miRNA display CGI


Results 1 - 20 of 29 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
3607 5' -57.2 NC_001650.1 + 132373 0.66 0.914392
Target:  5'- aCGGGCACCUUcUCCGcC-CCgccggCCUCGg -3'
miRNA:   3'- -GCUCGUGGGAcAGGUaGaGGa----GGAGC- -5'
3607 5' -57.2 NC_001650.1 + 28628 0.66 0.90857
Target:  5'- cCGGGCACCgaGUCCAUCcagaacgCCUUUgUCa -3'
miRNA:   3'- -GCUCGUGGgaCAGGUAGa------GGAGG-AGc -5'
3607 5' -57.2 NC_001650.1 + 62930 0.66 0.902524
Target:  5'- uGuGCGCCCacccuUGUCCuuuuUCUggcacaCCUCCUCa -3'
miRNA:   3'- gCuCGUGGG-----ACAGGu---AGA------GGAGGAGc -5'
3607 5' -57.2 NC_001650.1 + 116029 0.66 0.901288
Target:  5'- aGGGC-CCCUaUCCAcucgggggagggCUUCUCCUCGu -3'
miRNA:   3'- gCUCGuGGGAcAGGUa-----------GAGGAGGAGC- -5'
3607 5' -57.2 NC_001650.1 + 11190 0.66 0.896256
Target:  5'- --cGCGCCCcuccuccUCCuccuUCUCCUCCUCc -3'
miRNA:   3'- gcuCGUGGGac-----AGGu---AGAGGAGGAGc -5'
3607 5' -57.2 NC_001650.1 + 177897 0.66 0.896256
Target:  5'- --cGCGCCCcuccuccUCCuccuUCUCCUCCUCc -3'
miRNA:   3'- gcuCGUGGGac-----AGGu---AGAGGAGGAGc -5'
3607 5' -57.2 NC_001650.1 + 120188 0.66 0.889769
Target:  5'- aGAGuCGCCcCUGggCGUCaCCUCCUUGg -3'
miRNA:   3'- gCUC-GUGG-GACagGUAGaGGAGGAGC- -5'
3607 5' -57.2 NC_001650.1 + 115113 0.66 0.889769
Target:  5'- aGGGCAaCCCgg-CCAcCUCcCUCCUCu -3'
miRNA:   3'- gCUCGU-GGGacaGGUaGAG-GAGGAGc -5'
3607 5' -57.2 NC_001650.1 + 30977 0.66 0.889108
Target:  5'- --cGCGuccCCCUGcCCGUCucucggcUCCUCCUCa -3'
miRNA:   3'- gcuCGU---GGGACaGGUAG-------AGGAGGAGc -5'
3607 5' -57.2 NC_001650.1 + 131078 0.67 0.869031
Target:  5'- gGGGCGCuCUUGUCCAgccccccggUCUUggCCUCGa -3'
miRNA:   3'- gCUCGUG-GGACAGGU---------AGAGgaGGAGC- -5'
3607 5' -57.2 NC_001650.1 + 95521 0.67 0.869031
Target:  5'- --cGCACCCUcUCC--CUCgUCCUCGg -3'
miRNA:   3'- gcuCGUGGGAcAGGuaGAGgAGGAGC- -5'
3607 5' -57.2 NC_001650.1 + 39831 0.67 0.869031
Target:  5'- cCGGGU-CCCUGucaUCCAUCacagCCUUCUCa -3'
miRNA:   3'- -GCUCGuGGGAC---AGGUAGa---GGAGGAGc -5'
3607 5' -57.2 NC_001650.1 + 134506 0.67 0.868307
Target:  5'- aCGGGUagucugGCCCUGgggggCCuggcgggcggggaAUCgUCCUCCUCGg -3'
miRNA:   3'- -GCUCG------UGGGACa----GG-------------UAG-AGGAGGAGC- -5'
3607 5' -57.2 NC_001650.1 + 152468 0.67 0.846474
Target:  5'- gGAagGCCCUGgucucuccCCGUCUCCUCCaUCa -3'
miRNA:   3'- gCUcgUGGGACa-------GGUAGAGGAGG-AGc -5'
3607 5' -57.2 NC_001650.1 + 152375 0.67 0.846474
Target:  5'- gGAagGCCCUGgucucuccCCGUCUCCUCCaUCa -3'
miRNA:   3'- gCUcgUGGGACa-------GGUAGAGGAGG-AGc -5'
3607 5' -57.2 NC_001650.1 + 179421 0.68 0.838577
Target:  5'- gGGGCuagggucuCCCUGUUUgauaagugGUCUCCUCUUCa -3'
miRNA:   3'- gCUCGu-------GGGACAGG--------UAGAGGAGGAGc -5'
3607 5' -57.2 NC_001650.1 + 12714 0.68 0.838577
Target:  5'- gGGGCuagggucuCCCUGUUUgauaagugGUCUCCUCUUCa -3'
miRNA:   3'- gCUCGu-------GGGACAGG--------UAGAGGAGGAGc -5'
3607 5' -57.2 NC_001650.1 + 59193 0.68 0.838577
Target:  5'- -cAGC-UCCUGUCCcugCUCCUCC-CGg -3'
miRNA:   3'- gcUCGuGGGACAGGua-GAGGAGGaGC- -5'
3607 5' -57.2 NC_001650.1 + 93443 0.68 0.830502
Target:  5'- gCGGGUACCCUGUCC-UCgCacaUCCUg- -3'
miRNA:   3'- -GCUCGUGGGACAGGuAGaGg--AGGAgc -5'
3607 5' -57.2 NC_001650.1 + 74419 0.68 0.813843
Target:  5'- cCGA-CACCCUgGUCU-UCUCCcgCCUCGa -3'
miRNA:   3'- -GCUcGUGGGA-CAGGuAGAGGa-GGAGC- -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.