Locus 7012

Sequence ID X_DroMel_CAF1
Location 17,559,155 – 17,559,250
Length 95
Max. P 0.999932
window11458 window11459

overview

Window 8

Location 17,559,155 – 17,559,250
Length 95
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 71.94
Mean single sequence MFE -20.82
Consensus MFE -12.70
Energy contribution -13.70
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -4.18
Structure conservation index 0.61
SVM decision value 4.45
SVM RNA-class probability 0.999900
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17559155 95 + 22224390
AACAAGUGCAAC----------AAAUUGCAGCAGCAACUGCAACAUCAACAUUCGUUGAUCCGCAUGCAGCAGCAACUGCAUUUGCUGAAUAUCAUACAAAAAUA
..((((((((..----------...((((.((.(((..(((...((((((....))))))..)))))).)).)))).)))))))).................... ( -24.50)
>DroSec_CAF1 11100 89 + 1
AACAAUUGCAAC----------AAAUUGC------AACUGCAACAUCAACAAUCGUUGAUCCACAUGCAGCUGCAACUGCACUUGCUGAAUAUCAUACGAAAAUA
..(((.((((..----------...((((------(.(((((..((((((....)))))).....))))).))))).)))).))).................... ( -21.00)
>DroSim_CAF1 10860 89 + 1
AACAACUGCAAC----------AAUUUGC------AACUGCAACAUCAACAAUCGUAGAUCCACAUGCAGCUGCAACUGCACUUGCUGANNNNNNNNNNNNNNNN
..(((.((((..----------...((((------(.(((((..(((.((....)).))).....))))).))))).)))).))).................... ( -16.90)
>DroEre_CAF1 15450 93 + 1
AACAACUGCAACAAACUGCAACAAACUGCAGCAGCAACUGCAACAUCAACAAUUGUUGAUC------------CACAUGCACUUGGUGAAUAUCAUACAAAAAUA
..(((.((((.....(((((......)))))..((....))...((((((....)))))).------------....)))).)))(((.....)))......... ( -18.90)
>DroYak_CAF1 4548 84 + 1
AACAAGUGCAAC----------AAACUGCAGCAGCAACUGCAACAUCAACAAUUGUUGAUA-----------GCAACUGCACUUGCUGAAUAUUAUACGAAAAUA
..((((((((..----------....(((((......)))))..((((((....)))))).-----------.....)))))))).................... ( -22.80)
>consensus
AACAACUGCAAC__________AAAUUGCAGCAGCAACUGCAACAUCAACAAUCGUUGAUCC_CAUGCAGC_GCAACUGCACUUGCUGAAUAUCAUACAAAAAUA
..(((.((((................(((((......)))))..((((((....)))))).................)))).))).................... (-12.70 = -13.70 +   1.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 17,559,155 – 17,559,250
Length 95
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 71.94
Mean single sequence MFE -28.78
Consensus MFE -16.48
Energy contribution -17.84
Covariance contribution 1.36
Combinations/Pair 1.05
Mean z-score -3.89
Structure conservation index 0.57
SVM decision value 4.63
SVM RNA-class probability 0.999932
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17559155 95 - 22224390
UAUUUUUGUAUGAUAUUCAGCAAAUGCAGUUGCUGCUGCAUGCGGAUCAACGAAUGUUGAUGUUGCAGUUGCUGCUGCAAUUU----------GUUGCACUUGUU
.................(((((((((((((.((.((((((...(.((((((....)))))).))))))).)).))))).))))----------))))........ ( -32.90)
>DroSec_CAF1 11100 89 - 1
UAUUUUCGUAUGAUAUUCAGCAAGUGCAGUUGCAGCUGCAUGUGGAUCAACGAUUGUUGAUGUUGCAGUU------GCAAUUU----------GUUGCAAUUGUU
..................(((((.((((((((((((((((...(.((((((....)))))).))))))))------)))))..----------..)))).))))) ( -30.30)
>DroSim_CAF1 10860 89 - 1
NNNNNNNNNNNNNNNNUCAGCAAGUGCAGUUGCAGCUGCAUGUGGAUCUACGAUUGUUGAUGUUGCAGUU------GCAAAUU----------GUUGCAGUUGUU
..................(((((.((((((((((((((((...(.(((.((....)).))).))))))))------))))...----------.))))).))))) ( -27.50)
>DroEre_CAF1 15450 93 - 1
UAUUUUUGUAUGAUAUUCACCAAGUGCAUGUG------------GAUCAACAAUUGUUGAUGUUGCAGUUGCUGCUGCAGUUUGUUGCAGUUUGUUGCAGUUGUU
....................(((.((((((..------------(((((((....)))))).)..))...((.(((((((....)))))))..)))))).))).. ( -24.50)
>DroYak_CAF1 4548 84 - 1
UAUUUUCGUAUAAUAUUCAGCAAGUGCAGUUGC-----------UAUCAACAAUUGUUGAUGUUGCAGUUGCUGCUGCAGUUU----------GUUGCACUUGUU
..................(((((((((((..((-----------(((((((....))))))).((((((....))))))))..----------.))))))))))) ( -28.70)
>consensus
UAUUUUCGUAUGAUAUUCAGCAAGUGCAGUUGC_GCUGCAUG_GGAUCAACGAUUGUUGAUGUUGCAGUUGCUGCUGCAAUUU__________GUUGCACUUGUU
..................(((((.((((.................((((((....)))))).(((((((....)))))))...............)))).))))) (-16.48 = -17.84 +   1.36)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:05 2006