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
29918 3' -55.5 NC_006273.1 + 47971 0.66 0.969977
Target:  5'- -aGAccGCCGCGCGG-GUucaUCGUCUUCg -3'
miRNA:   3'- agCU--CGGUGUGCCuCAuc-AGCAGGAG- -5'
29918 3' -55.5 NC_006273.1 + 233401 0.66 0.969977
Target:  5'- cUCGAGCUugggcuucuccCGCGGA-UGGUCGUUCUa -3'
miRNA:   3'- -AGCUCGGu----------GUGCCUcAUCAGCAGGAg -5'
29918 3' -55.5 NC_006273.1 + 187888 0.66 0.969691
Target:  5'- aUCGAGCUgggccucGCGCGGcucgccGUCGUUCUCc -3'
miRNA:   3'- -AGCUCGG-------UGUGCCucau--CAGCAGGAG- -5'
29918 3' -55.5 NC_006273.1 + 150027 0.66 0.968235
Target:  5'- aCG-GCUugcguggaggucuggGCGCGaGAGUuauuGUCGUCCUCc -3'
miRNA:   3'- aGCuCGG---------------UGUGC-CUCAu---CAGCAGGAG- -5'
29918 3' -55.5 NC_006273.1 + 41126 0.66 0.963894
Target:  5'- -gGAGCCGguguccgaGGAGUcGUCGUCUUCc -3'
miRNA:   3'- agCUCGGUgug-----CCUCAuCAGCAGGAG- -5'
29918 3' -55.5 NC_006273.1 + 227191 0.66 0.962581
Target:  5'- aCGAGCUACAUGGucuguguGUGGaucuucuggugugCGUCCUUu -3'
miRNA:   3'- aGCUCGGUGUGCCu------CAUCa------------GCAGGAG- -5'
29918 3' -55.5 NC_006273.1 + 216250 0.66 0.96055
Target:  5'- gUCGucuuCUugGCGGuGGUGGUUGUUCUCg -3'
miRNA:   3'- -AGCuc--GGugUGCC-UCAUCAGCAGGAG- -5'
29918 3' -55.5 NC_006273.1 + 99311 0.66 0.96055
Target:  5'- cUCG-GCguCGuCGGAGgccggugcGUCGUCCUCa -3'
miRNA:   3'- -AGCuCGguGU-GCCUCau------CAGCAGGAG- -5'
29918 3' -55.5 NC_006273.1 + 103130 0.66 0.96055
Target:  5'- gUCGuguAGCCACACGGucucGGUCagggCCUCg -3'
miRNA:   3'- -AGC---UCGGUGUGCCuca-UCAGca--GGAG- -5'
29918 3' -55.5 NC_006273.1 + 139859 0.67 0.949255
Target:  5'- cCGGGUgGgACGGucGUGGUC-UCCUCg -3'
miRNA:   3'- aGCUCGgUgUGCCu-CAUCAGcAGGAG- -5'
29918 3' -55.5 NC_006273.1 + 64020 0.67 0.945057
Target:  5'- cUCGAGCCACcaugggcgcgGCGGuuuuGGUGGcgCGgCCUCc -3'
miRNA:   3'- -AGCUCGGUG----------UGCC----UCAUCa-GCaGGAG- -5'
29918 3' -55.5 NC_006273.1 + 124510 0.67 0.940637
Target:  5'- aCGAGCaGCAUGGAGc---UGUCCUCu -3'
miRNA:   3'- aGCUCGgUGUGCCUCaucaGCAGGAG- -5'
29918 3' -55.5 NC_006273.1 + 31756 0.67 0.940637
Target:  5'- gUCGGGCCGuCGCGGAcgaaaGUGGggcCGUCUg- -3'
miRNA:   3'- -AGCUCGGU-GUGCCU-----CAUCa--GCAGGag -5'
29918 3' -55.5 NC_006273.1 + 56135 0.68 0.931126
Target:  5'- aCGGGCCGCggagGCGGcgaccgacgcGGaGGUCGUCCg- -3'
miRNA:   3'- aGCUCGGUG----UGCC----------UCaUCAGCAGGag -5'
29918 3' -55.5 NC_006273.1 + 34053 0.68 0.926033
Target:  5'- -aGGGCgACAaagaGGAGUGGUCG-CCg- -3'
miRNA:   3'- agCUCGgUGUg---CCUCAUCAGCaGGag -5'
29918 3' -55.5 NC_006273.1 + 135656 0.68 0.926033
Target:  5'- aCGAGCCacggaucgACACGGGGacaccGUCGUCUa- -3'
miRNA:   3'- aGCUCGG--------UGUGCCUCau---CAGCAGGag -5'
29918 3' -55.5 NC_006273.1 + 97691 0.68 0.920713
Target:  5'- aUGAGCacCACcuguCGGuGuUGGUCGUCCUCc -3'
miRNA:   3'- aGCUCG--GUGu---GCCuC-AUCAGCAGGAG- -5'
29918 3' -55.5 NC_006273.1 + 30774 0.68 0.920713
Target:  5'- cUCGAGCCGCuccaaGGAGUcgcuccGGUUGUCgUg -3'
miRNA:   3'- -AGCUCGGUGug---CCUCA------UCAGCAGgAg -5'
29918 3' -55.5 NC_006273.1 + 2519 0.69 0.895292
Target:  5'- gCGAGCCGCACGG-GcAGUuagcuuuuuugcuaCGUCCg- -3'
miRNA:   3'- aGCUCGGUGUGCCuCaUCA--------------GCAGGag -5'
29918 3' -55.5 NC_006273.1 + 88601 0.69 0.890768
Target:  5'- aCaGGCCACAUGGuGuUAGcCGUCUUCg -3'
miRNA:   3'- aGcUCGGUGUGCCuC-AUCaGCAGGAG- -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.