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
28518 3' -56.2 NC_005946.1 + 19559 0.66 0.859748
Target:  5'- uGACCAGGCauggcuUAGGGGCcgaacaUCCCa -3'
miRNA:   3'- gCUGGUCCG------GUCCCUGuaacacAGGG- -5'
28518 3' -56.2 NC_005946.1 + 58275 0.66 0.859748
Target:  5'- aGGuCCAGGCuCAGGGACucUGccaCCCu -3'
miRNA:   3'- gCU-GGUCCG-GUCCCUGuaACacaGGG- -5'
28518 3' -56.2 NC_005946.1 + 91098 0.66 0.843735
Target:  5'- cCGGCCAGaGCCAGGG-CAcccucaCCCu -3'
miRNA:   3'- -GCUGGUC-CGGUCCCuGUaacacaGGG- -5'
28518 3' -56.2 NC_005946.1 + 59049 0.66 0.838773
Target:  5'- aGGCCAGgaaccuaggagagcuGCCGGGaGACAgg--GUCCUg -3'
miRNA:   3'- gCUGGUC---------------CGGUCC-CUGUaacaCAGGG- -5'
28518 3' -56.2 NC_005946.1 + 38192 0.66 0.835426
Target:  5'- uGACCucGGGCUgAGGGACGUcGgg-CCCc -3'
miRNA:   3'- gCUGG--UCCGG-UCCCUGUAaCacaGGG- -5'
28518 3' -56.2 NC_005946.1 + 22024 0.66 0.826927
Target:  5'- aGACaGGGUgagGGGGGCcgUGUGgCCCg -3'
miRNA:   3'- gCUGgUCCGg--UCCCUGuaACACaGGG- -5'
28518 3' -56.2 NC_005946.1 + 52548 0.66 0.818243
Target:  5'- gGACCAgGGCUAGGGACAag--G-CCa -3'
miRNA:   3'- gCUGGU-CCGGUCCCUGUaacaCaGGg -5'
28518 3' -56.2 NC_005946.1 + 77238 0.67 0.809385
Target:  5'- gGuACCAGGCCAGGGGgGccGUcagCCUg -3'
miRNA:   3'- gC-UGGUCCGGUCCCUgUaaCAca-GGG- -5'
28518 3' -56.2 NC_005946.1 + 20652 0.67 0.809385
Target:  5'- gGGCUuggagggagcuggGGGCCAGGGGacugagcuacgacgaGUuuacauuccUGUGUCCCg -3'
miRNA:   3'- gCUGG-------------UCCGGUCCCUg--------------UA---------ACACAGGG- -5'
28518 3' -56.2 NC_005946.1 + 102373 0.67 0.791178
Target:  5'- gGGCCuGGCCAuGGACAggcacagGUCCa -3'
miRNA:   3'- gCUGGuCCGGUcCCUGUaaca---CAGGg -5'
28518 3' -56.2 NC_005946.1 + 43114 0.67 0.761811
Target:  5'- uGGCCcuguAGGCCAGGGcagccuuccacGCGUUgGUGuaaucuuUCCCa -3'
miRNA:   3'- gCUGG----UCCGGUCCC-----------UGUAA-CAC-------AGGG- -5'
28518 3' -56.2 NC_005946.1 + 103578 0.68 0.743229
Target:  5'- aGAaCAcGGCCGGGGagcucgugaGCAggGUGUCCUc -3'
miRNA:   3'- gCUgGU-CCGGUCCC---------UGUaaCACAGGG- -5'
28518 3' -56.2 NC_005946.1 + 57152 0.68 0.737282
Target:  5'- gGGCCcuaaaguacuugaggAGGUUAaacGGGACGUUGggGUCCCc -3'
miRNA:   3'- gCUGG---------------UCCGGU---CCCUGUAACa-CAGGG- -5'
28518 3' -56.2 NC_005946.1 + 49818 0.69 0.651394
Target:  5'- uGACCAuGGCCcucaggcucuccAGGGugAggGUGgCCCu -3'
miRNA:   3'- gCUGGU-CCGG------------UCCCugUaaCACaGGG- -5'
28518 3' -56.2 NC_005946.1 + 103492 0.7 0.630577
Target:  5'- aGAcacCCAGGCCcaGGuGGACcaguUUGUGUCCa -3'
miRNA:   3'- gCU---GGUCCGG--UC-CCUGu---AACACAGGg -5'
28518 3' -56.2 NC_005946.1 + 16045 0.7 0.630577
Target:  5'- uGGCCucGCCGGGGACGaugaccGUGcCCCc -3'
miRNA:   3'- gCUGGucCGGUCCCUGUaa----CACaGGG- -5'
28518 3' -56.2 NC_005946.1 + 71016 0.7 0.609764
Target:  5'- gGAgCAGGaccaccgaucCCAGGGACAg---GUCCCu -3'
miRNA:   3'- gCUgGUCC----------GGUCCCUGUaacaCAGGG- -5'
28518 3' -56.2 NC_005946.1 + 70257 0.72 0.487322
Target:  5'- aCGACgAGGauaguguCCAGGGACAg---GUCCCc -3'
miRNA:   3'- -GCUGgUCC-------GGUCCCUGUaacaCAGGG- -5'
28518 3' -56.2 NC_005946.1 + 34063 0.75 0.371067
Target:  5'- aGGCCcgcGGGCCAGaGGACGggaGgagGUCCCg -3'
miRNA:   3'- gCUGG---UCCGGUC-CCUGUaa-Ca--CAGGG- -5'
28518 3' -56.2 NC_005946.1 + 29349 0.75 0.343729
Target:  5'- gCGGCUGGGCCucAGGGGCAgaggggaaucagGUGUCCUc -3'
miRNA:   3'- -GCUGGUCCGG--UCCCUGUaa----------CACAGGG- -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.