Locus 5591

Sequence ID X_DroMel_CAF1
Location 14,434,267 – 14,434,420
Length 153
Max. P 0.984082
window9080 window9081 window9082

overview

Window 0

Location 14,434,267 – 14,434,387
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.08
Mean single sequence MFE -29.84
Consensus MFE -25.34
Energy contribution -26.22
Covariance contribution 0.88
Combinations/Pair 1.19
Mean z-score -1.28
Structure conservation index 0.85
SVM decision value 0.12
SVM RNA-class probability 0.591261
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14434267 120 + 22224390
GUUCUAAAUUAUUAGCUAAAUGCAUCCGAUCAUCAGUCGCAAACUAUUUUCGCCUGUGGACAAUAAGCGAGCAAGUGCCGCAAUUGCUGACCAGGCGGACUAAUAGAUGCGAAUUUAAAU
..............((.....)).............(((((..(((((((((((((.((.((((..(((.((....))))).))))))...))))))))..))))).)))))........ ( -31.10)
>DroSec_CAF1 13632 120 + 1
GUUCUAAAUUAUUAGCUAAAUGCAUCCGAUCAUCAGUUGCAAACUAUUUUCGCCUGUGGACAAUAAGCGAGCAAGUGCCGCAAUUGCUGACCAGGCGAACUAAUAGAUGCGAUUUUAAAU
..............((.....))...........(((((((..(((((((((((((.((.((((..(((.((....))))).))))))...))))))))..))))).)))))))...... ( -30.90)
>DroSim_CAF1 24881 120 + 1
GUUCUAAAUUAUUAGCUAAAUGCAUCCGAUCAUCAGUGGCAAACUAUUUUCGCCUGUGGACAAUAAGCGAGCAAGUGCCGCAAUUGCUGACCAGGCGAACUAAUAGAUGCGAAUUUAAAU
....((((((....((.....))...............(((..(((((((((((((.((.((((..(((.((....))))).))))))...))))))))..))))).))).))))))... ( -29.50)
>DroEre_CAF1 13386 116 + 1
GUUCUAAAUUAUUAGCUAAAUGCAUCCGAUCAUCAGUCGCAAGCUAUUUUCGCCUGUGGACAAUGAGCGAGCCAGUGCCGCAAUUGCUA----GUGCCUAUAGUAGAUGCGAAUUUAAAU
....((((((...........(((((((.((((...(((((.((.......)).)))))...)))).)).)...))))((((.((((((----.......)))))).))))))))))... ( -25.20)
>DroYak_CAF1 13637 120 + 1
GUUCUAAAUUAUUAGCUAAAUGCAUCCGAUCAUCAGUCGCAAACUAUUUUCGCUUGCGGACAAUAAGCGAGCGAGUGCCGCAACUGCUGAGCAGGCGGAAUAAUAGAUGCGAAUUUAAAU
..............((.....)).............(((((..((((((((((((((.........)))))))))..((((..((((...))))))))...))))).)))))........ ( -32.50)
>consensus
GUUCUAAAUUAUUAGCUAAAUGCAUCCGAUCAUCAGUCGCAAACUAUUUUCGCCUGUGGACAAUAAGCGAGCAAGUGCCGCAAUUGCUGACCAGGCGAACUAAUAGAUGCGAAUUUAAAU
..............((.....)).............(((((..((((((((((((((((.((((..(((.((....))))).)))))))..))))))))..))))).)))))........ (-25.34 = -26.22 +   0.88)

