miRNA display CGI


Results 1 - 20 of 23 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
22377 3' -66.2 NC_005045.1 + 20264 0.66 0.191958
Target:  5'- uCCCaGGUGGCUGCUgUC-CaGGCCa- -3'
miRNA:   3'- -GGGaCCGCCGACGGgAGcGgCCGGaa -5'
22377 3' -66.2 NC_005045.1 + 15006 0.66 0.191958
Target:  5'- cCCCggUGGCGGCucccgcUGCCgUCGaagucCCGGCUg- -3'
miRNA:   3'- -GGG--ACCGCCG------ACGGgAGC-----GGCCGGaa -5'
22377 3' -66.2 NC_005045.1 + 477 0.66 0.191958
Target:  5'- uCCCUgGGUGGUccUGgCUUUGCCuGGCCa- -3'
miRNA:   3'- -GGGA-CCGCCG--ACgGGAGCGG-CCGGaa -5'
22377 3' -66.2 NC_005045.1 + 16759 0.66 0.187073
Target:  5'- aCCCUGGCcgaccacGUUGCCCacggCGCCGGggaaCUUc -3'
miRNA:   3'- -GGGACCGc------CGACGGGa---GCGGCCg---GAA- -5'
22377 3' -66.2 NC_005045.1 + 36391 0.66 0.17763
Target:  5'- aUCgUGGgGGUaugacguuucaUGCCCUCGCCGGg--- -3'
miRNA:   3'- -GGgACCgCCG-----------ACGGGAGCGGCCggaa -5'
22377 3' -66.2 NC_005045.1 + 40904 0.66 0.17307
Target:  5'- gCCagGGCuuGGCaGCCCUCagugGCgCGGCCUUg -3'
miRNA:   3'- gGGa-CCG--CCGaCGGGAG----CG-GCCGGAA- -5'
22377 3' -66.2 NC_005045.1 + 8453 0.66 0.168613
Target:  5'- aCCUGGCGuaUGagCUgCGCCGGCUg- -3'
miRNA:   3'- gGGACCGCcgACggGA-GCGGCCGGaa -5'
22377 3' -66.2 NC_005045.1 + 32215 0.66 0.164261
Target:  5'- aUCgUGGCGGgUGCUCUuggCGCUGGCgUg -3'
miRNA:   3'- -GGgACCGCCgACGGGA---GCGGCCGgAa -5'
22377 3' -66.2 NC_005045.1 + 36319 0.66 0.164261
Target:  5'- gUgUGGUGGCgucGCagaUUCGCCGGCCc- -3'
miRNA:   3'- gGgACCGCCGa--CGg--GAGCGGCCGGaa -5'
22377 3' -66.2 NC_005045.1 + 84 0.67 0.160009
Target:  5'- gCCgGGUGGCgagggcuucccUGCCCUCGCUGcCCa- -3'
miRNA:   3'- gGGaCCGCCG-----------ACGGGAGCGGCcGGaa -5'
22377 3' -66.2 NC_005045.1 + 42147 0.67 0.160009
Target:  5'- gCCgGGUGGCgagggcuucccUGCCCUCGCUGcCCa- -3'
miRNA:   3'- gGGaCCGCCG-----------ACGGGAGCGGCcGGaa -5'
22377 3' -66.2 NC_005045.1 + 23123 0.67 0.147844
Target:  5'- cUCCUGcGCGGCcuggGCCUgCGC-GGCCUg -3'
miRNA:   3'- -GGGAC-CGCCGa---CGGGaGCGgCCGGAa -5'
22377 3' -66.2 NC_005045.1 + 6810 0.67 0.147063
Target:  5'- aUCUGGCGcaagaagggaggcguGCUGgCCCUCGgugccuucgaccuguCCGGCCUg -3'
miRNA:   3'- gGGACCGC---------------CGAC-GGGAGC---------------GGCCGGAa -5'
22377 3' -66.2 NC_005045.1 + 2648 0.67 0.140208
Target:  5'- aCCUGGCcGCUGCCCUgGCCa----- -3'
miRNA:   3'- gGGACCGcCGACGGGAgCGGccggaa -5'
22377 3' -66.2 NC_005045.1 + 38063 0.67 0.140208
Target:  5'- gCCCaGGC-GCUGCCCUCugGCC-GCCg- -3'
miRNA:   3'- -GGGaCCGcCGACGGGAG--CGGcCGGaa -5'
22377 3' -66.2 NC_005045.1 + 18686 0.69 0.113156
Target:  5'- aCCUGG-GGCgGCCCUgGCCGGa--- -3'
miRNA:   3'- gGGACCgCCGaCGGGAgCGGCCggaa -5'
22377 3' -66.2 NC_005045.1 + 35496 0.69 0.113156
Target:  5'- gCCggUGGCGGCUGCgggguCgUCGCCGGUUa- -3'
miRNA:   3'- gGG--ACCGCCGACG-----GgAGCGGCCGGaa -5'
22377 3' -66.2 NC_005045.1 + 5224 0.69 0.10433
Target:  5'- gUCUGGaaGCUGCCCUgGCCGuguGCCa- -3'
miRNA:   3'- gGGACCgcCGACGGGAgCGGC---CGGaa -5'
22377 3' -66.2 NC_005045.1 + 34384 0.71 0.067258
Target:  5'- gCCCaGGUgGGCUGCCuCUCGCUGGUa-- -3'
miRNA:   3'- -GGGaCCG-CCGACGG-GAGCGGCCGgaa -5'
22377 3' -66.2 NC_005045.1 + 26218 0.73 0.053695
Target:  5'- aCCgUGGCGGCccguagcUGCCUguaaUCGuuGGCCUUg -3'
miRNA:   3'- -GGgACCGCCG-------ACGGG----AGCggCCGGAA- -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.