Locus 244

Sequence ID 2L_DroMel_CAF1
Location 716,028 – 716,187
Length 159
Max. P 0.998511
window391 window392 window393

overview

Window 1

Location 716,028 – 716,147
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.72
Mean single sequence MFE -33.86
Consensus MFE -28.26
Energy contribution -27.70
Covariance contribution -0.56
Combinations/Pair 1.14
Mean z-score -1.47
Structure conservation index 0.83
SVM decision value 0.46
SVM RNA-class probability 0.746018
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 716028 119 - 22407834
GUUCUUCAGAUCUAGCUAUUGCACGGGUUGAUUGGCAGUCGCGAUUAAAACGGCAAGAGUCAAAAAGUUGAAGAACGAGAAAGCGCACUUCAAAUGCCAUUUCAAUGGCGUCAAAUUGU-
(((((((((.....(((.((((.((..(((((((.......)))))))..)))))).))).......))))))))).................(((((((....)))))))........- ( -33.40)
>DroSec_CAF1 94802 119 - 1
GUUCUUCAGAUCUUGCUAUUGCACGGGUCGAUUGGCAGCCGCGAUUAAAACGGCAAGAGUCAAAAAGUUGAGGAACAAGAAAGCGCACUUCAAAUGCCACUUCAAUGGCGUCAAAUUGU-
((((((((((((((((....))).)))))..(((((.((((.........))))....))))).....)))))))).................((((((......))))))........- ( -32.60)
>DroSim_CAF1 99989 119 - 1
GUUCUUCAGAUCUUGCUAUUGCACGGGUUGAUUGGCAGCCGCGAUUAAAACGGCAAGAGUCAAAAAGCUGAAGAACGAGAAGGCGCACUUCAAAUGCCACUUCAAUGGCGUCAAAUUGU-
(((((((((...(((((.((((.((..(((((((.......)))))))..)))))).)).)))....)))))))))..((((.....))))..((((((......))))))........- ( -39.70)
>DroEre_CAF1 104650 120 - 1
GUUCUUCAGAUCUAGCUAUUGCACGGGUUGAUUGGCAGCUGCGAUUACAACAGCCAGAGUCAAGAAGUUGAAGAACGAGAAAGCGCACUUCAAAUGCCAUUUUAAUGGCGUCAAGUUGUU
(((((((((.(((.((....))...(((((.(((.............)))))))).......)))..))))))))).....((((.((((...(((((((....))))))).)))))))) ( -31.82)
>DroYak_CAF1 100685 118 - 1
GUUCUUCAGAUCUAGCUAUUGCACGGGUUGAUUGGCAGCCGCGAUUACAACGGCCAGAGUCAA-AAGUUGAAGAACGAGAAAGCGCACUUCAAAUGCCAUUUCAAUGGCGUCAAAUUGU-
(((((((((.(((.((..(((..(((((((.....))))).))....)))..)).))).....-...))))))))).................(((((((....)))))))........- ( -31.80)
>consensus
GUUCUUCAGAUCUAGCUAUUGCACGGGUUGAUUGGCAGCCGCGAUUAAAACGGCAAGAGUCAAAAAGUUGAAGAACGAGAAAGCGCACUUCAAAUGCCAUUUCAAUGGCGUCAAAUUGU_
(((((((((((((.((....))..)))))..(((((.((((.........))))....))))).....))))))))........(((.((...(((((((....)))))))..)).))). (-28.26 = -27.70 +  -0.56)

