Locus 5843

Sequence ID 2L_DroMel_CAF1
Location 16,566,261 – 16,566,380
Length 119
Max. P 0.999552
window9273 window9274

overview

Window 3

Location 16,566,261 – 16,566,380
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.73
Mean single sequence MFE -30.27
Consensus MFE -26.58
Energy contribution -26.98
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.70
Structure conservation index 0.88
SVM decision value 3.71
SVM RNA-class probability 0.999552
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16566261 119 + 22407834
GUCAAUUUUCAAUUAUGCCCAUGACGUGUGAAAGCCACCUUCGUGGCUCGAACCCCCUUUUCGCUUUUCUGACAGGUUCUCUGAUAUGGCCAACACUUUGGCCU-ACUCACACAUACCGA
((((.................))))((((((.((((((....)))))).(((((....................)))))........((((((....)))))).-..))))))....... ( -31.18)
>DroSec_CAF1 21193 107 + 1
GUCAAUUUUCAAUUAUGCCCAUGACGUGUGAAAGCCACCUUCGUGGCU-------------CGCUUUUCUGACAGGUUCUCUGAUAUGGCCAACACUUUGGCCUCACUCACACAUAAAGA
((((.................))))((((((.((((((....))))))-------------........((((((.....)))....((((((....))))))))).))))))....... ( -29.03)
>DroSim_CAF1 19252 120 + 1
GUCAAUUUUCAAUUAUGCCCAUGACGUGUGAAAGCCACCUUCGUGGCUCGAACCUCCUUUUCGCUUUUCUGACAGGUUCUCUGAUAUGGCCAACACUUUGGCCUCACUCACACAUACAGA
((((.................))))((((((.((((((....)))))).((((((.....(((......))).))))))........((((((....))))))....))))))....... ( -32.73)
>DroEre_CAF1 20059 118 + 1
GUCAAUUUUCAAUUAUGUCCAUGACGUGU-AAAGCCACCUUGGUGGCUCGAACCUCCUUUUCGCUUUUCUGACAGGCUCUCUGAUAUGGCCAACACUUUGGCCU-ACUCACACACACACA
((((.....((....))....))))((((-..((((((....))))))..............((((.......))))....(((...((((((....)))))).-..))).))))..... ( -28.60)
>DroYak_CAF1 20618 119 + 1
GUCAAUUUUCAAUUAUGUCCAUGACGUGUGAAAGCCACCUUCAUGGCCCGAACCUCCUUUUCGCUUUUCUGACAGGUUCUCUGAUAUGGCCAACACUUUGGCCU-ACUCACACACACACU
((((.....((....))....))))(((((...((((......))))..((((((.....(((......))).))))))..(((...((((((....)))))).-..))))))))..... ( -29.80)
>consensus
GUCAAUUUUCAAUUAUGCCCAUGACGUGUGAAAGCCACCUUCGUGGCUCGAACCUCCUUUUCGCUUUUCUGACAGGUUCUCUGAUAUGGCCAACACUUUGGCCU_ACUCACACAUACAGA
((((.....((....))....))))((((((..(((((....))))).........................(((.....)))....((((((....))))))....))))))....... (-26.58 = -26.98 +   0.40)

alignment

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secondary structure

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dotplot

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Window 4

Location 16,566,261 – 16,566,380
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.73
Mean single sequence MFE -37.80
Consensus MFE -32.85
Energy contribution -33.89
Covariance contribution 1.04
Combinations/Pair 1.13
Mean z-score -2.72
Structure conservation index 0.87
SVM decision value 3.60
SVM RNA-class probability 0.999430
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16566261 119 - 22407834
UCGGUAUGUGUGAGU-AGGCCAAAGUGUUGGCCAUAUCAGAGAACCUGUCAGAAAAGCGAAAAGGGGGUUCGAGCCACGAAGGUGGCUUUCACACGUCAUGGGCAUAAUUGAAAAUUGAC
.......((((((..-.((((((....))))))......(((..(((.((........))...)))..)))(((((((....)))))))))))))((((....((....)).....)))) ( -41.20)
>DroSec_CAF1 21193 107 - 1
UCUUUAUGUGUGAGUGAGGCCAAAGUGUUGGCCAUAUCAGAGAACCUGUCAGAAAAGCG-------------AGCCACGAAGGUGGCUUUCACACGUCAUGGGCAUAAUUGAAAAUUGAC
.......((((((.(((((((((....))))))....(((.....)))))).......(-------------((((((....)))))))))))))((((....((....)).....)))) ( -35.50)
>DroSim_CAF1 19252 120 - 1
UCUGUAUGUGUGAGUGAGGCCAAAGUGUUGGCCAUAUCAGAGAACCUGUCAGAAAAGCGAAAAGGAGGUUCGAGCCACGAAGGUGGCUUUCACACGUCAUGGGCAUAAUUGAAAAUUGAC
(((((((((((((....((((((....))))))........((((((.((........)).....))))))(((((((....))))))))))))))).)))))................. ( -40.70)
>DroEre_CAF1 20059 118 - 1
UGUGUGUGUGUGAGU-AGGCCAAAGUGUUGGCCAUAUCAGAGAGCCUGUCAGAAAAGCGAAAAGGAGGUUCGAGCCACCAAGGUGGCUUU-ACACGUCAUGGACAUAAUUGAAAAUUGAC
(((((.((((((.((-(((((((....))))))........((((((.((........)).....))))))(((((((....))))))))-)).)).)))).)))))............. ( -37.30)
>DroYak_CAF1 20618 119 - 1
AGUGUGUGUGUGAGU-AGGCCAAAGUGUUGGCCAUAUCAGAGAACCUGUCAGAAAAGCGAAAAGGAGGUUCGGGCCAUGAAGGUGGCUUUCACACGUCAUGGACAUAAUUGAAAAUUGAC
...(((((((((((.-.((((((....))))))........((((((.((........)).....)))))).((((((....)))))))))))))).))).................... ( -34.30)
>consensus
UCUGUAUGUGUGAGU_AGGCCAAAGUGUUGGCCAUAUCAGAGAACCUGUCAGAAAAGCGAAAAGGAGGUUCGAGCCACGAAGGUGGCUUUCACACGUCAUGGGCAUAAUUGAAAAUUGAC
.......((((((....((((((....))))))........((((((..................))))))(((((((....)))))))))))))((((....((....)).....)))) (-32.85 = -33.89 +   1.04)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:24 2006