miRNA display CGI


Results 1 - 20 of 21 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
16396 5' -53.6 NC_004084.1 + 49808 0.66 0.842648
Target:  5'- gUGGAccGagGACUCGGgGAGUUCUgCAa -3'
miRNA:   3'- gACCU--CagUUGAGCUgCUCAAGGgGU- -5'
16396 5' -53.6 NC_004084.1 + 43086 0.66 0.842648
Target:  5'- uUGGGGaacuccUCGAUcgCGuCGAGUUCCUCAu -3'
miRNA:   3'- gACCUC------AGUUGa-GCuGCUCAAGGGGU- -5'
16396 5' -53.6 NC_004084.1 + 2089 0.66 0.842648
Target:  5'- -gGGAGUCgAACUCGAuCGcg-UCCUCGa -3'
miRNA:   3'- gaCCUCAG-UUGAGCU-GCucaAGGGGU- -5'
16396 5' -53.6 NC_004084.1 + 1894 0.66 0.833798
Target:  5'- -cGGcGUCGucGCcggUCGGCGAGUUCgCCGg -3'
miRNA:   3'- gaCCuCAGU--UG---AGCUGCUCAAGgGGU- -5'
16396 5' -53.6 NC_004084.1 + 32608 0.66 0.833798
Target:  5'- aUGGAGUCAGucuacCUCGACGucGcUCgCCAc -3'
miRNA:   3'- gACCUCAGUU-----GAGCUGCu-CaAGgGGU- -5'
16396 5' -53.6 NC_004084.1 + 57255 0.66 0.831101
Target:  5'- -aGGuGUCGuaucGCUUGGCGAGUUCggucugggugaucgCCCGg -3'
miRNA:   3'- gaCCuCAGU----UGAGCUGCUCAAG--------------GGGU- -5'
16396 5' -53.6 NC_004084.1 + 5616 0.66 0.806005
Target:  5'- -aGGGGUCGcCUgaUGGuCGAGUUCCUCGc -3'
miRNA:   3'- gaCCUCAGUuGA--GCU-GCUCAAGGGGU- -5'
16396 5' -53.6 NC_004084.1 + 39738 0.66 0.806005
Target:  5'- -cGGGGUUggAGCgCG-CGAGUUCCUCGg -3'
miRNA:   3'- gaCCUCAG--UUGaGCuGCUCAAGGGGU- -5'
16396 5' -53.6 NC_004084.1 + 12067 0.66 0.806005
Target:  5'- gCUGGGG--AACUCGuCGAGUUgaCUCCAg -3'
miRNA:   3'- -GACCUCagUUGAGCuGCUCAA--GGGGU- -5'
16396 5' -53.6 NC_004084.1 + 40583 0.66 0.795385
Target:  5'- -cGaGGUCAccaucgaACUCGGCGAGgagUUCCCGg -3'
miRNA:   3'- gaCcUCAGU-------UGAGCUGCUCa--AGGGGU- -5'
16396 5' -53.6 NC_004084.1 + 53245 0.67 0.786541
Target:  5'- gCUGGGGUCAGuCaucggccucgUCGACGAcgUCCCgCAg -3'
miRNA:   3'- -GACCUCAGUU-G----------AGCUGCUcaAGGG-GU- -5'
16396 5' -53.6 NC_004084.1 + 7137 0.67 0.77656
Target:  5'- gCUGGAucgCGGCcaaGACGAGUUCaCCCu -3'
miRNA:   3'- -GACCUca-GUUGag-CUGCUCAAG-GGGu -5'
16396 5' -53.6 NC_004084.1 + 56025 0.67 0.756159
Target:  5'- -aGGAGaUCgAGCUCGAgGAGgUCCCg- -3'
miRNA:   3'- gaCCUC-AG-UUGAGCUgCUCaAGGGgu -5'
16396 5' -53.6 NC_004084.1 + 12120 0.69 0.681343
Target:  5'- -cGGAGUCAACgUCGACGAcuacgaCUCCGu -3'
miRNA:   3'- gaCCUCAGUUG-AGCUGCUcaa---GGGGU- -5'
16396 5' -53.6 NC_004084.1 + 22178 0.71 0.517523
Target:  5'- -aGGAcGUCGACccgguaGGCGAGUUCUCCGa -3'
miRNA:   3'- gaCCU-CAGUUGag----CUGCUCAAGGGGU- -5'
16396 5' -53.6 NC_004084.1 + 42998 0.72 0.507005
Target:  5'- -aGGAacUCGACgcgaUCGAgGAGUUCCCCAa -3'
miRNA:   3'- gaCCUc-AGUUG----AGCUgCUCAAGGGGU- -5'
16396 5' -53.6 NC_004084.1 + 12034 0.72 0.486251
Target:  5'- gUGGAaguacGUCAGCUCGAuCGAG-UCCUCGc -3'
miRNA:   3'- gACCU-----CAGUUGAGCU-GCUCaAGGGGU- -5'
16396 5' -53.6 NC_004084.1 + 3161 0.72 0.486251
Target:  5'- -cGGAacgcacGUCGACgagcggcccgUCGACGAGUUCCUCGa -3'
miRNA:   3'- gaCCU------CAGUUG----------AGCUGCUCAAGGGGU- -5'
16396 5' -53.6 NC_004084.1 + 16898 0.73 0.436251
Target:  5'- cCUGGAGcCAuCUCGAUGGG-UCCUCGa -3'
miRNA:   3'- -GACCUCaGUuGAGCUGCUCaAGGGGU- -5'
16396 5' -53.6 NC_004084.1 + 51663 0.74 0.380367
Target:  5'- -aGGAGgCGAUgaUCGAgGAGUUCCCCu -3'
miRNA:   3'- gaCCUCaGUUG--AGCUgCUCAAGGGGu -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.