miRNA display CGI


Results 1 - 20 of 29 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
16270 3' -54.7 NC_004084.1 + 55563 0.66 0.802357
Target:  5'- gCGACGaacUCGUCGGCCuGUuCGGc---- -3'
miRNA:   3'- -GCUGC---AGCAGCCGGuCAuGCCacuug -5'
16270 3' -54.7 NC_004084.1 + 39787 0.66 0.783073
Target:  5'- gCGACGagGUCGGCCAacuCGGcGAc- -3'
miRNA:   3'- -GCUGCagCAGCCGGUcauGCCaCUug -5'
16270 3' -54.7 NC_004084.1 + 38857 0.66 0.773195
Target:  5'- gGACGUCGUCcucgucgaGCCAGaguUGCGG-GAAg -3'
miRNA:   3'- gCUGCAGCAGc-------CGGUC---AUGCCaCUUg -5'
16270 3' -54.7 NC_004084.1 + 16915 0.66 0.773195
Target:  5'- aGGCGaUCGU-GGCCGgGUGCGGUucggcaucggcGGGCg -3'
miRNA:   3'- gCUGC-AGCAgCCGGU-CAUGCCA-----------CUUG- -5'
16270 3' -54.7 NC_004084.1 + 4125 0.67 0.743786
Target:  5'- aCGACGUCGucuUCGGCCAGcagaaugcuuaccagACGGccGAugACg -3'
miRNA:   3'- -GCUGCAGC---AGCCGGUCa--------------UGCCa-CU--UG- -5'
16270 3' -54.7 NC_004084.1 + 11657 0.67 0.732373
Target:  5'- uCGACGUCgGUCGGCgAcgacUACGGcgaGGACa -3'
miRNA:   3'- -GCUGCAG-CAGCCGgUc---AUGCCa--CUUG- -5'
16270 3' -54.7 NC_004084.1 + 15100 0.67 0.721895
Target:  5'- --uCGUCGUCGGUguGaccguaGCGGUGGAa -3'
miRNA:   3'- gcuGCAGCAGCCGguCa-----UGCCACUUg -5'
16270 3' -54.7 NC_004084.1 + 54265 0.67 0.721895
Target:  5'- gCGACGUCaUCGGCC-GUcUGGUaAGCa -3'
miRNA:   3'- -GCUGCAGcAGCCGGuCAuGCCAcUUG- -5'
16270 3' -54.7 NC_004084.1 + 45416 0.67 0.711329
Target:  5'- uCGAgGUCGUCGaucgaGCCGGauguCGGUGcGACa -3'
miRNA:   3'- -GCUgCAGCAGC-----CGGUCau--GCCAC-UUG- -5'
16270 3' -54.7 NC_004084.1 + 9941 0.67 0.711329
Target:  5'- aGACGUgCGUCGGCgGGU-CGGaGuAGCc -3'
miRNA:   3'- gCUGCA-GCAGCCGgUCAuGCCaC-UUG- -5'
16270 3' -54.7 NC_004084.1 + 37688 0.68 0.689981
Target:  5'- uCGACGUCGUCGacaCCAGcaACGGgauccccGAACu -3'
miRNA:   3'- -GCUGCAGCAGCc--GGUCa-UGCCa------CUUG- -5'
16270 3' -54.7 NC_004084.1 + 31075 0.68 0.679219
Target:  5'- aGACGUCGUcCGGCCcaccGCGucccucgaacGUGAACg -3'
miRNA:   3'- gCUGCAGCA-GCCGGuca-UGC----------CACUUG- -5'
16270 3' -54.7 NC_004084.1 + 17564 0.68 0.646715
Target:  5'- uCGAUcUCGaCGGCCAGUuCGG-GGACc -3'
miRNA:   3'- -GCUGcAGCaGCCGGUCAuGCCaCUUG- -5'
16270 3' -54.7 NC_004084.1 + 2047 0.69 0.624964
Target:  5'- uCGAUGUCGau-GCC-GUACGGUGGAUc -3'
miRNA:   3'- -GCUGCAGCagcCGGuCAUGCCACUUG- -5'
16270 3' -54.7 NC_004084.1 + 23578 0.69 0.622789
Target:  5'- cCGcUGUCGUCGagaGCCAGaucgcgauggacGCGGUGAGCa -3'
miRNA:   3'- -GCuGCAGCAGC---CGGUCa-----------UGCCACUUG- -5'
16270 3' -54.7 NC_004084.1 + 44342 0.69 0.614093
Target:  5'- uCGACGUcuaCGUCGGUC---GCGGUGAcaACg -3'
miRNA:   3'- -GCUGCA---GCAGCCGGucaUGCCACU--UG- -5'
16270 3' -54.7 NC_004084.1 + 6716 0.69 0.614093
Target:  5'- cCGGCGaUGUCcGuCCGGUACGG-GAACg -3'
miRNA:   3'- -GCUGCaGCAGcC-GGUCAUGCCaCUUG- -5'
16270 3' -54.7 NC_004084.1 + 53309 0.69 0.603237
Target:  5'- uCGACG--GUCGGCCAGcugGCGGcccgccUGGGCa -3'
miRNA:   3'- -GCUGCagCAGCCGGUCa--UGCC------ACUUG- -5'
16270 3' -54.7 NC_004084.1 + 18147 0.7 0.581606
Target:  5'- aCGACGUCGcCGGCgAGUggACGaUGGAg -3'
miRNA:   3'- -GCUGCAGCaGCCGgUCA--UGCcACUUg -5'
16270 3' -54.7 NC_004084.1 + 3174 0.7 0.581606
Target:  5'- aGACGUCGUcgaCGGCgAGgAC-GUGAACg -3'
miRNA:   3'- gCUGCAGCA---GCCGgUCaUGcCACUUG- -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.