miRNA display CGI


Results 1 - 20 of 52 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
30711 3' -51.4 NC_006552.1 + 113 0.68 0.872194
Target:  5'- aCCugGACGCcGCCGGCGccggcaaacgaAG-CGggaGCCc -3'
miRNA:   3'- -GGugUUGCGaUGGCCGU-----------UCaGCa--UGG- -5'
30711 3' -51.4 NC_006552.1 + 545 0.69 0.828941
Target:  5'- uUCGCcGCGCcGCCGGUcagcuucgcgacaGAGUaUGUGCCg -3'
miRNA:   3'- -GGUGuUGCGaUGGCCG-------------UUCA-GCAUGG- -5'
30711 3' -51.4 NC_006552.1 + 2849 0.68 0.872194
Target:  5'- uCCACuuGCGCUACUGGCuccagcacuccAGUgG-ACCg -3'
miRNA:   3'- -GGUGu-UGCGAUGGCCGu----------UCAgCaUGG- -5'
30711 3' -51.4 NC_006552.1 + 2888 0.68 0.85595
Target:  5'- aCCGuCGGCGCga-CGGCAAGUuCGUcgACUu -3'
miRNA:   3'- -GGU-GUUGCGaugGCCGUUCA-GCA--UGG- -5'
30711 3' -51.4 NC_006552.1 + 5907 0.8 0.260948
Target:  5'- aCCGCGGCGCUGaCGGCAAGcCGUucagcaaaACCg -3'
miRNA:   3'- -GGUGUUGCGAUgGCCGUUCaGCA--------UGG- -5'
30711 3' -51.4 NC_006552.1 + 8097 1.15 0.001375
Target:  5'- gCCACAACGCUACCGGCAAGUCGUACCg -3'
miRNA:   3'- -GGUGUUGCGAUGGCCGUUCAGCAUGG- -5'
30711 3' -51.4 NC_006552.1 + 8386 0.7 0.801865
Target:  5'- uCCGCucgAGCGCgcCCGGCGgauGGUUGU-CCg -3'
miRNA:   3'- -GGUG---UUGCGauGGCCGU---UCAGCAuGG- -5'
30711 3' -51.4 NC_006552.1 + 9528 0.66 0.947053
Target:  5'- uCCGCGACuucaucgGCUGCCaGGaagGGGUCGaucGCCg -3'
miRNA:   3'- -GGUGUUG-------CGAUGG-CCg--UUCAGCa--UGG- -5'
30711 3' -51.4 NC_006552.1 + 11611 0.66 0.947517
Target:  5'- uCgAUGugGC-GCCGGCcAGUUcgGUGCCg -3'
miRNA:   3'- -GgUGUugCGaUGGCCGuUCAG--CAUGG- -5'
30711 3' -51.4 NC_006552.1 + 11837 0.66 0.947517
Target:  5'- gCGCugauGCGCUACCaGGaCGAGgaugCG-GCCa -3'
miRNA:   3'- gGUGu---UGCGAUGG-CC-GUUCa---GCaUGG- -5'
30711 3' -51.4 NC_006552.1 + 12658 0.66 0.92679
Target:  5'- aCGCAugGCgACUGGUGGaacGUCGU-CCu -3'
miRNA:   3'- gGUGUugCGaUGGCCGUU---CAGCAuGG- -5'
30711 3' -51.4 NC_006552.1 + 13070 0.66 0.926215
Target:  5'- gCC-CAGCGCUACCcaguGGCGcgcccgcGUCGUugauaaaACCg -3'
miRNA:   3'- -GGuGUUGCGAUGG----CCGUu------CAGCA-------UGG- -5'
30711 3' -51.4 NC_006552.1 + 13796 0.71 0.694387
Target:  5'- aCGCGACGCUGCCGGacgccaaUACCg -3'
miRNA:   3'- gGUGUUGCGAUGGCCguucagcAUGG- -5'
30711 3' -51.4 NC_006552.1 + 16850 0.68 0.85595
Target:  5'- uCCGCAuACcCcGCCGGCAccgaGGUCGauUACCg -3'
miRNA:   3'- -GGUGU-UGcGaUGGCCGU----UCAGC--AUGG- -5'
30711 3' -51.4 NC_006552.1 + 20736 0.68 0.885219
Target:  5'- -aGCAacuGCGCUGCCGGCGccggcagacgccccAGgCGUuCCg -3'
miRNA:   3'- ggUGU---UGCGAUGGCCGU--------------UCaGCAuGG- -5'
30711 3' -51.4 NC_006552.1 + 20790 0.74 0.582428
Target:  5'- cCgGCGauuGCGCUGCCGGCcggcgaaaccggcucGAGUaCGUGCUg -3'
miRNA:   3'- -GgUGU---UGCGAUGGCCG---------------UUCA-GCAUGG- -5'
30711 3' -51.4 NC_006552.1 + 21106 0.69 0.829844
Target:  5'- gCCGCcGCGCUcuugGCCGGCGccugGGUUgauaGUGCUu -3'
miRNA:   3'- -GGUGuUGCGA----UGGCCGU----UCAG----CAUGG- -5'
30711 3' -51.4 NC_006552.1 + 21688 0.71 0.698723
Target:  5'- -uGCAGa--UGCCGGCGAuUCGUACCg -3'
miRNA:   3'- ggUGUUgcgAUGGCCGUUcAGCAUGG- -5'
30711 3' -51.4 NC_006552.1 + 22449 0.74 0.556346
Target:  5'- uCCGCGcucgACGCgcagcACCaGCAAGUCGUccACCa -3'
miRNA:   3'- -GGUGU----UGCGa----UGGcCGUUCAGCA--UGG- -5'
30711 3' -51.4 NC_006552.1 + 24046 0.68 0.879945
Target:  5'- gCCGCAGCGCUggucGCCGuugaacagcGCAuGGUCcaGCCa -3'
miRNA:   3'- -GGUGUUGCGA----UGGC---------CGU-UCAGcaUGG- -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.