miRNA display CGI


Results 1 - 20 of 104 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
23487 3' -56.4 NC_005259.1 + 10493 0.66 0.774267
Target:  5'- gUCGugGuuguUGGgGUUGuCCGGCACggGCCa -3'
miRNA:   3'- -AGCugCc---GCUgCAACuGGCCGUG--UGG- -5'
23487 3' -56.4 NC_005259.1 + 1237 0.66 0.774267
Target:  5'- -gGACGGCuGCaa-GACCGGCcucgGCAUCa -3'
miRNA:   3'- agCUGCCGcUGcaaCUGGCCG----UGUGG- -5'
23487 3' -56.4 NC_005259.1 + 47802 0.66 0.774267
Target:  5'- cCGACGGUGAguCGcgaGACCucgcgGGC-CACCg -3'
miRNA:   3'- aGCUGCCGCU--GCaa-CUGG-----CCGuGUGG- -5'
23487 3' -56.4 NC_005259.1 + 19732 0.66 0.76747
Target:  5'- aUCGACGGgGACuaGUUGACUuacccgacacaugcgGGUAaguucauCACCa -3'
miRNA:   3'- -AGCUGCCgCUG--CAACUGG---------------CCGU-------GUGG- -5'
23487 3' -56.4 NC_005259.1 + 42946 0.66 0.764537
Target:  5'- cCGugGGCGAggccgcCGUUGucgaaCGGgAUGCCg -3'
miRNA:   3'- aGCugCCGCU------GCAACug---GCCgUGUGG- -5'
23487 3' -56.4 NC_005259.1 + 23744 0.66 0.764537
Target:  5'- -gGACGGCGAccccgacgcccCGcaGACCGGC-C-CCa -3'
miRNA:   3'- agCUGCCGCU-----------GCaaCUGGCCGuGuGG- -5'
23487 3' -56.4 NC_005259.1 + 27827 0.66 0.763557
Target:  5'- cUCGACuucugcGCGAgGUaGGCCGcgaggucGCGCGCCg -3'
miRNA:   3'- -AGCUGc-----CGCUgCAaCUGGC-------CGUGUGG- -5'
23487 3' -56.4 NC_005259.1 + 42507 0.66 0.758638
Target:  5'- cCGGCGGUGugGccagcagccguCCGGCcccgauggGCACCg -3'
miRNA:   3'- aGCUGCCGCugCaacu-------GGCCG--------UGUGG- -5'
23487 3' -56.4 NC_005259.1 + 39761 0.66 0.755673
Target:  5'- gCGGCaGCaGCGgcagccugcugcuggUGAUCGGUGCGCCg -3'
miRNA:   3'- aGCUGcCGcUGCa--------------ACUGGCCGUGUGG- -5'
23487 3' -56.4 NC_005259.1 + 13117 0.66 0.754682
Target:  5'- cUCGGCGGCuAC---GACCaGCGCACg -3'
miRNA:   3'- -AGCUGCCGcUGcaaCUGGcCGUGUGg -5'
23487 3' -56.4 NC_005259.1 + 22827 0.66 0.74471
Target:  5'- gUGACuGCGuCGUgcUGGcCCGGCcCACCc -3'
miRNA:   3'- aGCUGcCGCuGCA--ACU-GGCCGuGUGG- -5'
23487 3' -56.4 NC_005259.1 + 20588 0.66 0.74471
Target:  5'- aCGAcCGGUGGaagucgGACuaugCGGCGCACCg -3'
miRNA:   3'- aGCU-GCCGCUgcaa--CUG----GCCGUGUGG- -5'
23487 3' -56.4 NC_005259.1 + 49645 0.66 0.74471
Target:  5'- gCGuCGGCGAUGgcGGCCucgauaCGCGCCu -3'
miRNA:   3'- aGCuGCCGCUGCaaCUGGcc----GUGUGG- -5'
23487 3' -56.4 NC_005259.1 + 31277 0.66 0.734633
Target:  5'- -aGGCGGUGGCGagaucUUGcCCGGUcuGCGCa -3'
miRNA:   3'- agCUGCCGCUGC-----AACuGGCCG--UGUGg -5'
23487 3' -56.4 NC_005259.1 + 24187 0.67 0.724462
Target:  5'- -gGugGGCGAgaucGACCGGguCAUCg -3'
miRNA:   3'- agCugCCGCUgcaaCUGGCCguGUGG- -5'
23487 3' -56.4 NC_005259.1 + 43728 0.67 0.72344
Target:  5'- gUCGAUGGCGGCcaUGccgccgaGCCGGgcaACAUCg -3'
miRNA:   3'- -AGCUGCCGCUGcaAC-------UGGCCg--UGUGG- -5'
23487 3' -56.4 NC_005259.1 + 159 0.67 0.714205
Target:  5'- cUCGccCGGCGGgGU---CCGGCACcACCg -3'
miRNA:   3'- -AGCu-GCCGCUgCAacuGGCCGUG-UGG- -5'
23487 3' -56.4 NC_005259.1 + 13230 0.67 0.714205
Target:  5'- cUCGAcCGGCcacCGUgagGGCCGaGCAC-CCg -3'
miRNA:   3'- -AGCU-GCCGcu-GCAa--CUGGC-CGUGuGG- -5'
23487 3' -56.4 NC_005259.1 + 60649 0.67 0.714205
Target:  5'- uUCGACGGUGAUuucggGGCCaugacGCACGCg -3'
miRNA:   3'- -AGCUGCCGCUGcaa--CUGGc----CGUGUGg -5'
23487 3' -56.4 NC_005259.1 + 47250 0.67 0.703873
Target:  5'- gUCGAccagcgcuCGGUGACGcguuCCaGCGCACCg -3'
miRNA:   3'- -AGCU--------GCCGCUGCaacuGGcCGUGUGG- -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.