miRNA display CGI


Results 1 - 17 of 17 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
26909 5' -54.3 NC_005809.1 + 38406 0.66 0.655846
Target:  5'- --cGAGGCGGCCGGCUaCCAGaUCgUg -3'
miRNA:   3'- gccUUUCGCCGGUCGAaGGUU-AGgAg -5'
26909 5' -54.3 NC_005809.1 + 1442 0.66 0.644461
Target:  5'- aGGucgauauAGUGGCgGGCUUUUuucaAGUCCUCg -3'
miRNA:   3'- gCCuu-----UCGCCGgUCGAAGG----UUAGGAG- -5'
26909 5' -54.3 NC_005809.1 + 7427 0.67 0.587575
Target:  5'- cCGGAuGGcCGGCCAGCagUUCGG-CUUCg -3'
miRNA:   3'- -GCCUuUC-GCCGGUCGa-AGGUUaGGAG- -5'
26909 5' -54.3 NC_005809.1 + 36999 0.67 0.576278
Target:  5'- aCGGu-GGCGGCCAGCgUUgGcgCCgUCg -3'
miRNA:   3'- -GCCuuUCGCCGGUCGaAGgUuaGG-AG- -5'
26909 5' -54.3 NC_005809.1 + 32050 0.68 0.565031
Target:  5'- gCGGAAAGCguGGCCGGCggucagcagUUCGAUCa-- -3'
miRNA:   3'- -GCCUUUCG--CCGGUCGa--------AGGUUAGgag -5'
26909 5' -54.3 NC_005809.1 + 27496 0.68 0.542719
Target:  5'- aGGAugccGGCGGCCucGGCcgCCAGcUUCUCg -3'
miRNA:   3'- gCCUu---UCGCCGG--UCGaaGGUU-AGGAG- -5'
26909 5' -54.3 NC_005809.1 + 14579 0.68 0.531671
Target:  5'- cCGGGcuGauGCCGGCggCCGAUCCg- -3'
miRNA:   3'- -GCCUuuCgcCGGUCGaaGGUUAGGag -5'
26909 5' -54.3 NC_005809.1 + 1353 0.69 0.514168
Target:  5'- uGGucGGCGGCCuugcGCaUCCGgcgaccgaagcgcaaGUCCUCg -3'
miRNA:   3'- gCCuuUCGCCGGu---CGaAGGU---------------UAGGAG- -5'
26909 5' -54.3 NC_005809.1 + 15068 0.69 0.499049
Target:  5'- cCGaGAAgcuGGCGGCCgaGGCcgCCGgcAUCCUCg -3'
miRNA:   3'- -GC-CUU---UCGCCGG--UCGaaGGU--UAGGAG- -5'
26909 5' -54.3 NC_005809.1 + 28834 0.69 0.488372
Target:  5'- uCGGGuuGCGGCCGGaCUUgccgaagcugucCCAgcgccgcgccacGUCCUCg -3'
miRNA:   3'- -GCCUuuCGCCGGUC-GAA------------GGU------------UAGGAG- -5'
26909 5' -54.3 NC_005809.1 + 24225 0.7 0.436718
Target:  5'- cCGGcGAGCGGCCGauCUUCUcgaugauGUCCUCg -3'
miRNA:   3'- -GCCuUUCGCCGGUc-GAAGGu------UAGGAG- -5'
26909 5' -54.3 NC_005809.1 + 37048 0.71 0.388351
Target:  5'- gCGGAAccugGGCGGCCGGCgu---GUCCUa -3'
miRNA:   3'- -GCCUU----UCGCCGGUCGaagguUAGGAg -5'
26909 5' -54.3 NC_005809.1 + 5091 0.72 0.352277
Target:  5'- uGGAAcaGGCGGCCGGC--CCAgcGUCCg- -3'
miRNA:   3'- gCCUU--UCGCCGGUCGaaGGU--UAGGag -5'
26909 5' -54.3 NC_005809.1 + 1714 0.73 0.302751
Target:  5'- gGGccGGCGuGCCGGCgagggcgUCCAaGUCCUCg -3'
miRNA:   3'- gCCuuUCGC-CGGUCGa------AGGU-UAGGAG- -5'
26909 5' -54.3 NC_005809.1 + 30748 0.74 0.245304
Target:  5'- gCGGc--GCGGCCGGUcugUUCCAGUCCg- -3'
miRNA:   3'- -GCCuuuCGCCGGUCG---AAGGUUAGGag -5'
26909 5' -54.3 NC_005809.1 + 10156 0.75 0.202731
Target:  5'- uGGAAGGCGGUCAGCagCCAGUgUUUu -3'
miRNA:   3'- gCCUUUCGCCGGUCGaaGGUUAgGAG- -5'
26909 5' -54.3 NC_005809.1 + 4851 1.11 0.000555
Target:  5'- aCGGAAAGCGGCCAGCUUCCAAUCCUCg -3'
miRNA:   3'- -GCCUUUCGCCGGUCGAAGGUUAGGAG- -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.