miRNA display CGI


Results 1 - 20 of 33 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
13100 5' -58.8 NC_003401.1 + 44037 0.66 0.78631
Target:  5'- aGCaGCUUCuGAAGCACUGuuugaGCCAGUGg -3'
miRNA:   3'- cCGgCGGAG-CUUUGUGACc----CGGUCGC- -5'
13100 5' -58.8 NC_003401.1 + 132249 0.66 0.777181
Target:  5'- cGGCCGCCaUCuu-GCGCccgGGGCgAGgGu -3'
miRNA:   3'- -CCGGCGG-AGcuuUGUGa--CCCGgUCgC- -5'
13100 5' -58.8 NC_003401.1 + 132442 0.66 0.777181
Target:  5'- gGGCCGCCccCGGGugcCGCUccgccGGGcCCGGCc -3'
miRNA:   3'- -CCGGCGGa-GCUUu--GUGA-----CCC-GGUCGc -5'
13100 5' -58.8 NC_003401.1 + 105045 0.66 0.767926
Target:  5'- gGGCCGU--CGGAAC-CgGGGUUAGCGu -3'
miRNA:   3'- -CCGGCGgaGCUUUGuGaCCCGGUCGC- -5'
13100 5' -58.8 NC_003401.1 + 128198 0.66 0.767926
Target:  5'- uGCCGUUg-GAGGC-CUGcacGGCCAGCGg -3'
miRNA:   3'- cCGGCGGagCUUUGuGAC---CCGGUCGC- -5'
13100 5' -58.8 NC_003401.1 + 30365 0.66 0.748117
Target:  5'- aGG-CGCCggUGggGCGaucugggugugauUUGGGCCAGCu -3'
miRNA:   3'- -CCgGCGGa-GCuuUGU-------------GACCCGGUCGc -5'
13100 5' -58.8 NC_003401.1 + 17629 0.67 0.739488
Target:  5'- cGCCGCCggaauccaaCGggGCGauaaGGGCCAcGCa -3'
miRNA:   3'- cCGGCGGa--------GCuuUGUga--CCCGGU-CGc -5'
13100 5' -58.8 NC_003401.1 + 118012 0.67 0.739488
Target:  5'- cGGCCGCuCUUu-GGCGCcgGGGucguCCGGCGg -3'
miRNA:   3'- -CCGGCG-GAGcuUUGUGa-CCC----GGUCGC- -5'
13100 5' -58.8 NC_003401.1 + 42363 0.67 0.720058
Target:  5'- gGGCCGgggggaCguuaaacgCGAccggcacGCGCUGGGCCGGCa -3'
miRNA:   3'- -CCGGCg-----Ga-------GCUu------UGUGACCCGGUCGc -5'
13100 5' -58.8 NC_003401.1 + 16689 0.67 0.710229
Target:  5'- cGGCCGCCgcacgCGguAUACgaggagGGGCUgccGGCu -3'
miRNA:   3'- -CCGGCGGa----GCuuUGUGa-----CCCGG---UCGc -5'
13100 5' -58.8 NC_003401.1 + 75095 0.67 0.700334
Target:  5'- cGCCGCCUgG--GCGCUuGGCgGGCa -3'
miRNA:   3'- cCGGCGGAgCuuUGUGAcCCGgUCGc -5'
13100 5' -58.8 NC_003401.1 + 124253 0.67 0.690384
Target:  5'- cGCCGCC-CGugggucAAGCACgGGGCCuccGGCu -3'
miRNA:   3'- cCGGCGGaGC------UUUGUGaCCCGG---UCGc -5'
13100 5' -58.8 NC_003401.1 + 119247 0.67 0.690384
Target:  5'- uGGCCGCCaacgcaccCGGuuAACGCcGGuGCCGGCc -3'
miRNA:   3'- -CCGGCGGa-------GCU--UUGUGaCC-CGGUCGc -5'
13100 5' -58.8 NC_003401.1 + 71668 0.68 0.680386
Target:  5'- aGCCGCCUgGGAcaGCACcgaGGGCCGa-- -3'
miRNA:   3'- cCGGCGGAgCUU--UGUGa--CCCGGUcgc -5'
13100 5' -58.8 NC_003401.1 + 132206 0.68 0.680386
Target:  5'- cGGCCggGCC-CgGAGGCGCccGGCCGGCGc -3'
miRNA:   3'- -CCGG--CGGaG-CUUUGUGacCCGGUCGC- -5'
13100 5' -58.8 NC_003401.1 + 117621 0.68 0.67035
Target:  5'- uGGCCGCCgCGGguuaguuugauuGACgGCUuGGCCGGCc -3'
miRNA:   3'- -CCGGCGGaGCU------------UUG-UGAcCCGGUCGc -5'
13100 5' -58.8 NC_003401.1 + 105478 0.68 0.650194
Target:  5'- gGGCCGUUUUu-GAC-CUGGGCCucuAGCGu -3'
miRNA:   3'- -CCGGCGGAGcuUUGuGACCCGG---UCGC- -5'
13100 5' -58.8 NC_003401.1 + 20594 0.68 0.640091
Target:  5'- cGGCCGCCaacccccAACGCgGGGCC-GCGc -3'
miRNA:   3'- -CCGGCGGagcu---UUGUGaCCCGGuCGC- -5'
13100 5' -58.8 NC_003401.1 + 52507 0.69 0.619875
Target:  5'- cGGCCGCUgCGuuAAGCAUuuUGGcaGCCGGCGu -3'
miRNA:   3'- -CCGGCGGaGC--UUUGUG--ACC--CGGUCGC- -5'
13100 5' -58.8 NC_003401.1 + 21460 0.69 0.619875
Target:  5'- gGGaCCGCCgCGAgGGCGaucugGGGCCGGUGu -3'
miRNA:   3'- -CC-GGCGGaGCU-UUGUga---CCCGGUCGC- -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.