alignment

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secondary structure

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dotplot

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Window 1

Location 14,434,267 – 14,434,387
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.08
Mean single sequence MFE -33.70
Consensus MFE -27.12
Energy contribution -28.28
Covariance contribution 1.16
Combinations/Pair 1.08
Mean z-score -2.39
Structure conservation index 0.80
SVM decision value 1.96
SVM RNA-class probability 0.984082
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14434267 120 - 22224390
AUUUAAAUUCGCAUCUAUUAGUCCGCCUGGUCAGCAAUUGCGGCACUUGCUCGCUUAUUGUCCACAGGCGAAAAUAGUUUGCGACUGAUGAUCGGAUGCAUUUAGCUAAUAAUUUAGAAC
..........(((((((((((((((((((....(((((.(((((....)).)))..)))))...))))))......(....))))))))....))))))......((((....))))... ( -36.60)
>DroSec_CAF1 13632 120 - 1
AUUUAAAAUCGCAUCUAUUAGUUCGCCUGGUCAGCAAUUGCGGCACUUGCUCGCUUAUUGUCCACAGGCGAAAAUAGUUUGCAACUGAUGAUCGGAUGCAUUUAGCUAAUAAUUUAGAAC
.............((((....((((((((....(((((.(((((....)).)))..)))))...))))))))..(((((((((.(((.....))).))))...)))))......)))).. ( -35.80)
>DroSim_CAF1 24881 120 - 1
AUUUAAAUUCGCAUCUAUUAGUUCGCCUGGUCAGCAAUUGCGGCACUUGCUCGCUUAUUGUCCACAGGCGAAAAUAGUUUGCCACUGAUGAUCGGAUGCAUUUAGCUAAUAAUUUAGAAC
..........((((((((((.((((((((....(((((.(((((....)).)))..)))))...))))))))..((((.....)))).)))).))))))......((((....))))... ( -35.50)
>DroEre_CAF1 13386 116 - 1
AUUUAAAUUCGCAUCUACUAUAGGCAC----UAGCAAUUGCGGCACUGGCUCGCUCAUUGUCCACAGGCGAAAAUAGCUUGCGACUGAUGAUCGGAUGCAUUUAGCUAAUAAUUUAGAAC
..........((((((.......((..----..))....(((((....)).)))((((((((..(((((.......))))).))).)))))..))))))......((((....))))... ( -28.00)
>DroYak_CAF1 13637 120 - 1
AUUUAAAUUCGCAUCUAUUAUUCCGCCUGCUCAGCAGUUGCGGCACUCGCUCGCUUAUUGUCCGCAAGCGAAAAUAGUUUGCGACUGAUGAUCGGAUGCAUUUAGCUAAUAAUUUAGAAC
..........(((((((((((.((((((((...))))..))))((.((((..(((.(((.(((....).)).))))))..)))).))))))).))))))......((((....))))... ( -32.60)
>consensus
AUUUAAAUUCGCAUCUAUUAGUCCGCCUGGUCAGCAAUUGCGGCACUUGCUCGCUUAUUGUCCACAGGCGAAAAUAGUUUGCGACUGAUGAUCGGAUGCAUUUAGCUAAUAAUUUAGAAC
.((((((((..............((((((....(((((.(((((....)).)))..)))))...))))))....(((((((((.(((.....))).))))...)))))..)))))))).. (-27.12 = -28.28 +   1.16)

alignment

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secondary structure

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dotplot

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Window 2

Location 14,434,307 – 14,434,420
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.36
Mean single sequence MFE -31.12
Consensus MFE -22.52
Energy contribution -24.00
Covariance contribution 1.48
Combinations/Pair 1.18
Mean z-score -1.55
Structure conservation index 0.72
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14434307 113 + 22224390
AAACUAUUUUCGCCUGUGGACAAUAAGCGAGCAAGUGCCGCAAUUGCUGACCAGGCGGACUAAUAGAUGCGAAUUUAAAUGCGCUCUCAAGAUUCUAUAUCUGCAGCAUUC-------GU
...(((((((((((((.((.((((..(((.((....))))).))))))...))))))))..)))))..((((((........(((....((((.....))))..)))))))-------)) ( -30.20)
>DroSec_CAF1 13672 113 + 1
AAACUAUUUUCGCCUGUGGACAAUAAGCGAGCAAGUGCCGCAAUUGCUGACCAGGCGAACUAAUAGAUGCGAUUUUAAAUGUGCUCUCAAGAUUCUAUAUCUGCAGCAUUC-------GU
...(((((((((((((.((.((((..(((.((....))))).))))))...))))))))..)))))..((((........(((((....((((.....))))..)))))))-------)) ( -31.70)
>DroSim_CAF1 24921 113 + 1
AAACUAUUUUCGCCUGUGGACAAUAAGCGAGCAAGUGCCGCAAUUGCUGACCAGGCGAACUAAUAGAUGCGAAUUUAAAUGUGCUCUCAAGAUUCUAUAUCUGCAGCAUUC-------GU
...(((((((((((((.((.((((..(((.((....))))).))))))...))))))))..)))))..((((........(((((....((((.....))))..)))))))-------)) ( -31.70)
>DroEre_CAF1 13426 110 + 1
AAGCUAUUUUCGCCUGUGGACAAUGAGCGAGCCAGUGCCGCAAUUGCUA----GUGCCUAUAGUAGAUGCGAAUUUAAAUGUGC--UCAAGAUUCU----CUGCAGCAUUCUAACGUGCA
..((.......((.((..((.((((((((.((....))((((.((((((----.......)))))).))))..........)))--)))...)).)----)..))))...(....).)). ( -25.20)
>DroYak_CAF1 13677 113 + 1
AAACUAUUUUCGCUUGCGGACAAUAAGCGAGCGAGUGCCGCAACUGCUGAGCAGGCGGAAUAAUAGAUGCGAAUUUAAAUGUGCUCUCAAGAUUCUAUAUCUGCGGCAUUC-------CU
...........((((((.........))))))((((((((((.((((...))))..(((((...(((.(((.((....)).))))))....))))).....))))))))))-------.. ( -36.80)
>consensus
AAACUAUUUUCGCCUGUGGACAAUAAGCGAGCAAGUGCCGCAAUUGCUGACCAGGCGAACUAAUAGAUGCGAAUUUAAAUGUGCUCUCAAGAUUCUAUAUCUGCAGCAUUC_______GU
...((((((((((((((((.((((..(((.((....))))).)))))))..))))))))..)))))..............(((((....((((.....))))..)))))........... (-22.52 = -24.00 +   1.48)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:47 2006