miRNA display CGI


Results 1 - 20 of 32 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
30413 3' -58.5 NC_006548.1 + 29906 0.73 0.15674
Target:  5'- cGGCGCUGuGCGGCaCGCGAC-GGGCGGc -3'
miRNA:   3'- cUCGUGGU-CGCCG-GCGCUGuUCUGCU- -5'
30413 3' -58.5 NC_006548.1 + 33194 0.66 0.425004
Target:  5'- -cGUACCAGCGGCUGCucgauguccugGAUA--ACGAa -3'
miRNA:   3'- cuCGUGGUCGCCGGCG-----------CUGUucUGCU- -5'
30413 3' -58.5 NC_006548.1 + 26329 0.66 0.415463
Target:  5'- aGAGCGCguuCGGCGGCCGgGuCGAuGGCc- -3'
miRNA:   3'- -CUCGUG---GUCGCCGGCgCuGUU-CUGcu -5'
30413 3' -58.5 NC_006548.1 + 16261 0.66 0.415463
Target:  5'- -cGcCACCAGUggcgacGGCCGCGACAucacuCGAc -3'
miRNA:   3'- cuC-GUGGUCG------CCGGCGCUGUucu--GCU- -5'
30413 3' -58.5 NC_006548.1 + 14258 0.67 0.387643
Target:  5'- gGGGCGCCuGGCcgauGGCCGgaUGACccuGGACGAg -3'
miRNA:   3'- -CUCGUGG-UCG----CCGGC--GCUGu--UCUGCU- -5'
30413 3' -58.5 NC_006548.1 + 28888 0.67 0.384929
Target:  5'- cGGGcCACCggccaaaccgucgaGGCGGCCGgCGcCGAGAuCGAg -3'
miRNA:   3'- -CUC-GUGG--------------UCGCCGGC-GCuGUUCU-GCU- -5'
30413 3' -58.5 NC_006548.1 + 16406 0.68 0.34492
Target:  5'- uGGgGCCAGCGGCaauuggccguagucaGCcGCGAGugGAa -3'
miRNA:   3'- cUCgUGGUCGCCGg--------------CGcUGUUCugCU- -5'
30413 3' -58.5 NC_006548.1 + 2254 0.68 0.335806
Target:  5'- cAGCuCCGGCGccGCCGCG-CAGccGACGAa -3'
miRNA:   3'- cUCGuGGUCGC--CGGCGCuGUU--CUGCU- -5'
30413 3' -58.5 NC_006548.1 + 29604 0.68 0.31185
Target:  5'- gGAGCcgcaGCCAgucuuGCGGCCGCGAauGGGCu- -3'
miRNA:   3'- -CUCG----UGGU-----CGCCGGCGCUguUCUGcu -5'
30413 3' -58.5 NC_006548.1 + 35891 0.69 0.274853
Target:  5'- -cGCgGCCGGCGG-CGUGAUAAcGACGAc -3'
miRNA:   3'- cuCG-UGGUCGCCgGCGCUGUU-CUGCU- -5'
30413 3' -58.5 NC_006548.1 + 37544 0.72 0.170259
Target:  5'- cGGCGCCGGCGGuuG-GGCuGAGugGAc -3'
miRNA:   3'- cUCGUGGUCGCCggCgCUG-UUCugCU- -5'
30413 3' -58.5 NC_006548.1 + 17964 0.7 0.254389
Target:  5'- cAGC-CUGGCGGgCGCGAgugaucuaCGAGACGAa -3'
miRNA:   3'- cUCGuGGUCGCCgGCGCU--------GUUCUGCU- -5'
30413 3' -58.5 NC_006548.1 + 28542 0.7 0.254389
Target:  5'- cGGCGCCGGCcaGGUCGCGGCGcuacccGCGAc -3'
miRNA:   3'- cUCGUGGUCG--CCGGCGCUGUuc----UGCU- -5'
30413 3' -58.5 NC_006548.1 + 17096 0.69 0.261068
Target:  5'- aGGGCACCccCGGCCGUcugGGCAAcGAUGAu -3'
miRNA:   3'- -CUCGUGGucGCCGGCG---CUGUU-CUGCU- -5'
30413 3' -58.5 NC_006548.1 + 35486 0.69 0.268579
Target:  5'- cGAGUGCCAGaccaaccgcgacuggGGCCGUGGCAAGgaucGCGGc -3'
miRNA:   3'- -CUCGUGGUCg--------------CCGGCGCUGUUC----UGCU- -5'
30413 3' -58.5 NC_006548.1 + 29654 0.69 0.274853
Target:  5'- -cGCuGCCAGCGGUgccggUGCGGCAGGuGCGGc -3'
miRNA:   3'- cuCG-UGGUCGCCG-----GCGCUGUUC-UGCU- -5'
30413 3' -58.5 NC_006548.1 + 17444 0.67 0.39678
Target:  5'- cGGCGCC-GUGGCCuCGGCcuGGGugGAc -3'
miRNA:   3'- cUCGUGGuCGCCGGcGCUG--UUCugCU- -5'
30413 3' -58.5 NC_006548.1 + 18792 0.73 0.140227
Target:  5'- cGAGCAgCA-CGGCCuGCGGCuGGGCGAg -3'
miRNA:   3'- -CUCGUgGUcGCCGG-CGCUGuUCUGCU- -5'
30413 3' -58.5 NC_006548.1 + 20031 0.72 0.174992
Target:  5'- uGAGCGCCGGaucguaGGUCGCGGCGaucuccugcaGGAUGGc -3'
miRNA:   3'- -CUCGUGGUCg-----CCGGCGCUGU----------UCUGCU- -5'
30413 3' -58.5 NC_006548.1 + 11733 0.71 0.195113
Target:  5'- cGGCGCCGG-GGuuGCGGCGAugacauGACGAu -3'
miRNA:   3'- cUCGUGGUCgCCggCGCUGUU------CUGCU- -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.