Locus 846

Sequence ID X_DroMel_CAF1
Location 2,404,101 – 2,404,227
Length 126
Max. P 0.999072
window1365 window1366

overview

Window 5

Location 2,404,101 – 2,404,201
Length 100
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 71.52
Mean single sequence MFE -27.12
Consensus MFE -14.68
Energy contribution -15.99
Covariance contribution 1.31
Combinations/Pair 1.17
Mean z-score -2.78
Structure conservation index 0.54
SVM decision value 3.36
SVM RNA-class probability 0.999072
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2404101 100 - 22224390
ACAAUGGAAACCUUGGAAUAUCGCUCAUACGCCAUGUUGAACACAACUUGACCUGUUACACUGGGCGUAUGAGUUAUAUUUUUUGCAAACUUUACCCCAA--------------------
.(((.(....).)))((((((.(((((((((((......((((..........))))......))))))))))).))))))...................-------------------- ( -28.00)
>DroSec_CAF1 46941 97 - 1
ACAAAGGAAUCGUUGGAAUAUCGCUCAUACGCCAUGUUGAACACAACUUGACCUGUAACACUGGGCGUAUGGGUAAUAU---CUGCCAACUUUACUACAA--------------------
...........(((((.((((..((((((((((.(((((....(.....).....)))))...))))))))))..))))---...)))))..........-------------------- ( -29.70)
>DroEre_CAF1 49942 91 - 1
ACAAAGAAAUCCUUGGAAUAUCGCAUAUACGCGAUG-------AUACAUCACCAGCCACACUGGGCGUAUGAGUUAUAU---UUGCAAACAUUACUCUUAG-------------------
...(((((((..(((((((((.((.(((((((((((-------...)))).((((.....))))))))))).)).))))---)).)))..)))..))))..------------------- ( -22.80)
>DroYak_CAF1 49807 117 - 1
ACAAAGGAAUCCUUGGAAUAUCGCUUAUACGCCACGUUGAACAAAACUUCAUCAGCAAUACGGGGCGGAUGAGUUAUAU---CUGCAAGCUUUACUCCAAGAUAGCUGCACAAUAAGCUG
...........((((((.((..((((.....((.(((((((......))))........)))))(((((((.....)))---))))))))..)).)))))).(((((........))))) ( -28.00)
>consensus
ACAAAGGAAUCCUUGGAAUAUCGCUCAUACGCCAUGUUGAACAAAACUUCACCAGCAACACUGGGCGUAUGAGUUAUAU___CUGCAAACUUUACUCCAA____________________
.(((.(....).)))..((((.(((((((((((.(((((................)))))...))))))))))).))))......................................... (-14.68 = -15.99 +   1.31)

alignment

Postscript

secondary structure

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dotplot

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Window 6

Location 2,404,121 – 2,404,227
Length 106
Sequences 4
Columns 106
Reading direction reverse
Mean pairwise identity 77.73
Mean single sequence MFE -27.00
Consensus MFE -17.55
Energy contribution -18.86
Covariance contribution 1.31
Combinations/Pair 1.17
Mean z-score -1.65
Structure conservation index 0.65
SVM decision value 0.12
SVM RNA-class probability 0.594125
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2404121 106 - 22224390
CCUGAAUGGCAGCGUUCUUCUUUUGAACAAUGGAAACCUUGGAAUAUCGCUCAUACGCCAUGUUGAACACAACUUGACCUGUUACACUGGGCGUAUGAGUUAUAUU
...(((((....)))))..........(((.(....).))).(((((.(((((((((((......((((..........))))......))))))))))).))))) ( -29.70)
>DroSec_CAF1 46959 97 - 1
--------GCAGCGUUCUUCUUUCGAACAAAGGAAUCGUUGGAAUAUCGCUCAUACGCCAUGUUGAACACAACUUGACCUGUAACACUGGGCGUAUGGGUAAUAU-
--------.(((((...((((((......)))))).)))))..((((..((((((((((.(((((....(.....).....)))))...))))))))))..))))- ( -29.90)
>DroEre_CAF1 49961 98 - 1
ACUGAAUGACAGCGUUCUCUAUGUGAACAAAGAAAUCCUUGGAAUAUCGCAUAUACGCGAUG-------AUACAUCACCAGCCACACUGGGCGUAUGAGUUAUAU-
.....(((((.(((...(((.((....)).)))..((....))....))).(((((((((((-------...)))).((((.....))))))))))).)))))..- ( -26.40)
>DroYak_CAF1 49845 105 - 1
CCUGAAUGGCAGCGUUCUUGAUUUGAACAAAGGAAUCCUUGGAAUAUCGCUUAUACGCCACGUUGAACAAAACUUCAUCAGCAAUACGGGGCGGAUGAGUUAUAU-
((...........((((.......)))).((((...)))))).((((.((((((.((((.(((((((......))))........))).)))).)))))).))))- ( -22.00)
>consensus
CCUGAAUGGCAGCGUUCUUCAUUUGAACAAAGGAAUCCUUGGAAUAUCGCUCAUACGCCAUGUUGAACAAAACUUCACCAGCAACACUGGGCGUAUGAGUUAUAU_
.............((((.......))))...............((((.(((((((((((.(((((................)))))...))))))))))).)))). (-17.55 = -18.86 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:11 2006