miRNA display CGI


Results 1 - 19 of 19 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
11037 5' -48.2 NC_002794.1 + 7783 0.66 0.999842
Target:  5'- gAGCCGGUguacauuauccUCUCCGAC-UCGgaUGAGGAu -3'
miRNA:   3'- gUUGGUCA-----------GGAGGUUGuAGU--ACUUCU- -5'
11037 5' -48.2 NC_002794.1 + 102532 0.66 0.999741
Target:  5'- aCGACCucUUCUCgGGCcgCGUGGAGAc -3'
miRNA:   3'- -GUUGGucAGGAGgUUGuaGUACUUCU- -5'
11037 5' -48.2 NC_002794.1 + 116697 0.66 0.999741
Target:  5'- gAGCCGG-CCUCCAGCAccgCGUcGAGc -3'
miRNA:   3'- gUUGGUCaGGAGGUUGUa--GUAcUUCu -5'
11037 5' -48.2 NC_002794.1 + 177790 0.66 0.999672
Target:  5'- gGGCCGucaUCCUCCAgaagcgguguGCGUUcgGAAGAc -3'
miRNA:   3'- gUUGGUc--AGGAGGU----------UGUAGuaCUUCU- -5'
11037 5' -48.2 NC_002794.1 + 43890 0.67 0.999588
Target:  5'- cCGGCC-GUCg-CCGGCGucUCGUGAGGAg -3'
miRNA:   3'- -GUUGGuCAGgaGGUUGU--AGUACUUCU- -5'
11037 5' -48.2 NC_002794.1 + 60388 0.67 0.999588
Target:  5'- gCAcCCAGUUCUUCAGCA-CG-GAGGAg -3'
miRNA:   3'- -GUuGGUCAGGAGGUUGUaGUaCUUCU- -5'
11037 5' -48.2 NC_002794.1 + 101376 0.67 0.999578
Target:  5'- -cGCCAGUCUguacccgUCCAuCAUCAUGGc-- -3'
miRNA:   3'- guUGGUCAGG-------AGGUuGUAGUACUucu -5'
11037 5' -48.2 NC_002794.1 + 71867 0.67 0.999209
Target:  5'- cCGGCCAGacUCCgCuCGACGUCGUGGAc- -3'
miRNA:   3'- -GUUGGUC--AGGaG-GUUGUAGUACUUcu -5'
11037 5' -48.2 NC_002794.1 + 56601 0.67 0.999209
Target:  5'- -cGCCGG-CCUCC----UCAUGGAGAa -3'
miRNA:   3'- guUGGUCaGGAGGuuguAGUACUUCU- -5'
11037 5' -48.2 NC_002794.1 + 75508 0.68 0.998268
Target:  5'- gCAACCAGUCCgCCGcCGuUCAccGAGGAc -3'
miRNA:   3'- -GUUGGUCAGGaGGUuGU-AGUa-CUUCU- -5'
11037 5' -48.2 NC_002794.1 + 116910 0.68 0.997923
Target:  5'- gCGGCCGGUCCggcgucggcUCCGGCGUCGUcGgcGu -3'
miRNA:   3'- -GUUGGUCAGG---------AGGUUGUAGUA-CuuCu -5'
11037 5' -48.2 NC_002794.1 + 83436 0.68 0.997923
Target:  5'- aAGCCGGUCa-CCGGCAUCcacccGAAGAu -3'
miRNA:   3'- gUUGGUCAGgaGGUUGUAGua---CUUCU- -5'
11037 5' -48.2 NC_002794.1 + 103515 0.69 0.997056
Target:  5'- aCGugCGGUUCUUCAugAUguUGGAGGa -3'
miRNA:   3'- -GUugGUCAGGAGGUugUAguACUUCU- -5'
11037 5' -48.2 NC_002794.1 + 32683 0.69 0.996521
Target:  5'- cCAACC-GUCCUCCGgagGCGUCGcgGgcGAc -3'
miRNA:   3'- -GUUGGuCAGGAGGU---UGUAGUa-CuuCU- -5'
11037 5' -48.2 NC_002794.1 + 32049 0.69 0.996521
Target:  5'- gCGGCguGUCCUCCAcgGCGUUGUaaaaguaguaGAAGAa -3'
miRNA:   3'- -GUUGguCAGGAGGU--UGUAGUA----------CUUCU- -5'
11037 5' -48.2 NC_002794.1 + 141568 0.7 0.990136
Target:  5'- gCGGCCGcggCCUCCGugAUCAUGAc-- -3'
miRNA:   3'- -GUUGGUca-GGAGGUugUAGUACUucu -5'
11037 5' -48.2 NC_002794.1 + 6614 0.7 0.990136
Target:  5'- gAACCAGccacgcgugaUCCUCCGGgaaAUUAUGGAGAu -3'
miRNA:   3'- gUUGGUC----------AGGAGGUUg--UAGUACUUCU- -5'
11037 5' -48.2 NC_002794.1 + 140397 0.7 0.990136
Target:  5'- aGugUAGUCCUCCGACGUUAUcucGGGu -3'
miRNA:   3'- gUugGUCAGGAGGUUGUAGUAcu-UCU- -5'
11037 5' -48.2 NC_002794.1 + 39496 0.71 0.987197
Target:  5'- aAACC-GUCCUCCAccGCuaCAUGAAGGu -3'
miRNA:   3'- gUUGGuCAGGAGGU--UGuaGUACUUCU- -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.