Locus 8729

Sequence ID 3R_DroMel_CAF1
Location 23,312,864 – 23,312,956
Length 92
Max. P 0.660563
window14019

overview

Window 9

Location 23,312,864 – 23,312,956
Length 92
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.25
Mean single sequence MFE -18.00
Consensus MFE -12.23
Energy contribution -12.42
Covariance contribution 0.19
Combinations/Pair 1.08
Mean z-score -1.60
Structure conservation index 0.68
SVM decision value 0.27
SVM RNA-class probability 0.660563
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23312864 92 + 27905053
---------------GCACAUGUGUGGCCACCAUUUUGGUAUACAAAUUACAAAAUUAUACAAAUCAACGCCGCACAAUUGCUUCAAUUGAACC-CAG----------AC-CAG-AGGCU
---------------.....((((((((.(((.....))).....((((....))))............))))))))...(((((..(((....-)))----------..-..)-)))). ( -19.20)
>DroPse_CAF1 113301 103 + 1
CACAGACAC----ACACCCAUGUGUGGCCACAAU-UUGGUAUACAAAUUACGAAAUUAUACAAAUCAACGCCGAACAAUUGCUUCAAUUGAACC-CAG----------GCCCAG-ACGCA
.....((((----(......)))))((((..(((-((.(((.......))).)))))..................((((((...))))))....-..)----------)))...-..... ( -19.00)
>DroWil_CAF1 116955 107 + 1
GACAGACAUAGUAACACACAUGUGUGGCCACAAU-UUGGUAUACAAAUUACAAAAUUAUACAAAUCAACGCCACACAAUUGCUUCAAUUGAACC-CAG----------AC-CCGGUCCCA
....(((...((........((((((((....((-(((.((((.............)))))))))....)))))))).....(((....)))..-...----------))-...)))... ( -18.02)
>DroYak_CAF1 121441 103 + 1
---------------GCACAUGUGUGGCCACCAUUUUGGUAUACAAAUUACAAAAUUAUACAAAUCAACGCCGCACAAUUGCUUCAAUUGAACCCCAGACCAAACCAGAC-CAG-AGGCC
---------------.....((((((((.(((.....))).....((((....))))............))))))))...(((((..(((.....)))..(......)..-..)-)))). ( -17.90)
>DroAna_CAF1 104995 101 + 1
--AACCCAC----AUACACAUGUGUGGCCACAAUUUCGGUAUACAAAUUACAAAAUUAUACAAAUCAACGCCGCACAAUUGCUCCAAUUGAACC-CAG----------AC-CAG-AGACU
--.......----.......((((((((..........(((((.............)))))........))))))))....(((...(((....-)))----------..-..)-))... ( -14.89)
>DroPer_CAF1 113795 103 + 1
CACAGACAC----ACACACAUGUGUGGCCACAAU-UUGGUAUACAAAUUACGAAAUUAUACAAAUCAACGCCGAACAAUUGCUUCAAUUGAACC-CAG----------GCCCAG-ACGCA
.....((((----(......)))))((((..(((-((.(((.......))).)))))..................((((((...))))))....-..)----------)))...-..... ( -19.00)
>consensus
__CAGACAC____ACACACAUGUGUGGCCACAAU_UUGGUAUACAAAUUACAAAAUUAUACAAAUCAACGCCGCACAAUUGCUUCAAUUGAACC_CAG__________AC_CAG_ACGCA
....................((((((((..........(((((.............)))))........))))))))........................................... (-12.23 = -12.42 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:18:17 2006