Locus 6553

Sequence ID 3L_DroMel_CAF1
Location 17,305,130 – 17,305,274
Length 144
Max. P 0.941249
window10669 window10670

overview

Window 9

Location 17,305,130 – 17,305,234
Length 104
Sequences 4
Columns 114
Reading direction forward
Mean pairwise identity 81.73
Mean single sequence MFE -25.50
Consensus MFE -21.40
Energy contribution -21.40
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.41
Structure conservation index 0.84
SVM decision value 0.04
SVM RNA-class probability 0.555980
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17305130 104 + 23771897
U----------AAAAAUUAUACAUUCCUUAGCGCACUGGGAUGACUGGGGCUCGUCCGGGAAUUGAACCCGGGACCUCUCGCACCCGAAGCGAGAAUCAUACCUCUAGACCAAC
.----------..........((((((..........)))))).((((((...((((.((........)).)))).((((((.......)))))).......))))))...... ( -31.20)
>DroSec_CAF1 4000 95 + 1
U----------AAAAAUUUUACAUUCUUCAGCGCACU---------UGGGCUCGUCCGGGAAUUGAACCCGGGACCUCUCGCACCCGAAGCGAGAAUCAUACCUCUAGACCAAC
.----------.........................(---------(((....((((.((........)).)))).((((((.......))))))..............)))). ( -21.90)
>DroEre_CAF1 2583 102 + 1
UUUAUCAGAGCACAAAAAAU--GUUCU-UUGUCCACU---------UGGGCUCGUCCGGGAAUUGAACCCGGGACCUCUCGCACCCGAAGCGAGAAUCAUACCUCUAGACCAAC
.......(((((((((....--....)-))))((...---------.))))))((((.((........)).)))).((((((.......))))))................... ( -27.00)
>DroYak_CAF1 4223 92 + 1
A----------AAAAAAAUU--AUUCU-CAUUCCACU---------UGGGCUCGUCCGGGAAUUGAACCCGGGACCUCUCGCACCCGAAGCGAGAAUCAUACCUCUAGACCAAC
.----------.........--.....-........(---------(((....((((.((........)).)))).((((((.......))))))..............)))). ( -21.90)
>consensus
U__________AAAAAAAAU__AUUCU_CAGCCCACU_________UGGGCUCGUCCGGGAAUUGAACCCGGGACCUCUCGCACCCGAAGCGAGAAUCAUACCUCUAGACCAAC
................................................((.((((((.((........)).)))).((((((.......))))))............))))... (-21.40 = -21.40 +   0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,305,154 – 17,305,274
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.01
Mean single sequence MFE -36.54
Consensus MFE -32.28
Energy contribution -32.44
Covariance contribution 0.16
Combinations/Pair 1.12
Mean z-score -1.62
Structure conservation index 0.88
SVM decision value 1.32
SVM RNA-class probability 0.941249
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17305154 120 + 23771897
ACUGGGAUGACUGGGGCUCGUCCGGGAAUUGAACCCGGGACCUCUCGCACCCGAAGCGAGAAUCAUACCUCUAGACCAACGAGCCGGUUUGAACCUCAGUCGACUAAUUACGCAAUCUAA
..(((..(((((((((((((((((((.......)))))((..((((((.......)))))).))..............)))))))(((....)))))))))).))).............. ( -41.80)
>DroSec_CAF1 4024 111 + 1
ACU---------UGGGCUCGUCCGGGAAUUGAACCCGGGACCUCUCGCACCCGAAGCGAGAAUCAUACCUCUAGACCAACGAGCCGGAUUGAACCGCAGUCGACUAAUUAGGCAAUCUAU
...---------..((((((((((((.......)))))((..((((((.......)))))).))..............)))))))((((((..((..(((......))).)))))))).. ( -35.90)
>DroSim_CAF1 2960 111 + 1
ACU---------UGGGCUCGUCCGGGAAUUGAACCCGGGACCUCUCGCACCCGAAGCGAGAAUCAUACCUCUAGACCAACGAGCCGGAUUGAACCGCAGUCGACUAAUUAGGCAAUCUAG
...---------..((((((((((((.......)))))((..((((((.......)))))).))..............)))))))((((((..((..(((......))).)))))))).. ( -35.90)
>DroEre_CAF1 2614 111 + 1
ACU---------UGGGCUCGUCCGGGAAUUGAACCCGGGACCUCUCGCACCCGAAGCGAGAAUCAUACCUCUAGACCAACGAGCCGUGCUGAACGCCGGUUGACUAAUUACUCAAUUUAA
...---------..((((((((((((.......)))))((..((((((.......)))))).))..............)))))))(.((.....)))((((((........))))))... ( -33.40)
>DroYak_CAF1 4244 111 + 1
ACU---------UGGGCUCGUCCGGGAAUUGAACCCGGGACCUCUCGCACCCGAAGCGAGAAUCAUACCUCUAGACCAACGAGCCGGGUUGAACGGCCGUCGACUAAUUACUCAAUCUAA
...---------..((((((((((((.......)))))((..((((((.......)))))).))..............))))))).((((((.(....)))))))............... ( -35.70)
>consensus
ACU_________UGGGCUCGUCCGGGAAUUGAACCCGGGACCUCUCGCACCCGAAGCGAGAAUCAUACCUCUAGACCAACGAGCCGGAUUGAACCGCAGUCGACUAAUUACGCAAUCUAA
..............((((((((((((.......)))))((..((((((.......)))))).))..............))))))).(((((.....)))))................... (-32.28 = -32.44 +   0.16)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:12 2006