Locus 4096

Sequence ID 3L_DroMel_CAF1
Location 11,949,890 – 11,949,995
Length 105
Max. P 0.996963
window6371 window6372

overview

Window 1

Location 11,949,890 – 11,949,995
Length 105
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 84.87
Mean single sequence MFE -26.00
Consensus MFE -22.73
Energy contribution -23.37
Covariance contribution 0.64
Combinations/Pair 1.18
Mean z-score -1.91
Structure conservation index 0.87
SVM decision value 0.79
SVM RNA-class probability 0.852009
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11949890 105 + 23771897
UGAAAUAGGUGAUGACUUCCAGGAAUUACAAUUCCCAAAGUUCACACCUCAAUUAGACUGACAUGAAAGGGCCAUGUCU-AACAUGAUCGGCAUAAUUGAUAGAGA
.......((((.((((((...(((((....)))))..))).)))))))(((((((..((((((((...((((...))))-..)))).))))..)))))))...... ( -28.00)
>DroSec_CAF1 2766 105 + 1
UGAGAUAGGUGAUGACUUCCAGGAAUUACGAUUCCCAAAGUUCACACCUCAAUUAGACUGACAUAAAAGGGCCAUGUCU-AACAUGAUCAGCAUAAAUGAUAGAGA
.......((((.((((((...(((((....)))))..))).)))))))(((.(((..(((((((....((((...))))-...))).))))..))).)))...... ( -22.00)
>DroSim_CAF1 2771 105 + 1
UGAGAUAGGUGAUGACUUCCAGGAAUAACGAUUCCCAAAGUUCACACCUCAAUUAGACUGACAUAUAAGGGCCAUGUCU-AACAUGAUCAGCAUAAUUGAUAGAGA
.......((((.((((((...(((((....)))))..))).)))))))(((((((..(((((((....((((...))))-...))).))))..)))))))...... ( -25.80)
>DroEre_CAF1 3168 105 + 1
UGCGAUAGGUGAUGACUUCUAGGAACUACAAUGCCCAAAGUUCACAUCUCAAUUAGACUGACACGAAAGGGCCAUGUCU-AACAUGAUCAACGUAAUUGACAGAGA
((((...(((.(((........(((((...........))))).........((((((((.(.(....).).)).))))-))))).)))..))))........... ( -19.00)
>DroYak_CAF1 919 105 + 1
UGCGAUAGGUGAUGACUUCCAGGAACUACAGUGCCCAAAGUUCACACCUCAAUUAGAUUGACAUGAAAGGGCCAUGUCU-AACAUGAUCAACGUAAUUGAUAGAGA
.......((((.((((((...((.((....)).))..))).)))))))(((((((..((((((((...((((...))))-..)))).))))..)))))))...... ( -24.40)
>DroAna_CAF1 2773 101 + 1
U-----AGAAGUCAACUUCUAGGAACCCAGGUUCCAAGAGAUCACACCUCAAUUAGGUUGACAUGAUAGGGCUGUGUCUUGACAUGAUCAACAUAAUUGAUGGCGA
(-----(((((....))))))(((((....))))).........(.(((((((((.(((((((((.((((((...)))))).)))).))))).))))))).)).). ( -36.80)
>consensus
UGAGAUAGGUGAUGACUUCCAGGAACUACAAUUCCCAAAGUUCACACCUCAAUUAGACUGACAUGAAAGGGCCAUGUCU_AACAUGAUCAACAUAAUUGAUAGAGA
.......((((..(((((...(((((....)))))..)))))..))))(((((((..((((((((...((((...))))...)))).))))..)))))))...... (-22.73 = -23.37 +   0.64)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 2

Location 11,949,890 – 11,949,995
Length 105
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 84.87
Mean single sequence MFE -30.70
Consensus MFE -29.04
Energy contribution -28.02
Covariance contribution -1.02
Combinations/Pair 1.35
Mean z-score -3.12
Structure conservation index 0.95
SVM decision value 2.78
SVM RNA-class probability 0.996963
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11949890 105 - 23771897
UCUCUAUCAAUUAUGCCGAUCAUGUU-AGACAUGGCCCUUUCAUGUCAGUCUAAUUGAGGUGUGAACUUUGGGAAUUGUAAUUCCUGGAAGUCAUCACCUAUUUCA
......(((((((.((.((.((((..-((........))..)))))).)).)))))))(((((((..((..(((((....)))))..))..))).))))....... ( -31.20)
>DroSec_CAF1 2766 105 - 1
UCUCUAUCAUUUAUGCUGAUCAUGUU-AGACAUGGCCCUUUUAUGUCAGUCUAAUUGAGGUGUGAACUUUGGGAAUCGUAAUUCCUGGAAGUCAUCACCUAUCUCA
......(((.(((.(((((.((((..-((........))..))))))))).))).)))(((((((..((..(((((....)))))..))..))).))))....... ( -30.90)
>DroSim_CAF1 2771 105 - 1
UCUCUAUCAAUUAUGCUGAUCAUGUU-AGACAUGGCCCUUAUAUGUCAGUCUAAUUGAGGUGUGAACUUUGGGAAUCGUUAUUCCUGGAAGUCAUCACCUAUCUCA
......(((((((.(((((.(((((.-((........)).)))))))))).)))))))(((((((..((..(((((....)))))..))..))).))))....... ( -34.30)
>DroEre_CAF1 3168 105 - 1
UCUCUGUCAAUUACGUUGAUCAUGUU-AGACAUGGCCCUUUCGUGUCAGUCUAAUUGAGAUGUGAACUUUGGGCAUUGUAGUUCCUAGAAGUCAUCACCUAUCGCA
......(((((((..((((.((((..-((........))..))))))))..)))))))(((((((((((((((.((....)).))))).)))..))))..)))... ( -23.40)
>DroYak_CAF1 919 105 - 1
UCUCUAUCAAUUACGUUGAUCAUGUU-AGACAUGGCCCUUUCAUGUCAAUCUAAUUGAGGUGUGAACUUUGGGCACUGUAGUUCCUGGAAGUCAUCACCUAUCGCA
......(((((((.(((((.((((..-((........))..))))))))).)))))))(((((((..((..((.((....)).))..))..))).))))....... ( -31.60)
>DroAna_CAF1 2773 101 - 1
UCGCCAUCAAUUAUGUUGAUCAUGUCAAGACACAGCCCUAUCAUGUCAACCUAAUUGAGGUGUGAUCUCUUGGAACCUGGGUUCCUAGAAGUUGACUUCU-----A
.((((.(((((((.(((((.((((...((........))..))))))))).))))))))))).........(((((....)))))((((((....)))))-----) ( -32.80)
>consensus
UCUCUAUCAAUUAUGCUGAUCAUGUU_AGACAUGGCCCUUUCAUGUCAGUCUAAUUGAGGUGUGAACUUUGGGAAUCGUAAUUCCUGGAAGUCAUCACCUAUCUCA
......(((((((.(((((.((((...((........))..))))))))).)))))))(((((((..(((((((((....)))))))))..))).))))....... (-29.04 = -28.02 +  -1.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:22 2006