Locus 3451

Sequence ID 2L_DroMel_CAF1
Location 10,048,014 – 10,048,120
Length 106
Max. P 0.994382
window5459 window5460

overview

Window 9

Location 10,048,014 – 10,048,120
Length 106
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 75.81
Mean single sequence MFE -29.47
Consensus MFE -17.47
Energy contribution -19.30
Covariance contribution 1.83
Combinations/Pair 1.00
Mean z-score -2.25
Structure conservation index 0.59
SVM decision value 1.74
SVM RNA-class probability 0.975185
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10048014 106 + 22407834
UCUAUUUUUUUUUCUAUUUUUUUUCAUCUUGCCCCUGGCCAGACAAAUGCCACGUCGGUUGACGACGGCACACUCGCCCA--AUGAAAUCUGCUCCUUGCCACGGGCG
..............................((((.((((((((..........((((.....))))(((......)))..--......))))......)))).)))). ( -27.00)
>DroSec_CAF1 43653 96 + 1
UCUAUCUUUUUU-------UUUUUCAUCUUGCCCCUGGCCAGACAAAUGCCACGUCGGUUGA---AGGCACACUCGCCCA--AUGAAAUCUGCUCCUUGCCAGGGGCG
............-------...........(((((((((((((.....(((.....)))...---.(((......)))..--......))))......))))))))). ( -29.10)
>DroSim_CAF1 46125 99 + 1
UCUAUUUUUUUUUCU----UUUUUCAUCUUGCCCCUGGCCAGACAAAUGCCACGUCGGUGGA---AGGCACACUCGCCCA--AUGAAAUCUGCUCCUUGCCAGGGGCG
...............----...........(((((((((((((......((((....)))).---.(((......)))..--......))))......))))))))). ( -32.50)
>DroEre_CAF1 44663 100 + 1
UCCCAGUCUCUGU---UUUUUUUUCAUCUUGCCCCUGGCCAGACAAAUGCCACAUCGGUUGA---CGGCACACUCGUCCA--AGGAGAUCUACUCCUGGCCAGGGGCG
.............---..............((((((((((.(((...((((.((.....)).---.)))).....)))..--(((((.....))))))))))))))). ( -38.00)
>DroYak_CAF1 44461 101 + 1
UCUACUUUUUUUC---UUUUCAUUCAUCUUAG-CCUGGCCAGACAAAUGCCACGUCGCUUGA---CGGCACACUUGGCCAGAAGGAGAUCUACUCCUGGCCAGGGGCG
.............---...............(-((((((.........))))((((....))---)).....(((((((((.((........)).)))))))))))). ( -31.00)
>DroAna_CAF1 45790 81 + 1
AA---UUUUUU--------------GCCUUUCCC----ACAGACAAAUGCCACGUCACUUGA---CGGCACUC-GGCCCA--AUGCGGAUUCAUCCUAGCCAGGGGCG
..---.....(--------------(((......----.((......))....(((....))---)))))...-.((((.--..(((((....)))..))...)))). ( -19.20)
>consensus
UCUAUUUUUUUUU______UUUUUCAUCUUGCCCCUGGCCAGACAAAUGCCACGUCGGUUGA___CGGCACACUCGCCCA__AUGAAAUCUGCUCCUUGCCAGGGGCG
..............................(((((((((.((.....((((...((....))....))))..............((.......)))).))))))))). (-17.47 = -19.30 +   1.83)

alignment

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secondary structure

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dotplot

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Window 0

Location 10,048,014 – 10,048,120
Length 106
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 75.81
Mean single sequence MFE -36.55
Consensus MFE -24.68
Energy contribution -26.85
Covariance contribution 2.17
Combinations/Pair 1.15
Mean z-score -3.28
Structure conservation index 0.68
SVM decision value 2.47
SVM RNA-class probability 0.994382
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10048014 106 - 22407834
CGCCCGUGGCAAGGAGCAGAUUUCAU--UGGGCGAGUGUGCCGUCGUCAACCGACGUGGCAUUUGUCUGGCCAGGGGCAAGAUGAAAAAAAAUAGAAAAAAAAAUAGA
.((((.((((..((((....))))..--.((((((((((..(((((.....)))))..)))))))))).)))).)))).............................. ( -38.50)
>DroSec_CAF1 43653 96 - 1
CGCCCCUGGCAAGGAGCAGAUUUCAU--UGGGCGAGUGUGCCU---UCAACCGACGUGGCAUUUGUCUGGCCAGGGGCAAGAUGAAAAA-------AAAAAAGAUAGA
.(((((((((..((((....))))..--.((((((((((..(.---((....)).)..)))))))))).)))))))))...........-------............ ( -35.30)
>DroSim_CAF1 46125 99 - 1
CGCCCCUGGCAAGGAGCAGAUUUCAU--UGGGCGAGUGUGCCU---UCCACCGACGUGGCAUUUGUCUGGCCAGGGGCAAGAUGAAAAA----AGAAAAAAAAAUAGA
.(((((((((..(((.(((((.....--.(((((....)))))---.((((....)))).)))))))).)))))))))...........----............... ( -35.10)
>DroEre_CAF1 44663 100 - 1
CGCCCCUGGCCAGGAGUAGAUCUCCU--UGGACGAGUGUGCCG---UCAACCGAUGUGGCAUUUGUCUGGCCAGGGGCAAGAUGAAAAAAAA---ACAGAGACUGGGA
.(((((((((((((((.....)))))--.((((((((((..((---((....))))..))))))))))))))))))))..............---.(((...)))... ( -49.30)
>DroYak_CAF1 44461 101 - 1
CGCCCCUGGCCAGGAGUAGAUCUCCUUCUGGCCAAGUGUGCCG---UCAAGCGACGUGGCAUUUGUCUGGCCAGG-CUAAGAUGAAUGAAAA---GAAAAAAAGUAGA
....((((((((((((.....)))))...((.(((((((..((---((....))))..))))))).)))))))))-................---............. ( -34.80)
>DroAna_CAF1 45790 81 - 1
CGCCCCUGGCUAGGAUGAAUCCGCAU--UGGGCC-GAGUGCCG---UCAAGUGACGUGGCAUUUGUCUGU----GGGAAAGGC--------------AAAAAA---UU
.(((.((.((..(((..(((((((..--..(((.-....)))(---((....))))))).)))..)))))----.))...)))--------------......---.. ( -26.30)
>consensus
CGCCCCUGGCAAGGAGCAGAUCUCAU__UGGGCGAGUGUGCCG___UCAACCGACGUGGCAUUUGUCUGGCCAGGGGCAAGAUGAAAAA______AAAAAAAAAUAGA
.(((((((((...(((.....))).....((((((..((((((...((....))..)))))))))))).))))))))).............................. (-24.68 = -26.85 +   2.17)

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 10:52:49 2006