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
9373 5' -54.8 NC_002512.2 + 134693 0.66 0.974617
Target:  5'- gCGaCCGCGgacguccucucgcgGGCGCUCUCC--GCCu- -3'
miRNA:   3'- -GC-GGCGCaa------------CUGCGAGAGGuuUGGuu -5'
9373 5' -54.8 NC_002512.2 + 201823 0.66 0.97436
Target:  5'- cCGCCGCGcccgGGgGCUCcuUCCGcGGCCGg -3'
miRNA:   3'- -GCGGCGCaa--CUgCGAG--AGGU-UUGGUu -5'
9373 5' -54.8 NC_002512.2 + 116137 0.66 0.97436
Target:  5'- aCGCCGCGUaucGugGUcggcaacaUCcCCGAGCCGc -3'
miRNA:   3'- -GCGGCGCAa--CugCG--------AGaGGUUUGGUu -5'
9373 5' -54.8 NC_002512.2 + 226482 0.66 0.97436
Target:  5'- gGCCGgGgcccgGGCGCUCcCCucGCCGc -3'
miRNA:   3'- gCGGCgCaa---CUGCGAGaGGuuUGGUu -5'
9373 5' -54.8 NC_002512.2 + 180563 0.66 0.97436
Target:  5'- uGCgGCGggcuccgGugGCUCUCUAucagGGCCGu -3'
miRNA:   3'- gCGgCGCaa-----CugCGAGAGGU----UUGGUu -5'
9373 5' -54.8 NC_002512.2 + 73342 0.66 0.971677
Target:  5'- aGCCGUc---ACGCgCUCCGAACCGg -3'
miRNA:   3'- gCGGCGcaacUGCGaGAGGUUUGGUu -5'
9373 5' -54.8 NC_002512.2 + 150164 0.66 0.971677
Target:  5'- aGCC-CGUccuCGCUCUCCcuGCCGGg -3'
miRNA:   3'- gCGGcGCAacuGCGAGAGGuuUGGUU- -5'
9373 5' -54.8 NC_002512.2 + 144304 0.66 0.971677
Target:  5'- --aCGCGgacGCGCUCUCCcGGCCGc -3'
miRNA:   3'- gcgGCGCaacUGCGAGAGGuUUGGUu -5'
9373 5' -54.8 NC_002512.2 + 76528 0.66 0.968798
Target:  5'- uGCCG-GcUGACGUUCugaugaaggaUCCGAACCGGa -3'
miRNA:   3'- gCGGCgCaACUGCGAG----------AGGUUUGGUU- -5'
9373 5' -54.8 NC_002512.2 + 76598 0.66 0.962427
Target:  5'- aCGCCgGCGUcgGACGuCUgUCCGGggccGCCAu -3'
miRNA:   3'- -GCGG-CGCAa-CUGC-GAgAGGUU----UGGUu -5'
9373 5' -54.8 NC_002512.2 + 176405 0.66 0.962086
Target:  5'- gCGCCGCGUcGugGCaccUgUCCAGcagggugGCCAu -3'
miRNA:   3'- -GCGGCGCAaCugCG---AgAGGUU-------UGGUu -5'
9373 5' -54.8 NC_002512.2 + 171056 0.66 0.961399
Target:  5'- aCGCCGcCGUccuucacgagaagaUGAgGCUCUUCAcGGCCGu -3'
miRNA:   3'- -GCGGC-GCA--------------ACUgCGAGAGGU-UUGGUu -5'
9373 5' -54.8 NC_002512.2 + 222330 0.67 0.955204
Target:  5'- gGCUGCGgcGGCGC-CUCCAGGagGAg -3'
miRNA:   3'- gCGGCGCaaCUGCGaGAGGUUUggUU- -5'
9373 5' -54.8 NC_002512.2 + 101905 0.67 0.951261
Target:  5'- aCGCCGaCGggGGCggcguGUUCUCCAugcgggGACCGAc -3'
miRNA:   3'- -GCGGC-GCaaCUG-----CGAGAGGU------UUGGUU- -5'
9373 5' -54.8 NC_002512.2 + 141608 0.67 0.951261
Target:  5'- aGCCGCGUcccgacacgccUGcCGCcaccUCUCCAAcaccGCCGAc -3'
miRNA:   3'- gCGGCGCA-----------ACuGCG----AGAGGUU----UGGUU- -5'
9373 5' -54.8 NC_002512.2 + 198365 0.67 0.950854
Target:  5'- cCGCCGUGUccGugGC-CUCCGugaucaggcucugGACCAu -3'
miRNA:   3'- -GCGGCGCAa-CugCGaGAGGU-------------UUGGUu -5'
9373 5' -54.8 NC_002512.2 + 214953 0.67 0.940872
Target:  5'- gGCCGCG--GACGCacgggguccggaUCCAGACCGAc -3'
miRNA:   3'- gCGGCGCaaCUGCGag----------AGGUUUGGUU- -5'
9373 5' -54.8 NC_002512.2 + 184377 0.67 0.938067
Target:  5'- cCGCCGCG--GGCGCUUUCgGcguGGCCGc -3'
miRNA:   3'- -GCGGCGCaaCUGCGAGAGgU---UUGGUu -5'
9373 5' -54.8 NC_002512.2 + 221778 0.67 0.938067
Target:  5'- cCGUCGUGUccUGGCGCcugCUCUAcGCCGg -3'
miRNA:   3'- -GCGGCGCA--ACUGCGa--GAGGUuUGGUu -5'
9373 5' -54.8 NC_002512.2 + 207660 0.67 0.937592
Target:  5'- gGCCGUGgUGGCgucccggGCUCUCCcgccGGCCGAa -3'
miRNA:   3'- gCGGCGCaACUG-------CGAGAGGu---UUGGUU- -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.