miRNA display CGI


Results 1 - 20 of 28 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
28070 5' -59.9 NC_005887.1 + 41657 0.66 0.383663
Target:  5'- -cGUCGG-CGAGCagcaUCGACucGGCGAg -3'
miRNA:   3'- uaCGGCCaGCUCG----AGCUGcuCCGCUa -5'
28070 5' -59.9 NC_005887.1 + 26777 0.66 0.374815
Target:  5'- -gGCCgGGUCGAGCgagaucgugcagUCGGCGAGcGCc-- -3'
miRNA:   3'- uaCGG-CCAGCUCG------------AGCUGCUC-CGcua -5'
28070 5' -59.9 NC_005887.1 + 40418 0.66 0.373938
Target:  5'- cGUGCCGGUCGAaCUCGAgcUGAucaaaucGGCGc- -3'
miRNA:   3'- -UACGGCCAGCUcGAGCU--GCU-------CCGCua -5'
28070 5' -59.9 NC_005887.1 + 7608 0.66 0.366106
Target:  5'- -cGCCGGUUGA--UCGAUGGgcGGCGAc -3'
miRNA:   3'- uaCGGCCAGCUcgAGCUGCU--CCGCUa -5'
28070 5' -59.9 NC_005887.1 + 40723 0.67 0.340007
Target:  5'- cGUGCCGuccUCGAGCUCGAaUGAcagguagugcguuGGCGGUu -3'
miRNA:   3'- -UACGGCc--AGCUCGAGCU-GCU-------------CCGCUA- -5'
28070 5' -59.9 NC_005887.1 + 34945 0.67 0.332687
Target:  5'- -cGCCGGcuUCGAaCUCGGCG-GGCGu- -3'
miRNA:   3'- uaCGGCC--AGCUcGAGCUGCuCCGCua -5'
28070 5' -59.9 NC_005887.1 + 33547 0.67 0.32469
Target:  5'- cUGCUucuGGUCGGGU---GCGAGGCGAUc -3'
miRNA:   3'- uACGG---CCAGCUCGagcUGCUCCGCUA- -5'
28070 5' -59.9 NC_005887.1 + 15319 0.67 0.316836
Target:  5'- cGUGCgCGGUCGcgcGCUCGcCGAGGUu-- -3'
miRNA:   3'- -UACG-GCCAGCu--CGAGCuGCUCCGcua -5'
28070 5' -59.9 NC_005887.1 + 32830 0.67 0.309127
Target:  5'- gGUGCCGGU-GAGCgUGACGAcGGUGu- -3'
miRNA:   3'- -UACGGCCAgCUCGaGCUGCU-CCGCua -5'
28070 5' -59.9 NC_005887.1 + 16973 0.67 0.301562
Target:  5'- aAUGUCGG-CGAGCUCGACuacGGCu-- -3'
miRNA:   3'- -UACGGCCaGCUCGAGCUGcu-CCGcua -5'
28070 5' -59.9 NC_005887.1 + 28471 0.67 0.29932
Target:  5'- uUGCCGGgcCGcuucAGCUCGACGAaguagacgcgcgccGGCGGg -3'
miRNA:   3'- uACGGCCa-GC----UCGAGCUGCU--------------CCGCUa -5'
28070 5' -59.9 NC_005887.1 + 17149 0.68 0.272731
Target:  5'- gGUGCUGGUCG-GCgaagaUCG-CGAGGCGu- -3'
miRNA:   3'- -UACGGCCAGCuCG-----AGCuGCUCCGCua -5'
28070 5' -59.9 NC_005887.1 + 27570 0.68 0.259164
Target:  5'- -aGCgGGUUGAucuGgUCGGCGAGGUGGUc -3'
miRNA:   3'- uaCGgCCAGCU---CgAGCUGCUCCGCUA- -5'
28070 5' -59.9 NC_005887.1 + 33717 0.68 0.259164
Target:  5'- -cGgCGGUCGAucuGCUCGAuCGcGGCGAg -3'
miRNA:   3'- uaCgGCCAGCU---CGAGCU-GCuCCGCUa -5'
28070 5' -59.9 NC_005887.1 + 22580 0.69 0.227659
Target:  5'- gAUGCUGGUCGGGCUCGcaauCGuGuGCGu- -3'
miRNA:   3'- -UACGGCCAGCUCGAGCu---GCuC-CGCua -5'
28070 5' -59.9 NC_005887.1 + 40789 0.69 0.227659
Target:  5'- -cGgCGGUCGAgGUUCGugGcGGCGAc -3'
miRNA:   3'- uaCgGCCAGCU-CGAGCugCuCCGCUa -5'
28070 5' -59.9 NC_005887.1 + 24905 0.69 0.227659
Target:  5'- -cGUCGGauUCGGgccguagcGCUCGACGAGcGCGAUg -3'
miRNA:   3'- uaCGGCC--AGCU--------CGAGCUGCUC-CGCUA- -5'
28070 5' -59.9 NC_005887.1 + 5893 0.69 0.227659
Target:  5'- -cGaCCGGaacgUCGAGCUCGGuCGccAGGCGAUg -3'
miRNA:   3'- uaC-GGCC----AGCUCGAGCU-GC--UCCGCUA- -5'
28070 5' -59.9 NC_005887.1 + 36983 0.7 0.204842
Target:  5'- -cGCgGGUCGAGCUCG-Cc-GGCGAg -3'
miRNA:   3'- uaCGgCCAGCUCGAGCuGcuCCGCUa -5'
28070 5' -59.9 NC_005887.1 + 11597 0.7 0.194194
Target:  5'- -cGCaCGGUCGAGCU-GAcCGAcGGCGAa -3'
miRNA:   3'- uaCG-GCCAGCUCGAgCU-GCU-CCGCUa -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.