miRNA display CGI


Results 1 - 18 of 18 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
30458 3' -53.9 NC_006548.1 + 35353 0.66 0.715833
Target:  5'- aGUGGUGACCCCGcggAACGCagguaccaGGCCGc -3'
miRNA:   3'- cCACUGUUGGGGCa--UUGCGaa------CCGGU- -5'
30458 3' -53.9 NC_006548.1 + 32959 0.66 0.704726
Target:  5'- -cUGGCGcGCCCgGUGcagcgGCGCU-GGCCGg -3'
miRNA:   3'- ccACUGU-UGGGgCAU-----UGCGAaCCGGU- -5'
30458 3' -53.9 NC_006548.1 + 37840 0.66 0.693542
Target:  5'- uGGUGGCuGCUCCG-AACGU--GGCUg -3'
miRNA:   3'- -CCACUGuUGGGGCaUUGCGaaCCGGu -5'
30458 3' -53.9 NC_006548.1 + 22820 0.66 0.69242
Target:  5'- --aGGCGACUCCGc--CGCUucgggacUGGCCAc -3'
miRNA:   3'- ccaCUGUUGGGGCauuGCGA-------ACCGGU- -5'
30458 3' -53.9 NC_006548.1 + 18722 0.66 0.682295
Target:  5'- --gGGCAGCCCUGcGGCGgUUGucGCCAu -3'
miRNA:   3'- ccaCUGUUGGGGCaUUGCgAAC--CGGU- -5'
30458 3' -53.9 NC_006548.1 + 29578 0.66 0.677782
Target:  5'- aGGUGACAGCagcagcuCCCGUcACcaugcuggugucuuGCUcaccuUGGCCAa -3'
miRNA:   3'- -CCACUGUUG-------GGGCAuUG--------------CGA-----ACCGGU- -5'
30458 3' -53.9 NC_006548.1 + 24837 0.66 0.670997
Target:  5'- cGGUGGCGACCUCGgaggcauacGAgGCUUugaacGGCUg -3'
miRNA:   3'- -CCACUGUUGGGGCa--------UUgCGAA-----CCGGu -5'
30458 3' -53.9 NC_006548.1 + 36559 0.66 0.670997
Target:  5'- aGGU--CAACCCCuuggacaagcGUGACGCUgacgcUGGUCAg -3'
miRNA:   3'- -CCAcuGUUGGGG----------CAUUGCGA-----ACCGGU- -5'
30458 3' -53.9 NC_006548.1 + 24607 0.68 0.568903
Target:  5'- --cGGCGACUUCGUGAaGCUggacGGCCAg -3'
miRNA:   3'- ccaCUGUUGGGGCAUUgCGAa---CCGGU- -5'
30458 3' -53.9 NC_006548.1 + 23906 0.68 0.568903
Target:  5'- cGGaUGACcugcGCCCCGUAcucggugacguACGCaaGGCCc -3'
miRNA:   3'- -CC-ACUGu---UGGGGCAU-----------UGCGaaCCGGu -5'
30458 3' -53.9 NC_006548.1 + 24696 0.69 0.53551
Target:  5'- cGGUGAgAACCaCCGaggaGACGaacUGGCCGu -3'
miRNA:   3'- -CCACUgUUGG-GGCa---UUGCga-ACCGGU- -5'
30458 3' -53.9 NC_006548.1 + 34954 0.69 0.513632
Target:  5'- cGGUGACGagcugGCCCU---GCGCcUGGUCAg -3'
miRNA:   3'- -CCACUGU-----UGGGGcauUGCGaACCGGU- -5'
30458 3' -53.9 NC_006548.1 + 21367 0.69 0.50283
Target:  5'- aGUGACGuuGCCgCCGUAcucgaccgGCGCcaGGCCGg -3'
miRNA:   3'- cCACUGU--UGG-GGCAU--------UGCGaaCCGGU- -5'
30458 3' -53.9 NC_006548.1 + 9012 0.7 0.440321
Target:  5'- aGGU-ACAACCgCGgggucgAGCGCcUGGCCAu -3'
miRNA:   3'- -CCAcUGUUGGgGCa-----UUGCGaACCGGU- -5'
30458 3' -53.9 NC_006548.1 + 33956 0.72 0.329908
Target:  5'- aGGUugcGCAGCUguaCCGUGGCGCUcGGCCGu -3'
miRNA:   3'- -CCAc--UGUUGG---GGCAUUGCGAaCCGGU- -5'
30458 3' -53.9 NC_006548.1 + 8615 0.73 0.290322
Target:  5'- gGGUGACGuUUCCGUggUGCcaGGCCAg -3'
miRNA:   3'- -CCACUGUuGGGGCAuuGCGaaCCGGU- -5'
30458 3' -53.9 NC_006548.1 + 26417 0.75 0.234885
Target:  5'- uGGUGGCggUUCCGUAGCuCU-GGCCAu -3'
miRNA:   3'- -CCACUGuuGGGGCAUUGcGAaCCGGU- -5'
30458 3' -53.9 NC_006548.1 + 23426 1.12 0.000584
Target:  5'- cGGUGACAACCCCGUAACGCUUGGCCAg -3'
miRNA:   3'- -CCACUGUUGGGGCAUUGCGAACCGGU- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.