Locus 576

Sequence ID 2R_DroMel_CAF1
Location 2,961,099 – 2,961,193
Length 94
Max. P 0.847419
window1053

overview

Window 3

Location 2,961,099 – 2,961,193
Length 94
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 75.45
Mean single sequence MFE -21.75
Consensus MFE -13.49
Energy contribution -13.07
Covariance contribution -0.41
Combinations/Pair 1.38
Mean z-score -1.60
Structure conservation index 0.62
SVM decision value 0.77
SVM RNA-class probability 0.847419
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2961099 94 + 20766785
AAUAAUA--UAUUUUUUAGCUGAGAUUUGGAUCGCAGACCUACCCCGCCCCGAUAGCAUUGUGACCAACUUAA---CGUGCGAUCCA-----GUCGACCAGCAA
.......--.........((((.((((.((((((((..........((.......))...((.....))....---..)))))))))-----)))...)))).. ( -23.30)
>DroSec_CAF1 4181 86 + 1
AAUUAUA--UAUUUUGUAGCUGACAUUUGGAUCGCAGACCUACC-----CCGAUAGCAUUGUGACCAACUUAA---CGUGCGAUCCGAUCCG--------GCAA
.......--.........((((....((((((((((...(((..-----....)))....((.....))....---..))))))))))..))--------)).. ( -19.50)
>DroSim_CAF1 2874 94 + 1
AAUUAUA--UAUUUUGUAGCUGAGAUUUGGAUCGCAGACCUACC-----CCGAUAGCAUUGUGACCAACUUAA---CGUGCGAUCCGAUCCGGUCGACCAGCAA
.......--.........((((....((((.((((((..(((..-----....)))..)))))))))).....---.((.(((((......))))))))))).. ( -20.90)
>DroEre_CAF1 2950 88 + 1
GAUUAUA--UAUUUUUUAGCUGAGAUUUGGAUCGUAGACCUAAC-----CCAAUAGCAUUCUGAC-AACAUAA---CGAGCGAUCCGAU-----CAACCAGCAA
.......--.........((((....((((((((((((.(((..-----....)))...)))...-.......---...))))))))).-----....)))).. ( -16.61)
>DroYak_CAF1 2895 89 + 1
UAUUAUA--UAUUUUCUAGCUGAGAUUUGGAUCGCAGACCUACC-----CCGGUAACAUUCAGACCAACCUAA---CGAGCGAUCCGAU-----CAACCAGCAA
.......--.........((((....(((((((((..(((....-----..)))...............(...---.).))))))))).-----....)))).. ( -22.90)
>DroAna_CAF1 2614 90 + 1
AAUUAUAUAUAUUUUUUAGCUGAGCUGGGGAGCACGGACAUCCG-----CCUA-AUCACUG---CCUGUUUAAAACCGAGUGUUCCCAG-----CAGCCAGCCA
..................((((.((((((((((((((....))(-----(...-......)---)..............))))))))..-----)))))))).. ( -27.30)
>consensus
AAUUAUA__UAUUUUUUAGCUGAGAUUUGGAUCGCAGACCUACC_____CCGAUAGCAUUGUGACCAACUUAA___CGAGCGAUCCGAU_____CAACCAGCAA
..................((((....(((((((((............................................)))))))))..........)))).. (-13.49 = -13.07 +  -0.41)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:01 2006