Locus 5266

Sequence ID 2L_DroMel_CAF1
Location 14,861,079 – 14,861,195
Length 116
Max. P 0.558950
window8381 window8382

overview

Window 1

Location 14,861,079 – 14,861,195
Length 116
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 88.51
Mean single sequence MFE -22.15
Consensus MFE -15.01
Energy contribution -16.08
Covariance contribution 1.06
Combinations/Pair 1.11
Mean z-score -1.74
Structure conservation index 0.68
SVM decision value 0.04
SVM RNA-class probability 0.553684
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14861079 116 + 22407834
AUGACAUCUACAAAUGUAAUUGGAAUGAAUUUCAGAUUGUAUUUUUCACCAAUCUGAGCAUUACUUCGAAGUGUACUUGAUGGUCAUAUACUAAAUAUUUUAUAUGCAAUUCCAAC
...((((......))))..(((((((.....((((((((..........))))))))((((...........(((..((.....))..)))............)))).))))))). ( -21.80)
>DroSec_CAF1 21015 111 + 1
-----AUCCACAAAUGUAAUUGGAUUGCAUUUAAGAUUGUAUUUUUCACCAAUCUGAGCAUUACUUCGAAGUGUACUUGAUGGUCAUAUACUAAAUAUUUUAUAUGCAAUUCCAAU
-----.............((((((((((((.((((((.((((.....((((.((.(.(((((.......))))).)..))))))...)))).....)))))).)))))).)))))) ( -23.70)
>DroSim_CAF1 20525 116 + 1
AUAUCAUCCACAAAUGUAAUUGGAUUGCAUUUCAGAUUGUAUUUUUCACCAAUCUGAGCAUUACUUCUAAGUGUACUUGAUGGUCAUAUACUAAAUAUUUUAUAUGCAAUUCCAAA
...................((((((((((((((((((((..........)))))))))...........((((((..((.....))))))))...........)))))).))))). ( -23.10)
>DroEre_CAF1 20239 116 + 1
UUGACAUCCGAGAAUGUAAUUGGAAAGCAUUUUAGAUUGCAUUUCUCACCUAGCUGAGCAUUACGUCGAAAUAUACUUGAUGGUCAUAUAUUAAAUAUUUUAUAUGCAAUUCCAAU
(((((....((((((((((((.(((.....))).))))))).))))).....((...)).....)))))...........(((.((((((..........)))))).....))).. ( -20.00)
>consensus
AUGACAUCCACAAAUGUAAUUGGAAUGCAUUUCAGAUUGUAUUUUUCACCAAUCUGAGCAUUACUUCGAAGUGUACUUGAUGGUCAUAUACUAAAUAUUUUAUAUGCAAUUCCAAU
...................((((((((((((((((((((..........)))))))))...........((((((..((.....))))))))...........)))))).))))). (-15.01 = -16.08 +   1.06)

alignment

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secondary structure

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dotplot

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Window 2

Location 14,861,079 – 14,861,195
Length 116
Sequences 4
Columns 116
Reading direction reverse
Mean pairwise identity 88.51
Mean single sequence MFE -22.98
Consensus MFE -15.68
Energy contribution -17.30
Covariance contribution 1.62
Combinations/Pair 1.04
Mean z-score -1.72
Structure conservation index 0.68
SVM decision value 0.05
SVM RNA-class probability 0.558950
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14861079 116 - 22407834
GUUGGAAUUGCAUAUAAAAUAUUUAGUAUAUGACCAUCAAGUACACUUCGAAGUAAUGCUCAGAUUGGUGAAAAAUACAAUCUGAAAUUCAUUCCAAUUACAUUUGUAGAUGUCAU
((((((((.((((............((((.((.....)).))))(((....))).))))((((((((.(....)...)))))))).....)))))))).(((((....)))))... ( -25.00)
>DroSec_CAF1 21015 111 - 1
AUUGGAAUUGCAUAUAAAAUAUUUAGUAUAUGACCAUCAAGUACACUUCGAAGUAAUGCUCAGAUUGGUGAAAAAUACAAUCUUAAAUGCAAUCCAAUUACAUUUGUGGAU-----
.(((((.((((((............((((.((.....)).)))).................((((((.(....)...))))))...)))))))))))((((....))))..----- ( -20.70)
>DroSim_CAF1 20525 116 - 1
UUUGGAAUUGCAUAUAAAAUAUUUAGUAUAUGACCAUCAAGUACACUUAGAAGUAAUGCUCAGAUUGGUGAAAAAUACAAUCUGAAAUGCAAUCCAAUUACAUUUGUGGAUGAUAU
.(((((.((((((............((((.((.....)).))))...............((((((((.(....)...)))))))).)))))))))))...((((....)))).... ( -26.20)
>DroEre_CAF1 20239 116 - 1
AUUGGAAUUGCAUAUAAAAUAUUUAAUAUAUGACCAUCAAGUAUAUUUCGACGUAAUGCUCAGCUAGGUGAGAAAUGCAAUCUAAAAUGCUUUCCAAUUACAUUCUCGGAUGUCAA
(((((((..((((...........(((((((.........))))))).....(((...((((......))))...)))........)))).))))))).(((((....)))))... ( -20.00)
>consensus
AUUGGAAUUGCAUAUAAAAUAUUUAGUAUAUGACCAUCAAGUACACUUCGAAGUAAUGCUCAGAUUGGUGAAAAAUACAAUCUGAAAUGCAAUCCAAUUACAUUUGUGGAUGUCAU
.(((((.((((((............((((.((.....)).))))...............((((((((..........)))))))).)))))))))))................... (-15.68 = -17.30 +   1.62)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:07 2006