Locus 7801

Sequence ID 3L_DroMel_CAF1
Location 20,860,672 – 20,860,775
Length 103
Max. P 0.851720
window12693 window12694

overview

Window 3

Location 20,860,672 – 20,860,775
Length 103
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 80.77
Mean single sequence MFE -28.50
Consensus MFE -20.67
Energy contribution -20.97
Covariance contribution 0.31
Combinations/Pair 1.16
Mean z-score -1.92
Structure conservation index 0.73
SVM decision value 0.79
SVM RNA-class probability 0.851720
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20860672 103 + 23771897
GGCGAACCAGAAGGUUAUCUUCUUGUUUGUUGUCGUGUUCUUCUGCAGGUCGAAAGAAAGUG-----------GAGA-AGAGGGCCAAGAUUAACGGAAGAACUGGUUCAUGAAU
...(((((((.......((((((.(((.(((...((.(((((((.((..((....))...))-----------.)))-)))).))...))).))))))))).)))))))...... ( -34.90)
>DroPse_CAF1 130199 101 + 1
GGCGAACCAGAAGGUUAUCUUCUUGUUGGUUGUCGUGUUCUUCUGCAGAGAGG-AGAGAGCC-----------GAGA-GAAAGG-GAAUAUUAACGGAAGAACUGUCUUAUGAAU
((((((((....)))).((((((.((((((..((...(((((((....)))))-))....((-----------....-....))-))..))))))))))))..))))........ ( -23.60)
>DroEre_CAF1 117793 110 + 1
GGCGAACCAGAAGGUUAUCUUCUUGUUCGUUGUCGUGUUCUUCUGCAGAUCGAAAGAAAGAAGA----CGGAAGAGA-AGAGGGGUCAGAUUAACGGAAGAACUGGUUCAUGAAU
...(((((((..(..(.(((((((.((((((.((.(((......)))..((....))..)).))----)))).))))-)))..)..).......(....)..)))))))...... ( -34.60)
>DroWil_CAF1 165675 99 + 1
GGCAAACCAGAAGGUUAUCUUCUUAUUGGUUGUAGUGUUCUUCUGCAAA---AAAGAAAGAG------------AGA-UGGAGAGAACGAUUAACGGAAGAACUGGCUCAUGAAU
(((.((((....)))).((((((.....((((...((((((.((.((..---..........------------...-)).))))))))..))))))))))....)))....... ( -19.36)
>DroYak_CAF1 115607 103 + 1
GGCGAACCAGAAGGUUAUCUUCUUGUUUGUUGUCGUGUUCUUCUGCAGAUCGAAAGAAAGAG-----------GAGA-GGAGGGGCGAGAUUAACGGAAGAACUGGUUUAUGAAU
...(((((((..........((((((((.((.((....((((((.....((....)).))))-----------))))-.)).))))))))....(....)..)))))))...... ( -29.30)
>DroAna_CAF1 118035 115 + 1
GGCGAACCAGAAGGUUAUCUUCUUGUUCGUUGUCGUGUUCUUCUGCAGGUCCAAAAAAGAGAGAGAAAAAUAAGAGAAAAAGGGUCGAGAUUAACGGAAGAACUGGCUUAUGAAU
(((((((.(((((.....))))).)))))))((((.(((((((((..(..((.............................))..)........)))))))))))))........ ( -29.25)
>consensus
GGCGAACCAGAAGGUUAUCUUCUUGUUCGUUGUCGUGUUCUUCUGCAGAUCGAAAGAAAGAG___________GAGA_AGAGGGGCAAGAUUAACGGAAGAACUGGCUCAUGAAU
(((((((.(((((.....))))).))))))).....(((((((((..((((.....................................))))..)))))))))............ (-20.67 = -20.97 +   0.31)

alignment

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secondary structure

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dotplot

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Window 4

Location 20,860,672 – 20,860,775
Length 103
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 80.77
Mean single sequence MFE -18.79
Consensus MFE -14.00
Energy contribution -13.91
Covariance contribution -0.08
Combinations/Pair 1.06
Mean z-score -1.72
Structure conservation index 0.74
SVM decision value 0.65
SVM RNA-class probability 0.811586
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20860672 103 - 23771897
AUUCAUGAACCAGUUCUUCCGUUAAUCUUGGCCCUCU-UCUC-----------CACUUUCUUUCGACCUGCAGAAGAACACGACAACAAACAAGAAGAUAACCUUCUGGUUCGCC
......(((((((.(((((.(((....(((....(((-(((.-----------((...((....))..)).))))))...))).....)))..))))).......)))))))... ( -20.20)
>DroPse_CAF1 130199 101 - 1
AUUCAUAAGACAGUUCUUCCGUUAAUAUUC-CCUUUC-UCUC-----------GGCUCUCU-CCUCUCUGCAGAAGAACACGACAACCAACAAGAAGAUAACCUUCUGGUUCGCC
............(((((((.((........-((....-....-----------))......-.......)).))))))).(((..((((....((((.....))))))))))).. ( -14.90)
>DroEre_CAF1 117793 110 - 1
AUUCAUGAACCAGUUCUUCCGUUAAUCUGACCCCUCU-UCUCUUCCG----UCUUCUUUCUUUCGAUCUGCAGAAGAACACGACAACGAACAAGAAGAUAACCUUCUGGUUCGCC
......(((((.(((((((.((..(((..........-.........----.............)))..)).))))))).............(((((.....))))))))))... ( -22.05)
>DroWil_CAF1 165675 99 - 1
AUUCAUGAGCCAGUUCUUCCGUUAAUCGUUCUCUCCA-UCU------------CUCUUUCUUU---UUUGCAGAAGAACACUACAACCAAUAAGAAGAUAACCUUCUGGUUUGCC
......(((((.(((((((.((...............-...------------..........---...)).))))))).............(((((.....))))))))))... ( -17.08)
>DroYak_CAF1 115607 103 - 1
AUUCAUAAACCAGUUCUUCCGUUAAUCUCGCCCCUCC-UCUC-----------CUCUUUCUUUCGAUCUGCAGAAGAACACGACAACAAACAAGAAGAUAACCUUCUGGUUCGCC
.......((((.(((((((.((..(((..........-....-----------...........)))..)).))))))).............(((((.....))))))))).... ( -18.11)
>DroAna_CAF1 118035 115 - 1
AUUCAUAAGCCAGUUCUUCCGUUAAUCUCGACCCUUUUUCUCUUAUUUUUCUCUCUCUUUUUUGGACCUGCAGAAGAACACGACAACGAACAAGAAGAUAACCUUCUGGUUCGCC
............(((((((.((...((.(((..............................)))))...)).))))))).......(((((.(((((.....))))).))))).. ( -20.41)
>consensus
AUUCAUAAACCAGUUCUUCCGUUAAUCUUGCCCCUCU_UCUC___________CUCUUUCUUUCGAUCUGCAGAAGAACACGACAACAAACAAGAAGAUAACCUUCUGGUUCGCC
.......((((.(((((((.((...............................................)).))))))).............(((((.....))))))))).... (-14.00 = -13.91 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:15 2006