Locus 8400

Sequence ID 3L_DroMel_CAF1
Location 22,082,306 – 22,082,400
Length 94
Max. P 0.850852
window13736 window13737

overview

Window 6

Location 22,082,306 – 22,082,400
Length 94
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 78.92
Mean single sequence MFE -24.19
Consensus MFE -14.59
Energy contribution -14.70
Covariance contribution 0.11
Combinations/Pair 1.21
Mean z-score -1.82
Structure conservation index 0.60
SVM decision value 0.55
SVM RNA-class probability 0.777049
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22082306 94 + 23771897
UUUCCCUGUGCCACUUUCCGCUCAUUCAGCAUUUCCCACCCACCCCGCGGC---CCCCGGCCAGCUCGGCUUUUGUAACUUG--CCAAUUGGCACCGGG
...(((.((((((......(((.....)))................(((((---(...)))).))..(((...........)--))...)))))).))) ( -28.50)
>DroSec_CAF1 67850 95 + 1
UUUCCCUGUGCCACUUUCUGCUCAUUCAGCAUUUUCCACCCACCCCGCGAC---CCCCGACAAGC-CGGCUAUUGUAACUUGCGCCAAUUGGCACCGGG
...(((.((((((.....((((.....))))...............(((..---.....((((..-......))))......)))....)))))).))) ( -23.12)
>DroSim_CAF1 74206 96 + 1
UUUCCCUGUGCCACUUUCUGCUCAUUCAGCAUUUUCCACCCACCCCGCGAC---CCCCGACAAGCCCGGCUAUUGUAACUUGCGCCAAUUGGCACCGGG
...(((.((((((.....((((.....))))...............(((..---.....((((((...)))..)))......)))....)))))).))) ( -22.72)
>DroEre_CAF1 67983 96 + 1
UUUCCCUGUGCCACUUUCCGCUCAUUCAGCUUUUUCCACCCACCUCGCCCCCUCCCCCGACAAGC-UGGCUAUUGUAACUUG--CCAAUUGGCACCGGG
...(((.((((((......(((.....)))...................................-((((...........)--)))..)))))).))) ( -21.10)
>DroYak_CAF1 82751 92 + 1
UUUCCCUGUGCCACUUUCCGCUCAUUCUGCAUUUUUCACCCACCUCGCAGC-----CCACCAAGCUUGGCUAUUGUAACUUG--CCAAUUGGCACCGGG
...(((.((((((......(((....((((................)))).-----......)))(((((...........)--)))).)))))).))) ( -24.59)
>DroAna_CAF1 89422 80 + 1
CCUCCGCGGGCCACUUGCCGCUUAUUCAGCAUUUCGGUCGGGCAUCGCAGC---UCUC--C--GUUCGAC----------UG--CCAAUCGGCACCGGG
...((.((((((.......(((.....))).....(((..(((((((.(((---....--.--)))))).----------))--)).)))))).))))) ( -25.10)
>consensus
UUUCCCUGUGCCACUUUCCGCUCAUUCAGCAUUUUCCACCCACCCCGCGGC___CCCCGACAAGCUCGGCUAUUGUAACUUG__CCAAUUGGCACCGGG
...(((.(((((.......(((.....)))..........................(((.......))).....................))))).))) (-14.59 = -14.70 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 22,082,306 – 22,082,400
Length 94
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 78.92
Mean single sequence MFE -32.33
Consensus MFE -18.60
Energy contribution -19.93
Covariance contribution 1.34
Combinations/Pair 1.30
Mean z-score -2.09
Structure conservation index 0.58
SVM decision value 0.79
SVM RNA-class probability 0.850852
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22082306 94 - 23771897
CCCGGUGCCAAUUGG--CAAGUUACAAAAGCCGAGCUGGCCGGGG---GCCGCGGGGUGGGUGGGAAAUGCUGAAUGAGCGGAAAGUGGCACAGGGAAA
(((.(((((..(..(--((..(..((...(((..((.((((...)---)))))..)))...))..)..)))..)....((.....))))))).)))... ( -37.00)
>DroSec_CAF1 67850 95 - 1
CCCGGUGCCAAUUGGCGCAAGUUACAAUAGCCG-GCUUGUCGGGG---GUCGCGGGGUGGGUGGAAAAUGCUGAAUGAGCAGAAAGUGGCACAGGGAAA
(((.((((((..((((....))))...((.(((-.((((.((...---..)))))).))).)).....((((.....)))).....)))))).)))... ( -32.90)
>DroSim_CAF1 74206 96 - 1
CCCGGUGCCAAUUGGCGCAAGUUACAAUAGCCGGGCUUGUCGGGG---GUCGCGGGGUGGGUGGAAAAUGCUGAAUGAGCAGAAAGUGGCACAGGGAAA
(((.((((((..((((....)))).....(((.(.((((.((...---..)))))).).)))......((((.....)))).....)))))).)))... ( -32.90)
>DroEre_CAF1 67983 96 - 1
CCCGGUGCCAAUUGG--CAAGUUACAAUAGCCA-GCUUGUCGGGGGAGGGGGCGAGGUGGGUGGAAAAAGCUGAAUGAGCGGAAAGUGGCACAGGGAAA
(((.((((((.((.(--(.((((....((.(((-.((((((.........)))))).))).)).....))))......)).))...)))))).)))... ( -33.20)
>DroYak_CAF1 82751 92 - 1
CCCGGUGCCAAUUGG--CAAGUUACAAUAGCCAAGCUUGGUGG-----GCUGCGAGGUGGGUGAAAAAUGCAGAAUGAGCGGAAAGUGGCACAGGGAAA
(((.((((((.((((--(...........)))))(((((....-----.(((((...(......)...)))))..)))))......)))))).)))... ( -30.40)
>DroAna_CAF1 89422 80 - 1
CCCGGUGCCGAUUGG--CA----------GUCGAAC--G--GAGA---GCUGCGAUGCCCGACCGAAAUGCUGAAUAAGCGGCAAGUGGCCCGCGGAGG
(((((.((((.(((.--(.----------.(((..(--(--(...---((......)))))..)))...(((.....)))).))).))))))).))... ( -27.60)
>consensus
CCCGGUGCCAAUUGG__CAAGUUACAAUAGCCGAGCUUGUCGGGG___GCCGCGAGGUGGGUGGAAAAUGCUGAAUGAGCGGAAAGUGGCACAGGGAAA
(((.((((((...................(((...((((.(((......)))))))...)))......((((.....)))).....)))))).)))... (-18.60 = -19.93 +   1.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:14:24 2006