Locus 5861

Sequence ID 3L_DroMel_CAF1
Location 15,806,559 – 15,806,672
Length 113
Max. P 0.984069
window9344 window9345

overview

Window 4

Location 15,806,559 – 15,806,672
Length 113
Sequences 3
Columns 114
Reading direction forward
Mean pairwise identity 75.61
Mean single sequence MFE -18.85
Consensus MFE -10.25
Energy contribution -10.70
Covariance contribution 0.45
Combinations/Pair 1.07
Mean z-score -2.74
Structure conservation index 0.54
SVM decision value 1.96
SVM RNA-class probability 0.984069
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15806559 113 + 23771897
CAUGU-GCACCUAUAUGGUACAUAUAGUACACAUACAUAUGUAUAUGUAUAGAGUUGCACCUCACCAUAGACACACGACGCAAACCCAUCUAGAUUCCUAGAAAAUUGCCUACC
...((-(((((((((((((((((((.(((....))))))))))).))))))).).)))))...................((((.....(((((....)))))...))))..... ( -25.50)
>DroAna_CAF1 3388 98 + 1
UAUAUUCCACACAUAUGGCAUAUAA---A-AUAUAU------AC----UCGUUGUUGCACCUCACCGCAGUCACA--ACGCAACCCCAUCUAGAUUCCUAGAAAAUUGCCUACC
................((((.....---.-......------..----.(((((((((........)))...)))--)))........(((((....)))))....)))).... ( -17.60)
>DroYak_CAF1 3519 98 + 1
CAUGU-GCACCUAUAUGGCACAUAU---ACACAUAU------------AUCUAGUUGCACCUCACCAUAGACACACGACGCAACCCCAACUAGAUUCCUAGAAAAUUGCCUACC
.((((-((.........))))))..---........------------(((((((((.............................)))))))))................... ( -13.45)
>consensus
CAUGU_GCACCUAUAUGGCACAUAU___ACACAUAU______A_____AUAUAGUUGCACCUCACCAUAGACACACGACGCAACCCCAUCUAGAUUCCUAGAAAAUUGCCUACC
................((((.................................(((((.....................)))))....(((((....)))))....)))).... (-10.25 = -10.70 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 15,806,559 – 15,806,672
Length 113
Sequences 3
Columns 114
Reading direction reverse
Mean pairwise identity 75.61
Mean single sequence MFE -30.50
Consensus MFE -16.45
Energy contribution -16.90
Covariance contribution 0.45
Combinations/Pair 1.05
Mean z-score -2.48
Structure conservation index 0.54
SVM decision value 1.31
SVM RNA-class probability 0.940368
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15806559 113 - 23771897
GGUAGGCAAUUUUCUAGGAAUCUAGAUGGGUUUGCGUCGUGUGUCUAUGGUGAGGUGCAACUCUAUACAUAUACAUAUGUAUGUGUACUAUAUGUACCAUAUAGGUGC-ACAUG
.((((((.....(((((....)))))...))))))...(((..((((((....((((((......(((((((((....))))))))).....)))))).))))))..)-))... ( -39.40)
>DroAna_CAF1 3388 98 - 1
GGUAGGCAAUUUUCUAGGAAUCUAGAUGGGGUUGCGU--UGUGACUGCGGUGAGGUGCAACAACGA----GU------AUAUAU-U---UUAUAUGCCAUAUGUGUGGAAUAUA
.....((((((((((((....)))))..)))))))((--(((...((((......)))))))))..----..------.(((((-(---((((((.......)))))))))))) ( -24.10)
>DroYak_CAF1 3519 98 - 1
GGUAGGCAAUUUUCUAGGAAUCUAGUUGGGGUUGCGUCGUGUGUCUAUGGUGAGGUGCAACUAGAU------------AUAUGUGU---AUAUGUGCCAUAUAGGUGC-ACAUG
.....(((((((.((((....))))...)))))))...(((..((((((....((..((..((.((------------....)).)---)..))..)).))))))..)-))... ( -28.00)
>consensus
GGUAGGCAAUUUUCUAGGAAUCUAGAUGGGGUUGCGUCGUGUGUCUAUGGUGAGGUGCAACUACAU_____U______AUAUGUGU___AUAUGUGCCAUAUAGGUGC_ACAUG
((((.((((((((((((....)))))..)))))))....(((..((......))..)))...................................))))................ (-16.45 = -16.90 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:19 2006