miRNA display CGI


Results 1 - 11 of 11 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
22354 3' -56.2 NC_005045.1 + 28612 1.11 0.000436
Target:  5'- aGGUCGGCGAGGCCCUGAUCCAGAUUGa -3'
miRNA:   3'- -CCAGCCGCUCCGGGACUAGGUCUAAC- -5'
22354 3' -56.2 NC_005045.1 + 28717 0.74 0.214796
Target:  5'- -cUCGGCGAGGUuccacaUCUGAuugUCCAGGUUGu -3'
miRNA:   3'- ccAGCCGCUCCG------GGACU---AGGUCUAAC- -5'
22354 3' -56.2 NC_005045.1 + 18673 0.69 0.390417
Target:  5'- -cUCGGCGGcaaugaccuggggcGGCCCUGG-CCGGAgcgUGa -3'
miRNA:   3'- ccAGCCGCU--------------CCGGGACUaGGUCUa--AC- -5'
22354 3' -56.2 NC_005045.1 + 39464 0.69 0.411757
Target:  5'- cGUCGGCGAGGCUgguGUCCAGcaUGu -3'
miRNA:   3'- cCAGCCGCUCCGGgacUAGGUCuaAC- -5'
22354 3' -56.2 NC_005045.1 + 33753 0.67 0.530331
Target:  5'- cGGUCGGCcaGGGCCUUGAuggucggcggcaggUUCGGGUc- -3'
miRNA:   3'- -CCAGCCGc-UCCGGGACU--------------AGGUCUAac -5'
22354 3' -56.2 NC_005045.1 + 27603 0.67 0.533553
Target:  5'- --cUGGCGAcaaccugauGGUUCUGAUCCAGAa-- -3'
miRNA:   3'- ccaGCCGCU---------CCGGGACUAGGUCUaac -5'
22354 3' -56.2 NC_005045.1 + 30880 0.67 0.544343
Target:  5'- --aCGGUGuGGCCCUGGaCCgcacgcGGGUUGa -3'
miRNA:   3'- ccaGCCGCuCCGGGACUaGG------UCUAAC- -5'
22354 3' -56.2 NC_005045.1 + 14777 0.66 0.588123
Target:  5'- uGG-CGGCGAGGaCCUGAUCa------ -3'
miRNA:   3'- -CCaGCCGCUCCgGGACUAGgucuaac -5'
22354 3' -56.2 NC_005045.1 + 34693 0.66 0.596969
Target:  5'- cGUUGGCGAGGUucaggccgagaacggUCUGcaucucaucagcgagGUCCGGGUUGc -3'
miRNA:   3'- cCAGCCGCUCCG---------------GGAC---------------UAGGUCUAAC- -5'
22354 3' -56.2 NC_005045.1 + 39233 0.66 0.610272
Target:  5'- gGGUCGG-GAaccGGCCCgg--CCAGAUg- -3'
miRNA:   3'- -CCAGCCgCU---CCGGGacuaGGUCUAac -5'
22354 3' -56.2 NC_005045.1 + 11817 0.66 0.621381
Target:  5'- uGGagcgCuGCGAGGCCCUGAUCg------ -3'
miRNA:   3'- -CCa---GcCGCUCCGGGACUAGgucuaac -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.