Locus 10047

Sequence ID 3R_DroMel_CAF1
Location 26,921,112 – 26,921,210
Length 98
Max. P 0.984381
window16001 window16002

overview

Window 1

Location 26,921,112 – 26,921,210
Length 98
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 90.71
Mean single sequence MFE -25.78
Consensus MFE -22.26
Energy contribution -21.22
Covariance contribution -1.04
Combinations/Pair 1.24
Mean z-score -1.96
Structure conservation index 0.86
SVM decision value 1.97
SVM RNA-class probability 0.984381
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26921112 98 + 27905053
UUUCUUCUUGGCAACAUCUGCUGGCAGUAGUAAAUCAAAUGCCAGAAGCCCCUUAAGUAACUUUAUAUGCCACAGCUGUUUCGUAAAGUAAACAGCAG
........(((((.......((((((.............))))))..((.......)).........)))))..((((((((.....).))))))).. ( -22.52)
>DroSec_CAF1 23847 95 + 1
---CUUCUUGGCAACAGCUGCUGGCAGUAGUAAAGCAAAUGCCAGAAGCCCCUUAAGUAACUUUAUAUGCCACAGCUGUUUCGUAGAGUAAACAGCAG
---.....(((((...(((.((((((...(.....)...)))))).))).......(((....))).)))))..((((((((.....).))))))).. ( -27.10)
>DroSim_CAF1 23020 98 + 1
UUUCUUCUUGGCAACAGCUGCUGGCAGUAGUAAAUCAAAUGCCAGAAGCCCCUUAAGUAACUUUAUGUGCCAUAGCUGUUUCGUAGAGUAAACAGCAG
........(((((.(((((.((((((.............)))))).)))....((((....)))))))))))..((((((((.....).))))))).. ( -26.92)
>DroEre_CAF1 22130 98 + 1
UUUCUUCUGGGCAACAGCUGCUGGCAGUAGUAAAUCAAAUGCAAGAAGCCCUUUAAGUAAGUUUAUAUGCCACAGCUGUUCCCUUAAGCAAACAGCAG
...(((..(((.((((((((.(((((...((((((.......(((.....))).......)))))).))))))))))))))))..))).......... ( -29.54)
>DroYak_CAF1 22796 98 + 1
UUUCUUCUGGGCAACAGCUGCUGGCAGUAGUAAAUCAAAUGCUAGAAGCCCUUUAAGUAACUCUAUAUGCCACAGCUGCUCUCUAAAGCAAACAGCAG
...(((..(((...((((((.(((((((((.........((((.(((....))).))))...)))).)))))))))))..)))..))).......... ( -22.80)
>consensus
UUUCUUCUUGGCAACAGCUGCUGGCAGUAGUAAAUCAAAUGCCAGAAGCCCCUUAAGUAACUUUAUAUGCCACAGCUGUUUCGUAAAGUAAACAGCAG
...(((..(((.((((((((.(((((((((..........((.....)).............)))).))))))))))))))))..))).......... (-22.26 = -21.22 +  -1.04)

alignment

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secondary structure

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dotplot

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Window 2

Location 26,921,112 – 26,921,210
Length 98
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 90.71
Mean single sequence MFE -26.85
Consensus MFE -22.50
Energy contribution -22.30
Covariance contribution -0.20
Combinations/Pair 1.16
Mean z-score -1.60
Structure conservation index 0.84
SVM decision value 0.80
SVM RNA-class probability 0.854251
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26921112 98 - 27905053
CUGCUGUUUACUUUACGAAACAGCUGUGGCAUAUAAAGUUACUUAAGGGGCUUCUGGCAUUUGAUUUACUACUGCCAGCAGAUGUUGCCAAGAAGAAA
..(((((((........)))))))..((((((((.((((..(....)..))))((((((.............))))))...))).)))))........ ( -24.32)
>DroSec_CAF1 23847 95 - 1
CUGCUGUUUACUCUACGAAACAGCUGUGGCAUAUAAAGUUACUUAAGGGGCUUCUGGCAUUUGCUUUACUACUGCCAGCAGCUGUUGCCAAGAAG---
..(((((((........)))))))..((((...(((......)))((.((((.((((((.............)))))).)))).)))))).....--- ( -26.62)
>DroSim_CAF1 23020 98 - 1
CUGCUGUUUACUCUACGAAACAGCUAUGGCACAUAAAGUUACUUAAGGGGCUUCUGGCAUUUGAUUUACUACUGCCAGCAGCUGUUGCCAAGAAGAAA
..(((((((........)))))))..((((((.....))......((.((((.((((((.............)))))).)))).))))))........ ( -26.82)
>DroEre_CAF1 22130 98 - 1
CUGCUGUUUGCUUAAGGGAACAGCUGUGGCAUAUAAACUUACUUAAAGGGCUUCUUGCAUUUGAUUUACUACUGCCAGCAGCUGUUGCCCAGAAGAAA
..........(((..((((((((((((((((......(((.....))).((.....))..............))))).)))))))).)))..)))... ( -29.50)
>DroYak_CAF1 22796 98 - 1
CUGCUGUUUGCUUUAGAGAGCAGCUGUGGCAUAUAGAGUUACUUAAAGGGCUUCUAGCAUUUGAUUUACUACUGCCAGCAGCUGUUGCCCAGAAGAAA
..........((((.(.((((((((((((((.....(((...(((((..((.....)).)))))...)))..))))).)))))))).).).))))... ( -27.00)
>consensus
CUGCUGUUUACUUUACGAAACAGCUGUGGCAUAUAAAGUUACUUAAGGGGCUUCUGGCAUUUGAUUUACUACUGCCAGCAGCUGUUGCCAAGAAGAAA
..(((((((........)))))))...(((...(((......)))((.((((.((((((.............)))))).)))).)))))......... (-22.50 = -22.30 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:47:41 2006