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
19207 5' -55.7 NC_004684.1 + 65100 0.66 0.761296
Target:  5'- gUCGAGCagGGUGG-CGUCGuCCGcgucGAGg -3'
miRNA:   3'- aGGCUCGa-CCACCuGUAGC-GGUu---CUC- -5'
19207 5' -55.7 NC_004684.1 + 61090 0.66 0.761296
Target:  5'- -aCGGcCUGGUGGACcUgGaCCAGGAGc -3'
miRNA:   3'- agGCUcGACCACCUGuAgC-GGUUCUC- -5'
19207 5' -55.7 NC_004684.1 + 41264 0.66 0.761296
Target:  5'- -gCGAgguGCUGGUgcggucGGACAgCGCCGAGGu -3'
miRNA:   3'- agGCU---CGACCA------CCUGUaGCGGUUCUc -5'
19207 5' -55.7 NC_004684.1 + 19458 0.66 0.751144
Target:  5'- cCCGGGCggcGGUGGcccgcgcgACAUgCGCCccuGGAGc -3'
miRNA:   3'- aGGCUCGa--CCACC--------UGUA-GCGGu--UCUC- -5'
19207 5' -55.7 NC_004684.1 + 55967 0.66 0.740875
Target:  5'- cUCCGGGUUGGcgaagUGGGCG--GCCGGGuAGg -3'
miRNA:   3'- -AGGCUCGACC-----ACCUGUagCGGUUC-UC- -5'
19207 5' -55.7 NC_004684.1 + 4388 0.66 0.740875
Target:  5'- gCCGAGCUGGUcuAUcgCGCCAGc-- -3'
miRNA:   3'- aGGCUCGACCAccUGuaGCGGUUcuc -5'
19207 5' -55.7 NC_004684.1 + 25474 0.66 0.730499
Target:  5'- -gCGAcCUGGUGGAgcuCAUCaCCAAGGGc -3'
miRNA:   3'- agGCUcGACCACCU---GUAGcGGUUCUC- -5'
19207 5' -55.7 NC_004684.1 + 52116 0.66 0.70947
Target:  5'- gUCGGGCUGGUGGcCAccaggguguUgGCCAGGc- -3'
miRNA:   3'- aGGCUCGACCACCuGU---------AgCGGUUCuc -5'
19207 5' -55.7 NC_004684.1 + 30721 0.66 0.70947
Target:  5'- -aCGAuGCUGGcGGGCAucgcaUCGCCGuccGGGGa -3'
miRNA:   3'- agGCU-CGACCaCCUGU-----AGCGGU---UCUC- -5'
19207 5' -55.7 NC_004684.1 + 7377 0.67 0.698839
Target:  5'- aUCCGAgcuguGCUGGUGGAUG-CGCCc---- -3'
miRNA:   3'- -AGGCU-----CGACCACCUGUaGCGGuucuc -5'
19207 5' -55.7 NC_004684.1 + 64757 0.67 0.698839
Target:  5'- gCCGAGCUGGUGccaGGCGUCGgUcuGGc -3'
miRNA:   3'- aGGCUCGACCAC---CUGUAGCgGuuCUc -5'
19207 5' -55.7 NC_004684.1 + 42402 0.67 0.688146
Target:  5'- aCCGGGUUGGgcaGGAUGcCGCCcuGGGa -3'
miRNA:   3'- aGGCUCGACCa--CCUGUaGCGGuuCUC- -5'
19207 5' -55.7 NC_004684.1 + 29137 0.67 0.665532
Target:  5'- -gCGAGCUGGUGGugccgacGCAguUCGCCGc--- -3'
miRNA:   3'- agGCUCGACCACC-------UGU--AGCGGUucuc -5'
19207 5' -55.7 NC_004684.1 + 18109 0.68 0.644953
Target:  5'- aCCGAGCgcgaggccgGuGUGGACAcCGCCAAc-- -3'
miRNA:   3'- aGGCUCGa--------C-CACCUGUaGCGGUUcuc -5'
19207 5' -55.7 NC_004684.1 + 1691 0.68 0.612402
Target:  5'- gCCGAGCUGGcGcGCAUCGagcgCAAGAa -3'
miRNA:   3'- aGGCUCGACCaCcUGUAGCg---GUUCUc -5'
19207 5' -55.7 NC_004684.1 + 55265 0.69 0.58
Target:  5'- --gGAGCUGGUGGACcg-GCuCAAGAa -3'
miRNA:   3'- aggCUCGACCACCUGuagCG-GUUCUc -5'
19207 5' -55.7 NC_004684.1 + 28801 0.69 0.58
Target:  5'- uUCCGAGCUGGUGcucGACGgugUGaCCGGGcGg -3'
miRNA:   3'- -AGGCUCGACCAC---CUGUa--GC-GGUUCuC- -5'
19207 5' -55.7 NC_004684.1 + 36689 0.69 0.569272
Target:  5'- -gCGAGaCUGGgucggaguccgGGuACGUCGCCGGGGGu -3'
miRNA:   3'- agGCUC-GACCa----------CC-UGUAGCGGUUCUC- -5'
19207 5' -55.7 NC_004684.1 + 15545 0.69 0.569272
Target:  5'- aUCCGcGUUGGUGGACcggCGaCCAucGAGa -3'
miRNA:   3'- -AGGCuCGACCACCUGua-GC-GGUu-CUC- -5'
19207 5' -55.7 NC_004684.1 + 27943 0.69 0.537417
Target:  5'- gCCgGAGCUGGcaccgUGGuACGUCGCCGaacagcccgAGAGu -3'
miRNA:   3'- aGG-CUCGACC-----ACC-UGUAGCGGU---------UCUC- -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.