Locus 503

Sequence ID X_DroMel_CAF1
Location 1,437,046 – 1,437,147
Length 101
Max. P 0.973443
window780 window781

overview

Window 0

Location 1,437,046 – 1,437,147
Length 101
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 72.84
Mean single sequence MFE -44.06
Consensus MFE -23.02
Energy contribution -26.19
Covariance contribution 3.17
Combinations/Pair 1.13
Mean z-score -2.14
Structure conservation index 0.52
SVM decision value 1.71
SVM RNA-class probability 0.973443
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1437046 101 + 22224390
CGCGGAGUGGGCGGA-----------AAAUGGGCGGGGGACUAGUGCUUGGCUUUGUGC-UGGGCCUACAAUACAGUGACUGCCACCCACCUUCC-------CCCGCCCACAGCCCCUUG
....(((.((((...-----------...(((((((((((...(((..((((...((((-((...........)))).)).))))..)))..)))-------))))))))..))))))). ( -48.80)
>DroSec_CAF1 41766 112 + 1
CGCGGAGUGGGCGGAAAGUGGGCGGAAAGUGGGCGGGGGACUAGUGCUUGGCUUUGUGC-CGGGCCUACAAUACAGUGACUGCCACCCACCUCCC-------ACCGCCCACAGCCCCUUG
....(((.((((.....((((((((....((((.(((((..(((.(((((((.....))-)))))))).....(((...)))...))).)).)))-------))))))))).))))))). ( -54.50)
>DroSim_CAF1 33596 101 + 1
CGCGGAGUGGGCGGA-----------AAGUGGGCGGGGGACUAGUGCUUGGCUUUGUGC-CGGGCCUACAAUACAGUGACUGCCACCCACCUUUC-------GCCGCCCACAGAACCUUG
......((((((((.-----------..(((((.((.((..(((.(((((((.....))-))))))))((......)).)).)).))))).....-------.))))))))......... ( -45.90)
>DroEre_CAF1 38763 108 + 1
CGCGGAGAGGGCGGA-----------AAGUGGGCGGAGGACUAGUGCUUGGCUUUGUGC-CGGGCCUACAAUACAGUGACUACCGCCCACCGCCCUCCGCCCUCCGCCCACCGCCCCUUG
.((((...(((((((-----------....(((((((((..(((.(((((((.....))-)))))))).......(((.....))).......)))))))))))))))).))))...... ( -56.10)
>DroWil_CAF1 123644 79 + 1
CGCGA-----GCACA---------------------AGGACUAGUGUUUGGCUUUGUGUUUGGGCCUAUAAUACAAA------UAUCCACCCUAC-------CCCAACCAU--CAUCUUC
(.(((-----(((((---------------------(((.((((...))))))))))))))).).............------............-------.........--....... ( -15.00)
>consensus
CGCGGAGUGGGCGGA___________AAGUGGGCGGGGGACUAGUGCUUGGCUUUGUGC_CGGGCCUACAAUACAGUGACUGCCACCCACCUUCC_______CCCGCCCACAGCCCCUUG
...((.((((((((..............(((((.((.((..(((.(((((((.....)).))))))))((......)).)).)).))))).............))))))))....))... (-23.02 = -26.19 +   3.17)

alignment

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secondary structure

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dotplot

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Window 1

Location 1,437,046 – 1,437,147
Length 101
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 72.84
Mean single sequence MFE -44.00
Consensus MFE -24.71
Energy contribution -27.68
Covariance contribution 2.97
Combinations/Pair 1.26
Mean z-score -1.82
Structure conservation index 0.56
SVM decision value 0.87
SVM RNA-class probability 0.870679
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1437046 101 - 22224390
CAAGGGGCUGUGGGCGGG-------GGAAGGUGGGUGGCAGUCACUGUAUUGUAGGCCCA-GCACAAAGCCAAGCACUAGUCCCCCGCCCAUUU-----------UCCGCCCACUCCGCG
....((((.(((((((((-------(((.(.(((((.(((((......)))))..)))))-.).....((...)).....))))))))))))..-----------...))))........ ( -47.70)
>DroSec_CAF1 41766 112 - 1
CAAGGGGCUGUGGGCGGU-------GGGAGGUGGGUGGCAGUCACUGUAUUGUAGGCCCG-GCACAAAGCCAAGCACUAGUCCCCCGCCCACUUUCCGCCCACUUUCCGCCCACUCCGCG
...(.((..(((((((((-------(((((((((((((((((......))))(((((..(-((.....)))..)).))).....))))))))))))))))........)))))).)).). ( -52.60)
>DroSim_CAF1 33596 101 - 1
CAAGGUUCUGUGGGCGGC-------GAAAGGUGGGUGGCAGUCACUGUAUUGUAGGCCCG-GCACAAAGCCAAGCACUAGUCCCCCGCCCACUU-----------UCCGCCCACUCCGCG
...((....((((((((.-------..(((((((((((((((......))))(((((..(-((.....)))..)).))).....))))))))))-----------))))))))).))... ( -44.80)
>DroEre_CAF1 38763 108 - 1
CAAGGGGCGGUGGGCGGAGGGCGGAGGGCGGUGGGCGGUAGUCACUGUAUUGUAGGCCCG-GCACAAAGCCAAGCACUAGUCCUCCGCCCACUU-----------UCCGCCCUCUCCGCG
......((((.((((((((((((((((((((((...((..(((((......)).)))))(-((.....)))...)))).)))))))))))....-----------)))))))...)))). ( -60.10)
>DroWil_CAF1 123644 79 - 1
GAAGAUG--AUGGUUGGG-------GUAGGGUGGAUA------UUUGUAUUAUAGGCCCAAACACAAAGCCAAACACUAGUCCU---------------------UGUGC-----UCGCG
.......--.(((((..(-------((.((((..(((------.......)))..))))..)).)..)))))..(((.......---------------------.))).-----..... ( -14.80)
>consensus
CAAGGGGCUGUGGGCGGG_______GGAAGGUGGGUGGCAGUCACUGUAUUGUAGGCCCG_GCACAAAGCCAAGCACUAGUCCCCCGCCCACUU___________UCCGCCCACUCCGCG
...((....(((((((((..........((((((((((.....((((...(((.(((...........)))..))).))))...))))))))))...........))))))))).))... (-24.71 = -27.68 +   2.97)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:13 2006