miRNA display CGI


Results 1 - 20 of 42 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
16092 3' -56.4 NC_004065.1 + 96949 0.66 0.942698
Target:  5'- uGCGccUCUCCCCGUCUgcugccgcgCCUGCUgCGCc -3'
miRNA:   3'- uUGCu-AGGGGGGUAGA---------GGAUGAgGUG- -5'
16092 3' -56.4 NC_004065.1 + 180605 0.66 0.942698
Target:  5'- gGACagucGUCCCUCCGUCUCCggaACgaggauucgCCGCg -3'
miRNA:   3'- -UUGc---UAGGGGGGUAGAGGa--UGa--------GGUG- -5'
16092 3' -56.4 NC_004065.1 + 63319 0.66 0.94225
Target:  5'- cGACGAgUUCCUggagcagCUGUC-CCUGCUCCACa -3'
miRNA:   3'- -UUGCU-AGGGG-------GGUAGaGGAUGAGGUG- -5'
16092 3' -56.4 NC_004065.1 + 90382 0.66 0.938111
Target:  5'- cGACGAgUCCuuCCCCGUCgucgacacgCCaccGCUCCGCa -3'
miRNA:   3'- -UUGCU-AGG--GGGGUAGa--------GGa--UGAGGUG- -5'
16092 3' -56.4 NC_004065.1 + 50513 0.66 0.938111
Target:  5'- gGGCG-UCCCCUCGUucCUUCUGCUCgaaGCa -3'
miRNA:   3'- -UUGCuAGGGGGGUA--GAGGAUGAGg--UG- -5'
16092 3' -56.4 NC_004065.1 + 47780 0.66 0.933295
Target:  5'- cGACGAggagCCCCUCgAUCUCCU-CgggCCAg -3'
miRNA:   3'- -UUGCUa---GGGGGG-UAGAGGAuGa--GGUg -5'
16092 3' -56.4 NC_004065.1 + 80949 0.66 0.933295
Target:  5'- aGACGAUCgugacgacgaCCCCgAUCggCCUGCcgCCGCc -3'
miRNA:   3'- -UUGCUAG----------GGGGgUAGa-GGAUGa-GGUG- -5'
16092 3' -56.4 NC_004065.1 + 142875 0.66 0.933295
Target:  5'- gGACGA--CCCCgGUCUCCagaGCUUCGCc -3'
miRNA:   3'- -UUGCUagGGGGgUAGAGGa--UGAGGUG- -5'
16092 3' -56.4 NC_004065.1 + 196139 0.66 0.933295
Target:  5'- cGCGGUCUCaCCC-UCgCCUgggACUCCGCc -3'
miRNA:   3'- uUGCUAGGG-GGGuAGaGGA---UGAGGUG- -5'
16092 3' -56.4 NC_004065.1 + 161072 0.66 0.927733
Target:  5'- --aGAUCUgcuugcgCgCCGUCUCgUACUCCGCg -3'
miRNA:   3'- uugCUAGG-------GgGGUAGAGgAUGAGGUG- -5'
16092 3' -56.4 NC_004065.1 + 190039 0.66 0.922974
Target:  5'- cGCGAUUCUCCUGUCcCCU-CUCuCACa -3'
miRNA:   3'- uUGCUAGGGGGGUAGaGGAuGAG-GUG- -5'
16092 3' -56.4 NC_004065.1 + 65285 0.66 0.922974
Target:  5'- -uCGucuUCCCCUCcuaCUCCUGCUCCu- -3'
miRNA:   3'- uuGCu--AGGGGGGua-GAGGAUGAGGug -5'
16092 3' -56.4 NC_004065.1 + 32297 0.66 0.922434
Target:  5'- -uCGGUCUCCUCGUCggagcccgacgaaUCCUugUCCGa -3'
miRNA:   3'- uuGCUAGGGGGGUAG-------------AGGAugAGGUg -5'
16092 3' -56.4 NC_004065.1 + 52366 0.67 0.917468
Target:  5'- uAUGuGUCCCCcguCCGUCUCCggUUCCACu -3'
miRNA:   3'- uUGC-UAGGGG---GGUAGAGGauGAGGUG- -5'
16092 3' -56.4 NC_004065.1 + 51830 0.67 0.916905
Target:  5'- gGAUGcgCCCCaaccuguCCAUCUCCUGCcCCu- -3'
miRNA:   3'- -UUGCuaGGGG-------GGUAGAGGAUGaGGug -5'
16092 3' -56.4 NC_004065.1 + 62530 0.67 0.911733
Target:  5'- gAGgGAaugCCCCCCAUUUCC---UCCGCa -3'
miRNA:   3'- -UUgCUa--GGGGGGUAGAGGaugAGGUG- -5'
16092 3' -56.4 NC_004065.1 + 162734 0.67 0.90577
Target:  5'- -uUGuagCCCCCCAggUCCUGCgucUCCGCc -3'
miRNA:   3'- uuGCua-GGGGGGUagAGGAUG---AGGUG- -5'
16092 3' -56.4 NC_004065.1 + 178322 0.67 0.899581
Target:  5'- uAGCGGUCUCgUCAUCUCCgucugcgauaGCUCCuACg -3'
miRNA:   3'- -UUGCUAGGGgGGUAGAGGa---------UGAGG-UG- -5'
16092 3' -56.4 NC_004065.1 + 146450 0.67 0.893169
Target:  5'- -cCGGcuUCCCCgCCGUCgccgUCUACUCCGu -3'
miRNA:   3'- uuGCU--AGGGG-GGUAGa---GGAUGAGGUg -5'
16092 3' -56.4 NC_004065.1 + 25671 0.67 0.886537
Target:  5'- uACGugccUCCCCCCAUCacgacgUCCccgACUaCCACg -3'
miRNA:   3'- uUGCu---AGGGGGGUAG------AGGa--UGA-GGUG- -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.