Locus 7672

Sequence ID X_DroMel_CAF1
Location 19,112,480 – 19,112,586
Length 106
Max. P 0.999232
window12591 window12592

overview

Window 1

Location 19,112,480 – 19,112,586
Length 106
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 75.60
Mean single sequence MFE -27.73
Consensus MFE -19.01
Energy contribution -19.13
Covariance contribution 0.12
Combinations/Pair 1.14
Mean z-score -2.54
Structure conservation index 0.69
SVM decision value 3.45
SVM RNA-class probability 0.999232
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19112480 106 + 22224390
--AUAUGAUUAUAUGCAAGCAUCGUAGA--UAUUGCUUGGCAAGUAGUAAA----CUGCUUGACAAGCAGCAAGUCGACUGCUUUAGAGAUUG-UUCAAGGUGACUUUAGAUAUA
--..(..(((...((.((((((((....--..(((((((.(((((((....----))))))).))))))).....))).)))))))..)))..-)..(((....)))........ ( -28.60)
>DroSec_CAF1 1127 97 + 1
--AUAUAAUAUGAU---------UUAGA--UAUUGCUUGGCAAGUAGUAAA----CUGCUUGGCAAGCAGCAAUUCGAGUGCUUUAGAGAUUG-UUCAAGGUGACUUUAGAAAUA
--..(((((....(---------(((((--...((((((.(((((((....----))))))).))))))(((.......))))))))).))))-)..(((....)))........ ( -26.60)
>DroYak_CAF1 1076 113 + 1
AUACAUAUAUAUUUGCAAGAAUUG-AAAUGCACUGCUUAGCAAGUAGUAAACUGACUGCUUGGCAAGCAGCAA-UCGAUUGCUUUAAAGAUUGCUUCAAGGUGAGUUUAGAAAUG
...(((.((.(((..(.....(((-((......(((((..((((((((......))))))))..)))))((((-((............))))))))))).)..))).))...))) ( -28.00)
>consensus
__AUAUAAUUAUAUGCAAG_AU_GUAGA__UAUUGCUUGGCAAGUAGUAAA____CUGCUUGGCAAGCAGCAA_UCGACUGCUUUAGAGAUUG_UUCAAGGUGACUUUAGAAAUA
................................(((((((.(((((((........))))))).)))))))...((((((((((((.((......)).))))).))))..)))... (-19.01 = -19.13 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 19,112,480 – 19,112,586
Length 106
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 75.60
Mean single sequence MFE -19.00
Consensus MFE -13.43
Energy contribution -13.43
Covariance contribution 0.00
Combinations/Pair 1.12
Mean z-score -1.79
Structure conservation index 0.71
SVM decision value 1.55
SVM RNA-class probability 0.963567
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19112480 106 - 22224390
UAUAUCUAAAGUCACCUUGAA-CAAUCUCUAAAGCAGUCGACUUGCUGCUUGUCAAGCAG----UUUACUACUUGCCAAGCAAUA--UCUACGAUGCUUGCAUAUAAUCAUAU--
.....................-.........(((((.(((...((.((((((.((((.((----....)).)))).)))))).))--....))))))))..............-- ( -20.30)
>DroSec_CAF1 1127 97 - 1
UAUUUCUAAAGUCACCUUGAA-CAAUCUCUAAAGCACUCGAAUUGCUGCUUGCCAAGCAG----UUUACUACUUGCCAAGCAAUA--UCUAA---------AUCAUAUUAUAU--
.................(((.-..........((((.......))))(((((.((((.((----....)).)))).)))))....--.....---------.)))........-- ( -15.40)
>DroYak_CAF1 1076 113 - 1
CAUUUCUAAACUCACCUUGAAGCAAUCUUUAAAGCAAUCGA-UUGCUGCUUGCCAAGCAGUCAGUUUACUACUUGCUAAGCAGUGCAUUU-CAAUUCUUGCAAAUAUAUAUGUAU
................(((((((((((............))-))))(((((((..(((((..((....))..)))))..)))).))).))-)))....((((........)))). ( -21.30)
>consensus
UAUUUCUAAAGUCACCUUGAA_CAAUCUCUAAAGCAAUCGA_UUGCUGCUUGCCAAGCAG____UUUACUACUUGCCAAGCAAUA__UCUAC_AU_CUUGCAUAUAAUUAUAU__
................................(((((.....)))))(((((.((((.((........)).)))).))))).................................. (-13.43 = -13.43 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:48 2006