miRNA display CGI


Results 1 - 20 of 36 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
7001 3' -55.2 NC_001875.2 + 74936 0.66 0.923061
Target:  5'- aCGUGCUCaAGUGcCGGCccgaucgaauAGUGCCCu -3'
miRNA:   3'- -GCAUGAGaUCGCcGCUGu---------UCACGGGc -5'
7001 3' -55.2 NC_001875.2 + 54564 0.66 0.917388
Target:  5'- uGUACUgCgccGCGGCGGCcgcuucGCCCGg -3'
miRNA:   3'- gCAUGA-Gau-CGCCGCUGuuca--CGGGC- -5'
7001 3' -55.2 NC_001875.2 + 39116 0.66 0.917388
Target:  5'- cCGcGCUCcaUGGCGGCGACGAcccUGaCCGg -3'
miRNA:   3'- -GCaUGAG--AUCGCCGCUGUUc--ACgGGC- -5'
7001 3' -55.2 NC_001875.2 + 17794 0.66 0.911472
Target:  5'- uGUACaa-GGUGGCGACG-GUGCCg- -3'
miRNA:   3'- gCAUGagaUCGCCGCUGUuCACGGgc -5'
7001 3' -55.2 NC_001875.2 + 99708 0.66 0.911472
Target:  5'- cCGUugaGCgCUAuGCGGCGcucGCAAGUGCgCGc -3'
miRNA:   3'- -GCA---UGaGAU-CGCCGC---UGUUCACGgGC- -5'
7001 3' -55.2 NC_001875.2 + 1888 0.67 0.892282
Target:  5'- aGUGCgUC-AGCGGCGACccugcuuuucGGGUGCgCa -3'
miRNA:   3'- gCAUG-AGaUCGCCGCUG----------UUCACGgGc -5'
7001 3' -55.2 NC_001875.2 + 110395 0.67 0.892282
Target:  5'- uCGUGCgugCccGUGGaGAuCAAGUGCCCGu -3'
miRNA:   3'- -GCAUGa--GauCGCCgCU-GUUCACGGGC- -5'
7001 3' -55.2 NC_001875.2 + 91925 0.67 0.885414
Target:  5'- --cACUCcaUGGCGGCGuACGAGUaaGCCUu -3'
miRNA:   3'- gcaUGAG--AUCGCCGC-UGUUCA--CGGGc -5'
7001 3' -55.2 NC_001875.2 + 81336 0.67 0.878317
Target:  5'- uCGUGC-CgcGCGGCGcGCuGGUGCCgCGc -3'
miRNA:   3'- -GCAUGaGauCGCCGC-UGuUCACGG-GC- -5'
7001 3' -55.2 NC_001875.2 + 434 0.67 0.878317
Target:  5'- aGUACUCgAGCGuGCcgucgugcaccGGCGAGUGUUCGc -3'
miRNA:   3'- gCAUGAGaUCGC-CG-----------CUGUUCACGGGC- -5'
7001 3' -55.2 NC_001875.2 + 89547 0.67 0.870996
Target:  5'- uGUACU-UGGCGcCG-CGGGUGCCCa -3'
miRNA:   3'- gCAUGAgAUCGCcGCuGUUCACGGGc -5'
7001 3' -55.2 NC_001875.2 + 7100 0.67 0.870996
Target:  5'- aCGUGCgcggCUcGGaCGGCGGCGAaacggccgacgcGUGCCUGu -3'
miRNA:   3'- -GCAUGa---GA-UC-GCCGCUGUU------------CACGGGC- -5'
7001 3' -55.2 NC_001875.2 + 30738 0.67 0.870996
Target:  5'- gGUGCgUC-AGCGGCGACcccgcuuuuauAGGcGCCCa -3'
miRNA:   3'- gCAUG-AGaUCGCCGCUG-----------UUCaCGGGc -5'
7001 3' -55.2 NC_001875.2 + 102984 0.67 0.870252
Target:  5'- uGUGCcCUgcgggcacgugguGGCGuGCGGCAAGUGCgCUGc -3'
miRNA:   3'- gCAUGaGA-------------UCGC-CGCUGUUCACG-GGC- -5'
7001 3' -55.2 NC_001875.2 + 59868 0.67 0.855703
Target:  5'- gCGUGCaagCUGaggacgagcuucGCGGCGACAGGcUGCgCGc -3'
miRNA:   3'- -GCAUGa--GAU------------CGCCGCUGUUC-ACGgGC- -5'
7001 3' -55.2 NC_001875.2 + 83808 0.68 0.847743
Target:  5'- uCGUGC-CUgugGGCGGCGGCcacGUGgCCGc -3'
miRNA:   3'- -GCAUGaGA---UCGCCGCUGuu-CACgGGC- -5'
7001 3' -55.2 NC_001875.2 + 104960 0.68 0.839583
Target:  5'- -uUGCUCguguGCGGCGGCGggcuGGUGCaCGg -3'
miRNA:   3'- gcAUGAGau--CGCCGCUGU----UCACGgGC- -5'
7001 3' -55.2 NC_001875.2 + 68836 0.68 0.837097
Target:  5'- gCGcUGC-CUGGCGGaCGggucgcacgcgugcGCGAGUGCCCc -3'
miRNA:   3'- -GC-AUGaGAUCGCC-GC--------------UGUUCACGGGc -5'
7001 3' -55.2 NC_001875.2 + 84406 0.68 0.813977
Target:  5'- --aGCUUcGGCGGCGGCGcguauaGGUGCCa- -3'
miRNA:   3'- gcaUGAGaUCGCCGCUGU------UCACGGgc -5'
7001 3' -55.2 NC_001875.2 + 8782 0.68 0.813977
Target:  5'- cCGUGCU-UGGUGGCaaACAAGcUGCCCa -3'
miRNA:   3'- -GCAUGAgAUCGCCGc-UGUUC-ACGGGc -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.