miRNA display CGI


Results 1 - 20 of 33 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
18858 3' -57.6 NC_004683.1 + 335 0.7 0.337966
Target:  5'- aGGCGCUgcGGUUGGCGAuGCGGCUgGAg -3'
miRNA:   3'- -CCGCGGa-CCGACCGCU-UGUUGGaCUa -5'
18858 3' -57.6 NC_004683.1 + 1379 0.67 0.475231
Target:  5'- aGCGCCUcGGCUGGCacGACAAgCCggcGAUc -3'
miRNA:   3'- cCGCGGA-CCGACCGc-UUGUU-GGa--CUA- -5'
18858 3' -57.6 NC_004683.1 + 2127 0.67 0.499719
Target:  5'- cGC-CCUGGUggUGGCGGGCGuggccgugcuggcggGCCUGGg -3'
miRNA:   3'- cCGcGGACCG--ACCGCUUGU---------------UGGACUa -5'
18858 3' -57.6 NC_004683.1 + 5236 0.65 0.589142
Target:  5'- aGUGCCUGGCgacgucgucgccGGCGuaccuGCGcGCCUGGUc -3'
miRNA:   3'- cCGCGGACCGa-----------CCGCu----UGU-UGGACUA- -5'
18858 3' -57.6 NC_004683.1 + 5858 1.07 0.000702
Target:  5'- aGGCGCCUGGCUGGCGAACAACCUGAUu -3'
miRNA:   3'- -CCGCGGACCGACCGCUUGUUGGACUA- -5'
18858 3' -57.6 NC_004683.1 + 5995 0.75 0.163982
Target:  5'- cGGCGCCuUGGC-GGCGGguGCGGCCgGAg -3'
miRNA:   3'- -CCGCGG-ACCGaCCGCU--UGUUGGaCUa -5'
18858 3' -57.6 NC_004683.1 + 6559 0.72 0.263749
Target:  5'- aGGCGCC-GGCcgagaacggcgaUGGCGGAacugaAGCCUGAc -3'
miRNA:   3'- -CCGCGGaCCG------------ACCGCUUg----UUGGACUa -5'
18858 3' -57.6 NC_004683.1 + 8097 0.7 0.337966
Target:  5'- cGGCGCCgacgaccccgaGGCUGGCaccGACAACCccgUGAUc -3'
miRNA:   3'- -CCGCGGa----------CCGACCGc--UUGUUGG---ACUA- -5'
18858 3' -57.6 NC_004683.1 + 8895 0.68 0.426252
Target:  5'- cGGCGauucagcGGCUGGCcAACAACCUGc- -3'
miRNA:   3'- -CCGCgga----CCGACCGcUUGUUGGACua -5'
18858 3' -57.6 NC_004683.1 + 9657 0.66 0.534261
Target:  5'- cGGCGaCCUgcucgaccaucgcgGGCUGGCucGGCAGCgUGAg -3'
miRNA:   3'- -CCGC-GGA--------------CCGACCGc-UUGUUGgACUa -5'
18858 3' -57.6 NC_004683.1 + 11190 0.67 0.506967
Target:  5'- cGgGCCUGGUgagcgauuacgagcaGGCGuuCGACCUGAUc -3'
miRNA:   3'- cCgCGGACCGa--------------CCGCuuGUUGGACUA- -5'
18858 3' -57.6 NC_004683.1 + 16888 0.68 0.426252
Target:  5'- aGGCGCgCUgGGCccgGGCGAACAGCg---- -3'
miRNA:   3'- -CCGCG-GA-CCGa--CCGCUUGUUGgacua -5'
18858 3' -57.6 NC_004683.1 + 20454 0.71 0.299081
Target:  5'- cGCGCCgaUGGCcGGCGAGCGgaaaGCCgGAg -3'
miRNA:   3'- cCGCGG--ACCGaCCGCUUGU----UGGaCUa -5'
18858 3' -57.6 NC_004683.1 + 20576 0.66 0.569611
Target:  5'- gGGCGUCUGGUggcGGCGGugcgGCGAUCa--- -3'
miRNA:   3'- -CCGCGGACCGa--CCGCU----UGUUGGacua -5'
18858 3' -57.6 NC_004683.1 + 21162 0.66 0.569611
Target:  5'- cGCGCCUGaGcCUGGCGG--GACCccGAUa -3'
miRNA:   3'- cCGCGGAC-C-GACCGCUugUUGGa-CUA- -5'
18858 3' -57.6 NC_004683.1 + 21940 0.67 0.475231
Target:  5'- -cCGCCcGGCggUGGCGGGCGGCCgccGAg -3'
miRNA:   3'- ccGCGGaCCG--ACCGCUUGUUGGa--CUa -5'
18858 3' -57.6 NC_004683.1 + 30498 0.79 0.079237
Target:  5'- cGGCGUaucgGGCUcGGCGGGCGGCCUGGa -3'
miRNA:   3'- -CCGCGga--CCGA-CCGCUUGUUGGACUa -5'
18858 3' -57.6 NC_004683.1 + 30765 0.68 0.444517
Target:  5'- cGGCGuucucgaCCUGGCgGGCGAGCGcgUUGGUg -3'
miRNA:   3'- -CCGC-------GGACCGaCCGCUUGUugGACUA- -5'
18858 3' -57.6 NC_004683.1 + 32535 0.66 0.548104
Target:  5'- cGGCGCUcGG-UGGCcGGCGGCUUGGUc -3'
miRNA:   3'- -CCGCGGaCCgACCGcUUGUUGGACUA- -5'
18858 3' -57.6 NC_004683.1 + 32651 0.7 0.329903
Target:  5'- cGGCaGCCUGGaucuuGCGGGCAGCCUuGAa -3'
miRNA:   3'- -CCG-CGGACCgac--CGCUUGUUGGA-CUa -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.