miRNA display CGI


Results 1 - 20 of 20 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
23465 3' -60.1 NC_005259.1 + 42656 0.66 0.513872
Target:  5'- ---aUGugGGCGGCCacgCGGCuGcUGUUg -3'
miRNA:   3'- uagaACugCCGCCGGa--GCCGcC-ACAG- -5'
23465 3' -60.1 NC_005259.1 + 4456 0.66 0.510847
Target:  5'- ----aGugGGCagcguaugggccaaGGCCaUCGGCGGUGg- -3'
miRNA:   3'- uagaaCugCCG--------------CCGG-AGCCGCCACag -5'
23465 3' -60.1 NC_005259.1 + 35659 0.66 0.493856
Target:  5'- ----cGAgGGUGGCCagcgCGGUGGUGg- -3'
miRNA:   3'- uagaaCUgCCGCCGGa---GCCGCCACag -5'
23465 3' -60.1 NC_005259.1 + 17354 0.66 0.474204
Target:  5'- cGUCgagGuCGGCGG-CUCGGCGcugGUCg -3'
miRNA:   3'- -UAGaa-CuGCCGCCgGAGCCGCca-CAG- -5'
23465 3' -60.1 NC_005259.1 + 27138 0.67 0.464526
Target:  5'- -gUUUGAgGGCGGCU---GCGGUGUUg -3'
miRNA:   3'- uaGAACUgCCGCCGGagcCGCCACAG- -5'
23465 3' -60.1 NC_005259.1 + 58189 0.67 0.43613
Target:  5'- cGUCUUGACcgccGUGGgCUUGcCGGUGUCa -3'
miRNA:   3'- -UAGAACUGc---CGCCgGAGCcGCCACAG- -5'
23465 3' -60.1 NC_005259.1 + 58923 0.67 0.43613
Target:  5'- gGUCUUGucguCGGCGGgCgCGGUGGcagcGUCg -3'
miRNA:   3'- -UAGAACu---GCCGCCgGaGCCGCCa---CAG- -5'
23465 3' -60.1 NC_005259.1 + 7237 0.67 0.43613
Target:  5'- ----cGACGGCaGCCgCGcCGGUGUCg -3'
miRNA:   3'- uagaaCUGCCGcCGGaGCcGCCACAG- -5'
23465 3' -60.1 NC_005259.1 + 8438 0.67 0.426889
Target:  5'- cUCgUUGcCGGUGGUCUCGGUGuG-GUCg -3'
miRNA:   3'- uAG-AACuGCCGCCGGAGCCGC-CaCAG- -5'
23465 3' -60.1 NC_005259.1 + 65867 0.67 0.417765
Target:  5'- cGUCUgccccgGugGGgCGGUCaaUCGGCGGgacgGUCc -3'
miRNA:   3'- -UAGAa-----CugCC-GCCGG--AGCCGCCa---CAG- -5'
23465 3' -60.1 NC_005259.1 + 42747 0.67 0.417765
Target:  5'- -gCUUGAgcaGGCGGUucucgaucugCUCGGCGGUcUCg -3'
miRNA:   3'- uaGAACUg--CCGCCG----------GAGCCGCCAcAG- -5'
23465 3' -60.1 NC_005259.1 + 27089 0.67 0.417765
Target:  5'- uUCU--GCGGCGGCUgccaugCGGUGGgcugUGUCa -3'
miRNA:   3'- uAGAacUGCCGCCGGa-----GCCGCC----ACAG- -5'
23465 3' -60.1 NC_005259.1 + 49646 0.68 0.412348
Target:  5'- cGUCggcGAUGGCGGCCucgauacgcgccugcUCGGCcuGGUaGUCg -3'
miRNA:   3'- -UAGaa-CUGCCGCCGG---------------AGCCG--CCA-CAG- -5'
23465 3' -60.1 NC_005259.1 + 51782 0.68 0.408761
Target:  5'- -cCUUGAgGuauuCGGCgCUCGGCGGgucgGUCa -3'
miRNA:   3'- uaGAACUgCc---GCCG-GAGCCGCCa---CAG- -5'
23465 3' -60.1 NC_005259.1 + 27369 0.68 0.36561
Target:  5'- -gCUUGgugcccggcACGGUGaCCggCGGCGGUGUCg -3'
miRNA:   3'- uaGAAC---------UGCCGCcGGa-GCCGCCACAG- -5'
23465 3' -60.1 NC_005259.1 + 58792 0.71 0.255859
Target:  5'- gGUCgaGGCGGUGauuGCCUCGGCGGgcUCg -3'
miRNA:   3'- -UAGaaCUGCCGC---CGGAGCCGCCacAG- -5'
23465 3' -60.1 NC_005259.1 + 64764 0.71 0.249593
Target:  5'- cUCgcGACGGUGcGCCUCGGCGGc--- -3'
miRNA:   3'- uAGaaCUGCCGC-CGGAGCCGCCacag -5'
23465 3' -60.1 NC_005259.1 + 8368 0.72 0.22579
Target:  5'- -gCUcGGCGGCGGCCUCGGCa----- -3'
miRNA:   3'- uaGAaCUGCCGCCGGAGCCGccacag -5'
23465 3' -60.1 NC_005259.1 + 19955 0.73 0.174615
Target:  5'- cGUCcgcaACGGCGG-CUCGGCGGUGUg -3'
miRNA:   3'- -UAGaac-UGCCGCCgGAGCCGCCACAg -5'
23465 3' -60.1 NC_005259.1 + 67374 0.74 0.157209
Target:  5'- gAUCUUGG-GGaaauuacgcuUGGCCUCGGgGGUGUCa -3'
miRNA:   3'- -UAGAACUgCC----------GCCGGAGCCgCCACAG- -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.