Locus 690

Sequence ID 2R_DroMel_CAF1
Location 3,403,338 – 3,403,435
Length 97
Max. P 0.844790
window1213 window1214

overview

Window 3

Location 3,403,338 – 3,403,435
Length 97
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 85.36
Mean single sequence MFE -17.45
Consensus MFE -13.32
Energy contribution -13.64
Covariance contribution 0.32
Combinations/Pair 1.28
Mean z-score -1.97
Structure conservation index 0.76
SVM decision value 0.76
SVM RNA-class probability 0.844790
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3403338 97 + 20766785
UCUUAAUUGCAAAGUAUUCGGCUCAGCAAACACUUAAUUUCAGCAAUUUCAAUGGCAAAUAAAUUGAAAUUGCGCUGCAUUUAUUUACAAAUUACAU
...(((.((((((((.....((...))....)))).......(((((((((((.........)))))))))))..)))).))).............. ( -18.30)
>DroSec_CAF1 33699 97 + 1
UCUUAAUUGCAAAGCAUUCGGCUCAGCAAACACUUAAUUUCAGCAAUUUCAAUGGCAAAUAAAUUGAAAUUGCGCUGCAUUUAUUUACAAAUUACAU
......((((..(((.....)))..)))).............(((((((((((.........)))))))))))........................ ( -19.40)
>DroEre_CAF1 34064 97 + 1
UCUUAAUUGCAAAGUAUUCGGCUCAGCAAACACUUAAUUUCAGCAAUUUCAAUGGCAAAUAAAUUGAAAUUGCGGUGCACUUAUUUACAAAUUACAU
......((((..(((.....)))..)))).((((........(((((((((((.........))))))))))))))).................... ( -17.90)
>DroYak_CAF1 37118 97 + 1
UCUUAAUUGCAAAGUAUUUGGCUCAGCAAACACUUAAUUUCAGCAAUUUCAAUGCCAAAUAAAUUGAAAUUGCGGUGCAUUUAUUUACAAAUUACAU
...(((.((((((((.((((......)))).)))).......(((((((((((.........)))))))))))..)))).))).............. ( -21.40)
>DroAna_CAF1 34083 97 + 1
UCCUAAUUGCAAAAUAUUCACCCCAAAGAGCUGUAAAAUGUAACCACUUUAAUGGCAAAUAAAUUGAAUUGUUGCCUCAUUCAUUUGAAAUUGACAU
...(((((((((...(((((.........(((((.(((.((....))))).)))))........)))))..)))).(((......)))))))).... ( -10.23)
>consensus
UCUUAAUUGCAAAGUAUUCGGCUCAGCAAACACUUAAUUUCAGCAAUUUCAAUGGCAAAUAAAUUGAAAUUGCGCUGCAUUUAUUUACAAAUUACAU
......((((..(((.....)))..)))).............(((((((((((.........)))))))))))........................ (-13.32 = -13.64 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 3,403,338 – 3,403,435
Length 97
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 85.36
Mean single sequence MFE -21.18
Consensus MFE -15.72
Energy contribution -16.12
Covariance contribution 0.40
Combinations/Pair 1.26
Mean z-score -1.83
Structure conservation index 0.74
SVM decision value 0.43
SVM RNA-class probability 0.733880
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3403338 97 - 20766785
AUGUAAUUUGUAAAUAAAUGCAGCGCAAUUUCAAUUUAUUUGCCAUUGAAAUUGCUGAAAUUAAGUGUUUGCUGAGCCGAAUACUUUGCAAUUAAGA
..............(((.((((..(((((((((((.........))))))))))).......(((((((((......))))))))))))).)))... ( -21.90)
>DroSec_CAF1 33699 97 - 1
AUGUAAUUUGUAAAUAAAUGCAGCGCAAUUUCAAUUUAUUUGCCAUUGAAAUUGCUGAAAUUAAGUGUUUGCUGAGCCGAAUGCUUUGCAAUUAAGA
..............(((.((((..(((((((((((.........))))))))))).......(((((((((......))))))))))))).)))... ( -20.90)
>DroEre_CAF1 34064 97 - 1
AUGUAAUUUGUAAAUAAGUGCACCGCAAUUUCAAUUUAUUUGCCAUUGAAAUUGCUGAAAUUAAGUGUUUGCUGAGCCGAAUACUUUGCAAUUAAGA
..............(((.((((..(((((((((((.........))))))))))).......(((((((((......))))))))))))).)))... ( -21.60)
>DroYak_CAF1 37118 97 - 1
AUGUAAUUUGUAAAUAAAUGCACCGCAAUUUCAAUUUAUUUGGCAUUGAAAUUGCUGAAAUUAAGUGUUUGCUGAGCCAAAUACUUUGCAAUUAAGA
..............(((.((((..(((((((((((.........))))))))))).......(((((((((......))))))))))))).)))... ( -21.90)
>DroAna_CAF1 34083 97 - 1
AUGUCAAUUUCAAAUGAAUGAGGCAACAAUUCAAUUUAUUUGCCAUUAAAGUGGUUACAUUUUACAGCUCUUUGGGGUGAAUAUUUUGCAAUUAGGA
.((((...(((....)))...))))..(((((((..((((..((.((((((.((((.........))))))))))))..))))..))).)))).... ( -19.60)
>consensus
AUGUAAUUUGUAAAUAAAUGCAGCGCAAUUUCAAUUUAUUUGCCAUUGAAAUUGCUGAAAUUAAGUGUUUGCUGAGCCGAAUACUUUGCAAUUAAGA
..............(((.((((..(((((((((((.........))))))))))).......(((((((((......))))))))))))).)))... (-15.72 = -16.12 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:41 2006