miRNA display CGI


Results 1 - 20 of 28 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
23824 3' -59.1 NC_005261.1 + 19794 0.66 0.788935
Target:  5'- gGCCCUCCgaGC-CGGGGGUCagCCgcCGg -3'
miRNA:   3'- -CGGGAGGggUGuGUCCCUAGa-GGa-GC- -5'
23824 3' -59.1 NC_005261.1 + 19932 0.66 0.788935
Target:  5'- cGCCCUCgcuagcguCCUGgGCGGGGGUggggcggCCUCGg -3'
miRNA:   3'- -CGGGAG--------GGGUgUGUCCCUAga-----GGAGC- -5'
23824 3' -59.1 NC_005261.1 + 11623 0.66 0.779916
Target:  5'- cGCCCUcccgcCCCCACGCGGcGccC-CCUCGa -3'
miRNA:   3'- -CGGGA-----GGGGUGUGUCcCuaGaGGAGC- -5'
23824 3' -59.1 NC_005261.1 + 2296 0.66 0.77077
Target:  5'- aGCgCCUCCCCGgGCAGcGGGUCg----- -3'
miRNA:   3'- -CG-GGAGGGGUgUGUC-CCUAGaggagc -5'
23824 3' -59.1 NC_005261.1 + 84929 0.66 0.77077
Target:  5'- gGCCUcggCCUCGCGCAGcac-CUCCUCGg -3'
miRNA:   3'- -CGGGa--GGGGUGUGUCccuaGAGGAGC- -5'
23824 3' -59.1 NC_005261.1 + 87371 0.66 0.77077
Target:  5'- cGCCCa--CCGCGCGGcaGAUgUCCUCGg -3'
miRNA:   3'- -CGGGaggGGUGUGUCc-CUAgAGGAGC- -5'
23824 3' -59.1 NC_005261.1 + 79021 0.67 0.742654
Target:  5'- cCCCUCCUCGCcCGGGGcgCccgcgcCCUUGg -3'
miRNA:   3'- cGGGAGGGGUGuGUCCCuaGa-----GGAGC- -5'
23824 3' -59.1 NC_005261.1 + 14779 0.67 0.733085
Target:  5'- gGCCg-CCCCGCGCAGGuGccgCUCC-CGc -3'
miRNA:   3'- -CGGgaGGGGUGUGUCC-Cua-GAGGaGC- -5'
23824 3' -59.1 NC_005261.1 + 82234 0.67 0.723431
Target:  5'- aGCaCgUCCCCguagacgcucacGCGCAGGG-UCUUCUCc -3'
miRNA:   3'- -CG-GgAGGGG------------UGUGUCCCuAGAGGAGc -5'
23824 3' -59.1 NC_005261.1 + 58828 0.67 0.713703
Target:  5'- cGUCCUCCaggcacCCGCGCuGGG-UCUCC-CGc -3'
miRNA:   3'- -CGGGAGG------GGUGUGuCCCuAGAGGaGC- -5'
23824 3' -59.1 NC_005261.1 + 95889 0.67 0.694054
Target:  5'- cGCCCUCuuaacgcgcgcgCCCGCGCGGcGcgCUCaCUCGc -3'
miRNA:   3'- -CGGGAG------------GGGUGUGUCcCuaGAG-GAGC- -5'
23824 3' -59.1 NC_005261.1 + 13820 0.68 0.68415
Target:  5'- gGCUCgaCCCGCAgcguCAGGGucgacugcGUCUCCUCGu -3'
miRNA:   3'- -CGGGagGGGUGU----GUCCC--------UAGAGGAGC- -5'
23824 3' -59.1 NC_005261.1 + 132317 0.68 0.674206
Target:  5'- cGCCCcaUCCCC-CGCGGGGAcCUgCaCGg -3'
miRNA:   3'- -CGGG--AGGGGuGUGUCCCUaGAgGaGC- -5'
23824 3' -59.1 NC_005261.1 + 9458 0.68 0.664228
Target:  5'- cCCCUCCCCGCAgAGGGGggaggggCUUGc -3'
miRNA:   3'- cGGGAGGGGUGUgUCCCUagag---GAGC- -5'
23824 3' -59.1 NC_005261.1 + 16322 0.68 0.664228
Target:  5'- gGCCCUCCCCcuCGCcgccGGUCUCCUg- -3'
miRNA:   3'- -CGGGAGGGGu-GUGucc-CUAGAGGAgc -5'
23824 3' -59.1 NC_005261.1 + 132720 0.68 0.658229
Target:  5'- cGCCCUaccucauugcggcggCCCCGCACucaAGGGcAUCgcgcgCCUUGu -3'
miRNA:   3'- -CGGGA---------------GGGGUGUG---UCCC-UAGa----GGAGC- -5'
23824 3' -59.1 NC_005261.1 + 127297 0.68 0.654225
Target:  5'- aGCCCUCCCCGCcggcugGCGGuGGggC-CCUg- -3'
miRNA:   3'- -CGGGAGGGGUG------UGUC-CCuaGaGGAgc -5'
23824 3' -59.1 NC_005261.1 + 77871 0.68 0.648215
Target:  5'- cGCCCUCUCCAgGCucgcguccgccGUCUCCUCGc -3'
miRNA:   3'- -CGGGAGGGGUgUGuccc-------UAGAGGAGC- -5'
23824 3' -59.1 NC_005261.1 + 2408 0.69 0.624147
Target:  5'- cGCCCgcgggCCCCGCGCGGcGGcgggccgcgAUCUcggccagcgCCUCGg -3'
miRNA:   3'- -CGGGa----GGGGUGUGUC-CC---------UAGA---------GGAGC- -5'
23824 3' -59.1 NC_005261.1 + 59751 0.69 0.624147
Target:  5'- cGCCCUCCaCCAgGCAGGc--CUCCa-- -3'
miRNA:   3'- -CGGGAGG-GGUgUGUCCcuaGAGGagc -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.