Locus 8654

Sequence ID X_DroMel_CAF1
Location 21,873,357 – 21,873,505
Length 148
Max. P 0.988667
window14224 window14225

overview

Window 4

Location 21,873,357 – 21,873,467
Length 110
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 82.76
Mean single sequence MFE -34.39
Consensus MFE -19.46
Energy contribution -19.80
Covariance contribution 0.34
Combinations/Pair 1.08
Mean z-score -2.59
Structure conservation index 0.57
SVM decision value 0.09
SVM RNA-class probability 0.577423
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21873357 110 + 22224390
CCCAUAAGUAUGCUUACUUAUGUUCCCUAAGUUG-GGGCAUAAUGCUGUUGGUACUCCAUA--------GCAAUGGAUUCCCCAAUGCAGUGGGAAAAUAAAACGGCCACCUUCAGUCA
..((((((((....))))))))(((((...((((-(((.((..((((((.((....)))))--------)))....)).))))))).....)))))........(((........))). ( -35.50)
>DroSec_CAF1 64371 110 + 1
CCCAUAAGUAUGCUUACUUAUGUUCCCUAAGUUG-GGGCAUAAUGCUGUUGGUACUCCACA--------GCAAUGGAUUCCCCAAUGCAUUGCGAAAAUAUGACGUUCACCGUGAGUCA
..((((((((....))))))))(((.(...((((-(((.((..((((((.((....)))))--------)))....)).))))))).....).)))....((((...........)))) ( -31.00)
>DroEre_CAF1 36441 119 + 1
CCCAUAAGUAUGCUUACUUAAAUGCCCUAGGUUCAGGGCAUCAUGCUGUCGGUACUCCGGAACUCCGCUGCAAUGGAUUCCCCAAUGCAUUGCGAAAAUAUUACGGUCAUCUGCAGCCA
....((((((....)))))).(((((((......)))))))...((((.(((....(((......(((((((.(((.....))).))))..))).........)))....))))))).. ( -36.66)
>consensus
CCCAUAAGUAUGCUUACUUAUGUUCCCUAAGUUG_GGGCAUAAUGCUGUUGGUACUCCACA________GCAAUGGAUUCCCCAAUGCAUUGCGAAAAUAUAACGGUCACCUUCAGUCA
..((((((((....))))))))..(((........)))......((((((((....)))..........(((.(((.....))).)))..............)))))............ (-19.46 = -19.80 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 21,873,395 – 21,873,505
Length 110
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 72.86
Mean single sequence MFE -28.69
Consensus MFE -16.17
Energy contribution -16.40
Covariance contribution 0.23
Combinations/Pair 1.24
Mean z-score -2.30
Structure conservation index 0.56
SVM decision value 2.13
SVM RNA-class probability 0.988667
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21873395 110 + 22224390
AUAAUGCUGUUGGUACUCCAUA--------GCAAUGGAUUCCCCAAUGCAGUGGGAAAAUAAAACGGCCACCUUCAGUCA--UUUGGCUUGAAAUUAAAUGACCGACAGAAUGAAAACAC
......((((((((..(((((.--------(((.(((.....))).))).)))))..........(((((..........--..)))))............))))))))........... ( -28.90)
>DroSec_CAF1 64409 112 + 1
AUAAUGCUGUUGGUACUCCACA--------GCAAUGGAUUCCCCAAUGCAUUGCGAAAAUAUGACGUUCACCGUGAGUCAGCUUUAGCUUGAAAUUAAAAGACCGACAGAAUAAAAAUAU
......((((((((.(((.((.--------((((((.(((....))).))))))(((.........)))...)))))(((((....)).))).........))))))))........... ( -26.40)
>DroEre_CAF1 36480 107 + 1
AUCAUGCUGUCGGUACUCCGGAACUCCGCUGCAAUGGAUUCCCCAAUGCAUUGCGAAAAUAUUACGGUCAUCUGCAGCCA--U-----------UUAAAAGACCUUUGGAGUAAAAGCAU
...(((((.....(((((((((....(((((((.(((.....))).))))..)))..........((((...........--.-----------......)))))))))))))..))))) ( -30.77)
>consensus
AUAAUGCUGUUGGUACUCCACA________GCAAUGGAUUCCCCAAUGCAUUGCGAAAAUAUAACGGUCACCUUCAGUCA__UUU_GCUUGAAAUUAAAAGACCGACAGAAUAAAAACAU
......((((((((................(((.(((.....))).)))................(((........)))......................))))))))........... (-16.17 = -16.40 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:31 2006