCUGCAGCGGUUCUGGAGGGGAAUGCGG------GGGCCGG---GGGACUGGUG
......((....))........((((((((....((....)).)))))))).(((.((((....)))).)))..------..(((((---....))))). ( -33.20)
>DroYak_CAF1 40004 91 - 1
CAAAAGUCGGAAGGACAAGUCGGCGGCCGCAAUGGCCGCGGCAGCUGCUGCAGCGGUUCUGGAGGGGAAUGCGG------GAGCUGG---UGGACUGGUG
......((....))((.((((.((((((.....))))))..(((((.(((((....((((....)))).)))))------.))))).---..)))).)). ( -38.40)
>DroMoj_CAF1 51400 100 - 1
CAAGAGCCGCAAGGAGAAAUCGGCAGCAGCGAUGGCAGCCGCCGCUGCAGCUGCUGUGCUGGAAGGAAAUGCAGCUGGCGGUGCGGGAGCAGGCAUUGUA
.....((.((...((....)).)).)).((((((.(.((((((((((((..(.((........)).)..)))))).))))))((....)).).)))))). ( -42.70)
>DroAna_CAF1 54633 91 - 1
GAAGAGUCGGAAGGAGAAGUCCGCUGCUGCGAUGGCGGCUGCCGCCGCUGCUGCGGUUCUGGAGGGGAAUGCCG------GAGCCGG---AGGUCUAGUG
......((....))(((..(((((.((.(((.((((....)))).))).)).))((((((((.........)))------)))))))---)..))).... ( -37.80)
>DroPer_CAF1 68339 85 - 1
CAAAAGUCGCAAGGAGAAGUCGGCGGCAGCGAUGGCGGCUGCUGCUGCCGCCGCCGUGCUGGAUGGGAAUCCC------------GG---UAGCAUUGUG
.......(((((......(.((((((((((...(((....))))))))))))).).(((((..((((...)))------------).---)))))))))) ( -36.50)
>consensus
CAAAAGUCGGAAGGAGAAAUCGGCAGCAGCAAUGGCAGCGGCAGCUGCUGCAGCGGUUCUGGAGGGGAAUGCGG______GAGCCGG___AGGACUGGUG
......((....)).....((.(..(((((..(((((((....)))))))..)))))..).))..................................... (-19.76 = -19.65 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 6

Location 14,894,870 – 14,894,984
Length 114
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 76.01
Mean single sequence MFE -39.38
Consensus MFE -19.94
Energy contribution -20.42
Covariance contribution 0.47
Combinations/Pair 1.39
Mean z-score -1.74
Structure conservation index 0.51
SVM decision value 0.06
SVM RNA-class probability 0.562408
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14894870 114 + 22224390
CCGCAUUCCCUUCCAGAACAGCGGCAGCAGCUGCCGCUGCCAUUGCUGCGGCCGAUUUGUCCUUUCGACUUUUGCGUUUCGUUAACACCUUGCGAUCGUGUUGCAUUUUUCUGU
.............((((((((((((((...))))))))).......(((((((((((.(((.....)))....(((..............)))))))).))))))...))))). ( -34.04)
>DroPse_CAF1 50271 113 + 1
-GGGAUUCCCAUCCAGCACGGCGGCGGCAGCAGCGGCCGCCAUCGCUGCCGCCGACUUCUCCUUGCGGCUUUUGCGCUUGGUGAGGGUCCUCCUUUCAUUGUGGGCUCGCCUGC
-(((((((.((((.(((..((((((.((....)).))))))...((.(((((.((....))...)))))....))))).)))).))))))).........(..((....))..) ( -50.60)
>DroGri_CAF1 49377 111 + 1
---CGUUGCCAUCCAGCACAGCGGCUGCAGCAACGGCUGCCAAUGCCGCUGCCGAUUUCUCCUUGCGGCUCUUUCGCUUCGUGAGCGCCUUCCGCUCAUUUUGCAACUUUCUGC
---.(((((.....(((..((((((.(((((....)))))....))))))((((...........))))......)))..(((((((.....)))))))...)))))....... ( -42.20)
>DroSec_CAF1 40866 114 + 1
CCGCAUUCCCUUCCAGAACCGCUGCAGCAGCUGCCGCUGCCAUUGCUGCGGCCGAUUUGUCCUUACGACUUUUGCGUUUCGUUAGCACCUUGCGAUCGUGUUGCAUUUUUCUGU
.............((((((.((((((((((..((....))..)))))))))).)....(((.....)))...((((...((...((.....))...))...))))...))))). ( -31.00)
>DroMoj_CAF1 51426 114 + 1
CUGCAUUUCCUUCCAGCACAGCAGCUGCAGCGGCGGCUGCCAUCGCUGCUGCCGAUUUCUCCUUGCGGCUCUUGCGCUUCGUGAGAGCCUUGCGCUCAUUUUGCAACUUUCUGC
.((((.........(((.(((((((.(((((....)))))....))))))).............((((((((..((...))..))))))..))))).....))))......... ( -41.34)
>DroAna_CAF1 54650 114 + 1
CGGCAUUCCCCUCCAGAACCGCAGCAGCGGCGGCAGCCGCCAUCGCAGCAGCGGACUUCUCCUUCCGACUCUUCCGCUUUGUGAGGGCUUUCCGUUCAUUGUGAAGUUUUCUGG
.((......)).((((((((......(((((....)))))..((((((.((((((....((.....))....))))))))))))))((((..((.....))..)))).)))))) ( -37.10)
>consensus
CCGCAUUCCCUUCCAGAACAGCGGCAGCAGCAGCGGCUGCCAUCGCUGCGGCCGAUUUCUCCUUGCGACUCUUGCGCUUCGUGAGCGCCUUCCGAUCAUUUUGCAAUUUUCUGC
.............(((..(((((((.(((((....)))))....)))))))..........(((((((..(....)..))))))).........................))). (-19.94 = -20.42 +   0.47)

