miRNA display CGI


Results 1 - 20 of 25 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
27995 3' -55.9 NC_005886.2 + 13365 0.66 0.648771
Target:  5'- cCAGCCgucaCGGCuugcAGCGUug-CGAGCGCGg -3'
miRNA:   3'- -GUUGG----GCCGu---UCGCGucaGCUUGCGU- -5'
27995 3' -55.9 NC_005886.2 + 11889 0.66 0.637633
Target:  5'- cCGACCCGGU---UGUuGUCGAACaGCAa -3'
miRNA:   3'- -GUUGGGCCGuucGCGuCAGCUUG-CGU- -5'
27995 3' -55.9 NC_005886.2 + 32176 0.66 0.637633
Target:  5'- ----aCGGCucGCGCAGU-GGGCGCGu -3'
miRNA:   3'- guuggGCCGuuCGCGUCAgCUUGCGU- -5'
27995 3' -55.9 NC_005886.2 + 32398 0.66 0.637633
Target:  5'- --cCCCGGU--GCGCAucgCGAAUGCAc -3'
miRNA:   3'- guuGGGCCGuuCGCGUca-GCUUGCGU- -5'
27995 3' -55.9 NC_005886.2 + 18524 0.66 0.637633
Target:  5'- gCAGCagaCCGGCGagcAGCGUAG-CGAcACGCu -3'
miRNA:   3'- -GUUG---GGCCGU---UCGCGUCaGCU-UGCGu -5'
27995 3' -55.9 NC_005886.2 + 20838 0.66 0.625375
Target:  5'- aAGCuuGcGUucgaaauGGGCGCGGUUGAugGCGu -3'
miRNA:   3'- gUUGggC-CG-------UUCGCGUCAGCUugCGU- -5'
27995 3' -55.9 NC_005886.2 + 43632 0.66 0.615351
Target:  5'- aAGCCCGGUuucuucGUGCGuGUCGGugGUc -3'
miRNA:   3'- gUUGGGCCGuu----CGCGU-CAGCUugCGu -5'
27995 3' -55.9 NC_005886.2 + 39863 0.66 0.604228
Target:  5'- aAAUUCGaCGGGCGCgGGUCGAagucGCGCAa -3'
miRNA:   3'- gUUGGGCcGUUCGCG-UCAGCU----UGCGU- -5'
27995 3' -55.9 NC_005886.2 + 46881 0.66 0.59313
Target:  5'- -uGCgCCGGCAAGCauGCGuUCGAcuGCGCu -3'
miRNA:   3'- guUG-GGCCGUUCG--CGUcAGCU--UGCGu -5'
27995 3' -55.9 NC_005886.2 + 4086 0.67 0.571043
Target:  5'- ----aUGGCAAGCuGCGGgaaCGGGCGCAg -3'
miRNA:   3'- guuggGCCGUUCG-CGUCa--GCUUGCGU- -5'
27995 3' -55.9 NC_005886.2 + 37072 0.67 0.571043
Target:  5'- --cUUCGGCAAGCGC-GcCGAacuGCGCAc -3'
miRNA:   3'- guuGGGCCGUUCGCGuCaGCU---UGCGU- -5'
27995 3' -55.9 NC_005886.2 + 43847 0.67 0.538317
Target:  5'- -cGCaCCGGCAGGCaugggcgcaccgGCAGgcaUGGGCGCAc -3'
miRNA:   3'- guUG-GGCCGUUCG------------CGUCa--GCUUGCGU- -5'
27995 3' -55.9 NC_005886.2 + 28047 0.68 0.506256
Target:  5'- --uCUCGGUu-GCGUcgaAGUCGAGCGCGa -3'
miRNA:   3'- guuGGGCCGuuCGCG---UCAGCUUGCGU- -5'
27995 3' -55.9 NC_005886.2 + 19672 0.68 0.47504
Target:  5'- aUAACCUucgGGCAAGCGgaAGacCGGACGCAu -3'
miRNA:   3'- -GUUGGG---CCGUUCGCg-UCa-GCUUGCGU- -5'
27995 3' -55.9 NC_005886.2 + 26818 0.68 0.47504
Target:  5'- gGACCUGaucGC-GGCGUucGUCGAACGCAu -3'
miRNA:   3'- gUUGGGC---CGuUCGCGu-CAGCUUGCGU- -5'
27995 3' -55.9 NC_005886.2 + 18290 0.69 0.454772
Target:  5'- gCAACCCGuGCAAGaCGCA-UCcGACGUAa -3'
miRNA:   3'- -GUUGGGC-CGUUC-GCGUcAGcUUGCGU- -5'
27995 3' -55.9 NC_005886.2 + 35140 0.69 0.425274
Target:  5'- aCAACCCGGCu-GCGgGGcgCGcACGCu -3'
miRNA:   3'- -GUUGGGCCGuuCGCgUCa-GCuUGCGu -5'
27995 3' -55.9 NC_005886.2 + 21002 0.7 0.406254
Target:  5'- gAACCCGGUAGGCaCAGUgcCGAGCa-- -3'
miRNA:   3'- gUUGGGCCGUUCGcGUCA--GCUUGcgu -5'
27995 3' -55.9 NC_005886.2 + 16554 0.7 0.406254
Target:  5'- gAACUCGGCuacucgguGGCGCAGUacauGCGCGa -3'
miRNA:   3'- gUUGGGCCGu-------UCGCGUCAgcu-UGCGU- -5'
27995 3' -55.9 NC_005886.2 + 7177 0.7 0.387778
Target:  5'- gCAGCCCGuGCAAcGUGC-GUCGAuCGCc -3'
miRNA:   3'- -GUUGGGC-CGUU-CGCGuCAGCUuGCGu -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.