miRNA display CGI


Results 1 - 20 of 37 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
23664 3' -54.2 NC_005261.1 + 4050 0.66 0.935365
Target:  5'- aCAGcGCGuUCUGCGCGGCCaugGCGu-- -3'
miRNA:   3'- -GUCuUGU-AGAUGCGCCGGca-CGUcuu -5'
23664 3' -54.2 NC_005261.1 + 127594 0.66 0.930143
Target:  5'- -uGGGCGUCUuCGgGGCCGcGCuGAAc -3'
miRNA:   3'- guCUUGUAGAuGCgCCGGCaCGuCUU- -5'
23664 3' -54.2 NC_005261.1 + 55404 0.66 0.924665
Target:  5'- gAGAcuGCAUCUACGCGcgcGCCG-GCuGGc -3'
miRNA:   3'- gUCU--UGUAGAUGCGC---CGGCaCGuCUu -5'
23664 3' -54.2 NC_005261.1 + 123165 0.66 0.924665
Target:  5'- gCGGGGCGggcGCGCGGgCGUGguGGc -3'
miRNA:   3'- -GUCUUGUagaUGCGCCgGCACguCUu -5'
23664 3' -54.2 NC_005261.1 + 81903 0.66 0.917162
Target:  5'- --cAGCAUgaACGCGGCCagcuccuccuugagGUGCGGGAg -3'
miRNA:   3'- gucUUGUAgaUGCGCCGG--------------CACGUCUU- -5'
23664 3' -54.2 NC_005261.1 + 91987 0.66 0.912943
Target:  5'- gCAGGugGUCcagcAgGCGGUgGUGCAGGu -3'
miRNA:   3'- -GUCUugUAGa---UgCGCCGgCACGUCUu -5'
23664 3' -54.2 NC_005261.1 + 98234 0.66 0.906701
Target:  5'- -cGGGCAUCgauuucCGCGGCCcgGUGCGGc- -3'
miRNA:   3'- guCUUGUAGau----GCGCCGG--CACGUCuu -5'
23664 3' -54.2 NC_005261.1 + 54139 0.66 0.906701
Target:  5'- aCGGcacGCcgC-ACGCGGCCGUGCGcGGGg -3'
miRNA:   3'- -GUCu--UGuaGaUGCGCCGGCACGU-CUU- -5'
23664 3' -54.2 NC_005261.1 + 16163 0.67 0.900207
Target:  5'- gCAGGGCAguaggggGCGCGGgCGUGgCGGGGg -3'
miRNA:   3'- -GUCUUGUaga----UGCGCCgGCAC-GUCUU- -5'
23664 3' -54.2 NC_005261.1 + 451 0.67 0.900207
Target:  5'- gGGGACGggggCcGCGaCGGCCG-GCGGGAu -3'
miRNA:   3'- gUCUUGUa---GaUGC-GCCGGCaCGUCUU- -5'
23664 3' -54.2 NC_005261.1 + 34913 0.67 0.900207
Target:  5'- -cGGAgGUCgggGCGCGGCCacGCGGGGg -3'
miRNA:   3'- guCUUgUAGa--UGCGCCGGcaCGUCUU- -5'
23664 3' -54.2 NC_005261.1 + 97752 0.67 0.900207
Target:  5'- gCGGGGCGggcUCggcgGCGCGGCCG-GCAu-- -3'
miRNA:   3'- -GUCUUGU---AGa---UGCGCCGGCaCGUcuu -5'
23664 3' -54.2 NC_005261.1 + 138122 0.67 0.900207
Target:  5'- gGGGACGggggCcGCGaCGGCCG-GCGGGAu -3'
miRNA:   3'- gUCUUGUa---GaUGC-GCCGGCaCGUCUU- -5'
23664 3' -54.2 NC_005261.1 + 132680 0.67 0.893465
Target:  5'- gAGGACAagaugggcuUCcGCGUGGCCGUGCc--- -3'
miRNA:   3'- gUCUUGU---------AGaUGCGCCGGCACGucuu -5'
23664 3' -54.2 NC_005261.1 + 39782 0.67 0.893465
Target:  5'- gAGGACGUCgccggggggcgGCGCGGCCGccgGCGc-- -3'
miRNA:   3'- gUCUUGUAGa----------UGCGCCGGCa--CGUcuu -5'
23664 3' -54.2 NC_005261.1 + 29567 0.67 0.893465
Target:  5'- uGGcGCGccugCUGCaGCGGCgCGUGCAGGg -3'
miRNA:   3'- gUCuUGUa---GAUG-CGCCG-GCACGUCUu -5'
23664 3' -54.2 NC_005261.1 + 17850 0.67 0.886478
Target:  5'- gCAGGGCcUCguaagaGCGGCCGgccgGCAGGc -3'
miRNA:   3'- -GUCUUGuAGaug---CGCCGGCa---CGUCUu -5'
23664 3' -54.2 NC_005261.1 + 32233 0.67 0.879251
Target:  5'- gCGGuGGCcuUCUGCGCGGCCGcgcUGCuGGAg -3'
miRNA:   3'- -GUC-UUGu-AGAUGCGCCGGC---ACGuCUU- -5'
23664 3' -54.2 NC_005261.1 + 1474 0.67 0.871789
Target:  5'- --cAGCA---GCGCGGCCGcGCAGAAg -3'
miRNA:   3'- gucUUGUagaUGCGCCGGCaCGUCUU- -5'
23664 3' -54.2 NC_005261.1 + 83293 0.68 0.85618
Target:  5'- cCAGGcACggCUGCGCggGGUCGUGCAGc- -3'
miRNA:   3'- -GUCU-UGuaGAUGCG--CCGGCACGUCuu -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.