miRNA display CGI


Results 1 - 20 of 29 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
23190 3' -54.3 NC_005259.1 + 67655 0.72 0.493888
Target:  5'- --cGAGCgCAACGGUGccUACUGGGCCGc -3'
miRNA:   3'- ccaCUCG-GUUGCCAC--AUGGUCUGGCu -5'
23190 3' -54.3 NC_005259.1 + 66849 0.73 0.425457
Target:  5'- cGGUGcuGGCCAGCGGcGUcgagccGCCGGuuGCCGAg -3'
miRNA:   3'- -CCAC--UCGGUUGCCaCA------UGGUC--UGGCU- -5'
23190 3' -54.3 NC_005259.1 + 62446 0.66 0.825682
Target:  5'- cGGUGaAGCUGugcGCGGcGUGUCAGGCCGc -3'
miRNA:   3'- -CCAC-UCGGU---UGCCaCAUGGUCUGGCu -5'
23190 3' -54.3 NC_005259.1 + 58758 0.76 0.307189
Target:  5'- -cUGAGCaCGGCGGUGUGCUugaugagcGGGCCGGu -3'
miRNA:   3'- ccACUCG-GUUGCCACAUGG--------UCUGGCU- -5'
23190 3' -54.3 NC_005259.1 + 55786 0.78 0.227233
Target:  5'- --gGGGCCAGCGGUGgGCCucGACCGGc -3'
miRNA:   3'- ccaCUCGGUUGCCACaUGGu-CUGGCU- -5'
23190 3' -54.3 NC_005259.1 + 53861 0.72 0.514364
Target:  5'- aGGUGuacggGGCCAccuCGGUG-GCCgAGGCCGAg -3'
miRNA:   3'- -CCAC-----UCGGUu--GCCACaUGG-UCUGGCU- -5'
23190 3' -54.3 NC_005259.1 + 52774 0.74 0.406961
Target:  5'- aGGUGGGCCGAacgcacccCGGUGcUGCgCAccGACCGAg -3'
miRNA:   3'- -CCACUCGGUU--------GCCAC-AUG-GU--CUGGCU- -5'
23190 3' -54.3 NC_005259.1 + 51184 0.68 0.716329
Target:  5'- cGGUGAGCuCAGCgaggccaucgacgGGUGgGCCgAGGCCa- -3'
miRNA:   3'- -CCACUCG-GUUG-------------CCACaUGG-UCUGGcu -5'
23190 3' -54.3 NC_005259.1 + 43063 0.67 0.758665
Target:  5'- cGGUGAGCgCAcgcCGGUGc-CCGGcccGCCGAc -3'
miRNA:   3'- -CCACUCG-GUu--GCCACauGGUC---UGGCU- -5'
23190 3' -54.3 NC_005259.1 + 42189 0.7 0.631569
Target:  5'- cGGUuGGCCGguaccgGCGGUgGUGCCGGGgCGGu -3'
miRNA:   3'- -CCAcUCGGU------UGCCA-CAUGGUCUgGCU- -5'
23190 3' -54.3 NC_005259.1 + 37648 0.67 0.807372
Target:  5'- cGGUGuGaCCGACGaUGuUACCgAGACCGu -3'
miRNA:   3'- -CCACuC-GGUUGCcAC-AUGG-UCUGGCu -5'
23190 3' -54.3 NC_005259.1 + 35121 0.66 0.816621
Target:  5'- cGGUGAGCaCAcGCGG-GaACCacccgcgcgacGGGCCGAg -3'
miRNA:   3'- -CCACUCG-GU-UGCCaCaUGG-----------UCUGGCU- -5'
23190 3' -54.3 NC_005259.1 + 32176 0.67 0.807372
Target:  5'- cGGUGAGaCCcACGGuUGUGCaCGuGCUGAc -3'
miRNA:   3'- -CCACUC-GGuUGCC-ACAUG-GUcUGGCU- -5'
23190 3' -54.3 NC_005259.1 + 31331 0.69 0.664018
Target:  5'- cGGUGccGCCAcgguUGGUGUaugugcccgcGCCGGACUGAu -3'
miRNA:   3'- -CCACu-CGGUu---GCCACA----------UGGUCUGGCU- -5'
23190 3' -54.3 NC_005259.1 + 29993 0.7 0.599124
Target:  5'- -uUGAGC--GCGGUG-ACCAGACCcGAg -3'
miRNA:   3'- ccACUCGguUGCCACaUGGUCUGG-CU- -5'
23190 3' -54.3 NC_005259.1 + 28557 0.7 0.599124
Target:  5'- uGGUGuguGGCCugcCGGUGUgguugacguacuGCCGGGCCGc -3'
miRNA:   3'- -CCAC---UCGGuu-GCCACA------------UGGUCUGGCu -5'
23190 3' -54.3 NC_005259.1 + 27523 0.67 0.772676
Target:  5'- cGUGAcGCCGucgagcacgaccucgGCGGUGgcgGgCAGACCGu -3'
miRNA:   3'- cCACU-CGGU---------------UGCCACa--UgGUCUGGCu -5'
23190 3' -54.3 NC_005259.1 + 26508 0.69 0.696205
Target:  5'- --aGAGCCGugacccguccgGCGGUGUgGCCAGcaGCCGu -3'
miRNA:   3'- ccaCUCGGU-----------UGCCACA-UGGUC--UGGCu -5'
23190 3' -54.3 NC_005259.1 + 19441 0.66 0.825682
Target:  5'- --cGGGCUGuucguCGGUcGUgGCCAGACCGGc -3'
miRNA:   3'- ccaCUCGGUu----GCCA-CA-UGGUCUGGCU- -5'
23190 3' -54.3 NC_005259.1 + 19100 0.72 0.504081
Target:  5'- aGGUcGuGCCcgcguacCGGgGUGCCAGACCGAu -3'
miRNA:   3'- -CCA-CuCGGuu-----GCCaCAUGGUCUGGCU- -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.