alignment

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secondary structure

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dotplot

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Window 7

Location 14,894,870 – 14,894,984
Length 114
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 76.01
Mean single sequence MFE -43.03
Consensus MFE -24.00
Energy contribution -23.50
Covariance contribution -0.50
Combinations/Pair 1.35
Mean z-score -2.19
Structure conservation index 0.56
SVM decision value 1.46
SVM RNA-class probability 0.955819
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14894870 114 - 22224390
ACAGAAAAAUGCAACACGAUCGCAAGGUGUUAACGAAACGCAAAAGUCGAAAGGACAAAUCGGCCGCAGCAAUGGCAGCGGCAGCUGCUGCCGCUGUUCUGGAAGGGAAUGCGG
............(((((...(....)))))).......((((...(((.....)))...((..(((.((((.(((((((((...))))))))).)))).)))..))...)))). ( -35.10)
>DroPse_CAF1 50271 113 - 1
GCAGGCGAGCCCACAAUGAAAGGAGGACCCUCACCAAGCGCAAAAGCCGCAAGGAGAAGUCGGCGGCAGCGAUGGCGGCCGCUGCUGCCGCCGCCGUGCUGGAUGGGAAUCCC-
...((.((.((((.........(((....))).(((.((((.....((....))....(.(((((((((((.(((...))).))))))))))).)))))))).))))..))))- ( -51.00)
>DroGri_CAF1 49377 111 - 1
GCAGAAAGUUGCAAAAUGAGCGGAAGGCGCUCACGAAGCGAAAGAGCCGCAAGGAGAAAUCGGCAGCGGCAUUGGCAGCCGUUGCUGCAGCCGCUGUGCUGGAUGGCAACG---
.......(((((....((((((.....))))))...(((((.....((....)).....)).((((((((....(((((....))))).))))))))))).....))))).--- ( -48.20)
>DroSec_CAF1 40866 114 - 1
ACAGAAAAAUGCAACACGAUCGCAAGGUGCUAACGAAACGCAAAAGUCGUAAGGACAAAUCGGCCGCAGCAAUGGCAGCGGCAGCUGCUGCAGCGGUUCUGGAAGGGAAUGCGG
.((((...........(((((....)((.((.((((..........)))).)).))..))))(((((.(((...(((((....)))))))).)))))))))............. ( -34.30)
>DroMoj_CAF1 51426 114 - 1
GCAGAAAGUUGCAAAAUGAGCGCAAGGCUCUCACGAAGCGCAAGAGCCGCAAGGAGAAAUCGGCAGCAGCGAUGGCAGCCGCCGCUGCAGCUGCUGUGCUGGAAGGAAAUGCAG
((((....)))).........(((.((((((..((...))..))))))((...((....)).((((((((....(((((....))))).))))))))))..........))).. ( -43.60)
>DroAna_CAF1 54650 114 - 1
CCAGAAAACUUCACAAUGAACGGAAAGCCCUCACAAAGCGGAAGAGUCGGAAGGAGAAGUCCGCUGCUGCGAUGGCGGCUGCCGCCGCUGCUGCGGUUCUGGAGGGGAAUGCCG
....................(((....((((..((.((((((....((....)).....))))))((((((..((((((....))))))..))))))..))..))))....))) ( -46.00)
>consensus
GCAGAAAAAUGCAAAAUGAACGCAAGGCGCUCACGAAGCGCAAAAGCCGCAAGGAGAAAUCGGCAGCAGCAAUGGCAGCCGCAGCUGCUGCCGCUGUGCUGGAAGGGAAUGCCG
.(((..................................((......((....))......))(((((.((...((((((....)))))))).))))).)))............. (-24.00 = -23.50 +  -0.50)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:26 2006