alignment

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secondary structure

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dotplot

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Window 2

Location 716,067 – 716,187
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.75
Mean single sequence MFE -28.81
Consensus MFE -23.81
Energy contribution -24.29
Covariance contribution 0.48
Combinations/Pair 1.03
Mean z-score -1.85
Structure conservation index 0.83
SVM decision value 1.25
SVM RNA-class probability 0.936163
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 716067 120 + 22407834
UCUCGUUCUUCAACUUUUUGACUCUUGCCGUUUUAAUCGCGACUGCCAAUCAACCCGUGCAAUAGCUAGAUCUGAAGAACUAAAUUCUUUUACUGUUCGUUUUCUCCACGAACUGUCGGA
....((((((((....((((.((.((((((..((.((.((....))..)).))..)).)))).)).))))..)))))))).......((..((.((((((.......)))))).))..)) ( -23.20)
>DroSec_CAF1 94841 120 + 1
UCUUGUUCCUCAACUUUUUGACUCUUGCCGUUUUAAUCGCGGCUGCCAAUCGACCCGUGCAAUAGCAAGAUCUGAAGAACUGAAUUCUUUUACUGUUCGUUUUCUCCACGAACUGUCGGA
(((((((.....((...((((.....(((((.......)))))......))))...)).....)))))))(((((((((.....))))......((((((.......))))))..))))) ( -24.50)
>DroSim_CAF1 100028 120 + 1
UCUCGUUCUUCAGCUUUUUGACUCUUGCCGUUUUAAUCGCGGCUGCCAAUCAACCCGUGCAAUAGCAAGAUCUGAAGAACUGAAUUCUUGUACUGUUCGUUUUCUCCACGAACUGUCGGA
....(((((((((..(((((.((...(((((.......)))))((((.........).)))..))))))).))))))))).......(((.((.((((((.......)))))).))))). ( -30.80)
>DroEre_CAF1 104690 120 + 1
UCUCGUUCUUCAACUUCUUGACUCUGGCUGUUGUAAUCGCAGCUGCCAAUCAACCCGUGCAAUAGCUAGAUCUGAAGAACUAAAUUCUUUUACUGUUCGUUUUCUUCACGAACUGUUGGA
....((((((((.......((.(((((((((((((...((....))...........))))))))))))))))))))))).....(((...((.((((((.......)))))).)).))) ( -32.85)
>DroYak_CAF1 100724 119 + 1
UCUCGUUCUUCAACUU-UUGACUCUGGCCGUUGUAAUCGCGGCUGCCAAUCAACCCGUGCAAUAGCUAGAUCUGAAGAACUAAAUUCUUUUACUGUUCGUUUUCUUCACGAACUGUUGGA
....((((((((....-..((.((((((..(((((..((.((.((.....)).)))))))))..)))))))))))))))).....(((...((.((((((.......)))))).)).))) ( -32.70)
>consensus
UCUCGUUCUUCAACUUUUUGACUCUUGCCGUUUUAAUCGCGGCUGCCAAUCAACCCGUGCAAUAGCUAGAUCUGAAGAACUAAAUUCUUUUACUGUUCGUUUUCUCCACGAACUGUCGGA
....((((((((.......((.((((((.(((.....(((((.(........).))))).))).)))))))))))))))).....(((...((.((((((.......)))))).)).))) (-23.81 = -24.29 +   0.48)

alignment

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secondary structure

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dotplot

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Window 3

Location 716,067 – 716,187
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.75
Mean single sequence MFE -33.34
Consensus MFE -29.50
Energy contribution -28.70
Covariance contribution -0.80
Combinations/Pair 1.13
Mean z-score -2.26
Structure conservation index 0.88
SVM decision value 3.13
SVM RNA-class probability 0.998511
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 716067 120 - 22407834
UCCGACAGUUCGUGGAGAAAACGAACAGUAAAAGAAUUUAGUUCUUCAGAUCUAGCUAUUGCACGGGUUGAUUGGCAGUCGCGAUUAAAACGGCAAGAGUCAAAAAGUUGAAGAACGAGA
.......((((((.......))))))..............(((((((((.....(((.((((.((..(((((((.......)))))))..)))))).))).......))))))))).... ( -33.80)
>DroSec_CAF1 94841 120 - 1
UCCGACAGUUCGUGGAGAAAACGAACAGUAAAAGAAUUCAGUUCUUCAGAUCUUGCUAUUGCACGGGUCGAUUGGCAGCCGCGAUUAAAACGGCAAGAGUCAAAAAGUUGAGGAACAAGA
.......((((((.......))))))..............((((((((((((((((....))).)))))..(((((.((((.........))))....))))).....)))))))).... ( -34.10)
>DroSim_CAF1 100028 120 - 1
UCCGACAGUUCGUGGAGAAAACGAACAGUACAAGAAUUCAGUUCUUCAGAUCUUGCUAUUGCACGGGUUGAUUGGCAGCCGCGAUUAAAACGGCAAGAGUCAAAAAGCUGAAGAACGAGA
.......((((((.......))))))..........(((.(((((((((...(((((.((((.((..(((((((.......)))))))..)))))).)).)))....)))))))))))). ( -37.40)
>DroEre_CAF1 104690 120 - 1
UCCAACAGUUCGUGAAGAAAACGAACAGUAAAAGAAUUUAGUUCUUCAGAUCUAGCUAUUGCACGGGUUGAUUGGCAGCUGCGAUUACAACAGCCAGAGUCAAGAAGUUGAAGAACGAGA
.......((((((.......))))))..............(((((((((.(((.((....))...(((((.(((.............)))))))).......)))..))))))))).... ( -29.22)
>DroYak_CAF1 100724 119 - 1
UCCAACAGUUCGUGAAGAAAACGAACAGUAAAAGAAUUUAGUUCUUCAGAUCUAGCUAUUGCACGGGUUGAUUGGCAGCCGCGAUUACAACGGCCAGAGUCAA-AAGUUGAAGAACGAGA
.......((((((.......))))))..............(((((((((.(((.((..(((..(((((((.....))))).))....)))..)).))).....-...))))))))).... ( -32.20)
>consensus
UCCGACAGUUCGUGGAGAAAACGAACAGUAAAAGAAUUUAGUUCUUCAGAUCUAGCUAUUGCACGGGUUGAUUGGCAGCCGCGAUUAAAACGGCAAGAGUCAAAAAGUUGAAGAACGAGA
.......((((((.......))))))..............(((((((((((((.((....))..)))))..(((((.((((.........))))....))))).....)))))))).... (-29.50 = -28.70 +  -0.80)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:04 2006