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 + 434 0.67 0.878317
Target:  5'- aGUACUCgAGCGuGCcgucgugcaccGGCGAGUGUUCGc -3'
miRNA:   3'- gCAUGAGaUCGC-CG-----------CUGUUCACGGGC- -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 + 7100 0.67 0.870996
Target:  5'- aCGUGCgcggCUcGGaCGGCGGCGAaacggccgacgcGUGCCUGu -3'
miRNA:   3'- -GCAUGa---GA-UC-GCCGCUGUU------------CACGGGC- -5'
7001 3' -55.2 NC_001875.2 + 8782 0.68 0.813977
Target:  5'- cCGUGCU-UGGUGGCaaACAAGcUGCCCa -3'
miRNA:   3'- -GCAUGAgAUCGCCGc-UGUUC-ACGGGc -5'
7001 3' -55.2 NC_001875.2 + 9938 0.7 0.738931
Target:  5'- aGUAUUCUAGCGGUG-C---UGCCCa -3'
miRNA:   3'- gCAUGAGAUCGCCGCuGuucACGGGc -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 + 23831 0.69 0.758452
Target:  5'- cCGUGuCUCUGGCgGGUGGgguuaAAGUGCUCGc -3'
miRNA:   3'- -GCAU-GAGAUCG-CCGCUg----UUCACGGGC- -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 + 39116 0.66 0.917388
Target:  5'- cCGcGCUCcaUGGCGGCGACGAcccUGaCCGg -3'
miRNA:   3'- -GCaUGAG--AUCGCCGCUGUUc--ACgGGC- -5'
7001 3' -55.2 NC_001875.2 + 44100 0.71 0.657795
Target:  5'- uGUucGCUCacaGGUGGCGGCGAGuUGUCCGc -3'
miRNA:   3'- gCA--UGAGa--UCGCCGCUGUUC-ACGGGC- -5'
7001 3' -55.2 NC_001875.2 + 47388 0.69 0.768047
Target:  5'- uGUuuUC-GGCGGaCGGCGAGUGCCUu -3'
miRNA:   3'- gCAugAGaUCGCC-GCUGUUCACGGGc -5'
7001 3' -55.2 NC_001875.2 + 48383 0.72 0.63712
Target:  5'- cCGUcCgac-GCGGCGACAGGUGCCgGc -3'
miRNA:   3'- -GCAuGagauCGCCGCUGUUCACGGgC- -5'
7001 3' -55.2 NC_001875.2 + 50023 0.69 0.758452
Target:  5'- gCGUGgUCgccgGGCGGCGAgGcGgccgGCCCGu -3'
miRNA:   3'- -GCAUgAGa---UCGCCGCUgUuCa---CGGGC- -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 + 57681 0.71 0.698822
Target:  5'- gCGUcCaagCUGGCGGCGGCGGGcGCCgCGc -3'
miRNA:   3'- -GCAuGa--GAUCGCCGCUGUUCaCGG-GC- -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 + 68836 0.68 0.837097
Target:  5'- gCGcUGC-CUGGCGGaCGggucgcacgcgugcGCGAGUGCCCc -3'
miRNA:   3'- -GC-AUGaGAUCGCC-GC--------------UGUUCACGGGc -5'
7001 3' -55.2 NC_001875.2 + 69264 0.71 0.657795
Target:  5'- cCGcgGCUCgagccgUGGCGGCGGCAAGUccaCCCGc -3'
miRNA:   3'- -GCa-UGAG------AUCGCCGCUGUUCAc--GGGC- -5'
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 + 81336 0.67 0.878317
Target:  5'- uCGUGC-CgcGCGGCGcGCuGGUGCCgCGc -3'
miRNA:   3'- -GCAUGaGauCGCCGC-UGuUCACGG-GC- -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.