miRNA display CGI


Results 1 - 20 of 64 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
22882 3' -53.9 NC_005137.2 + 67322 1.11 0.00355
Target:  5'- aUCGCCCGUCAACACAAACGCGUCGGGu -3'
miRNA:   3'- -AGCGGGCAGUUGUGUUUGCGCAGCCC- -5'
22882 3' -53.9 NC_005137.2 + 20351 0.8 0.324752
Target:  5'- aCGCCCGUCAcggGCACAAgccaaACGCcGUCGGc -3'
miRNA:   3'- aGCGGGCAGU---UGUGUU-----UGCG-CAGCCc -5'
22882 3' -53.9 NC_005137.2 + 60426 0.8 0.33224
Target:  5'- cCGCCCGcgCAGCACGAACGCaugauUUGGGa -3'
miRNA:   3'- aGCGGGCa-GUUGUGUUUGCGc----AGCCC- -5'
22882 3' -53.9 NC_005137.2 + 35360 0.77 0.440745
Target:  5'- cUUGCCCGUCGGCGCAcGGCGCacgCGGa -3'
miRNA:   3'- -AGCGGGCAGUUGUGU-UUGCGca-GCCc -5'
22882 3' -53.9 NC_005137.2 + 67540 0.76 0.477969
Target:  5'- aCGCCgCGaggCGGCACAAACGCGcgccgagCGGGa -3'
miRNA:   3'- aGCGG-GCa--GUUGUGUUUGCGCa------GCCC- -5'
22882 3' -53.9 NC_005137.2 + 84561 0.74 0.638482
Target:  5'- gUGCaacaCGUCGGCGCGuucgGGCGgGUCGGGc -3'
miRNA:   3'- aGCGg---GCAGUUGUGU----UUGCgCAGCCC- -5'
22882 3' -53.9 NC_005137.2 + 90857 0.73 0.679551
Target:  5'- cUCGCCCGUCAucaGC-AACGUGuuuuuguucUCGGGc -3'
miRNA:   3'- -AGCGGGCAGUug-UGuUUGCGC---------AGCCC- -5'
22882 3' -53.9 NC_005137.2 + 65437 0.73 0.689741
Target:  5'- gUUGCCCGUguACACAuACGCGUUu-- -3'
miRNA:   3'- -AGCGGGCAguUGUGUuUGCGCAGccc -5'
22882 3' -53.9 NC_005137.2 + 68381 0.72 0.709967
Target:  5'- ---aCCGUCAucUACGGACGCGUCGGc -3'
miRNA:   3'- agcgGGCAGUu-GUGUUUGCGCAGCCc -5'
22882 3' -53.9 NC_005137.2 + 93508 0.72 0.719985
Target:  5'- gUCGUagCCGaCGGCGCAAaugcACGCGUCGGc -3'
miRNA:   3'- -AGCG--GGCaGUUGUGUU----UGCGCAGCCc -5'
22882 3' -53.9 NC_005137.2 + 78636 0.72 0.723971
Target:  5'- -gGCCCGUCAugucggagaaaaacuGCACAAuaaGCG-CGGGc -3'
miRNA:   3'- agCGGGCAGU---------------UGUGUUug-CGCaGCCC- -5'
22882 3' -53.9 NC_005137.2 + 37560 0.72 0.729926
Target:  5'- gUGCCCGUauGCAucccCGAACGCauGUCGGGu -3'
miRNA:   3'- aGCGGGCAguUGU----GUUUGCG--CAGCCC- -5'
22882 3' -53.9 NC_005137.2 + 948 0.72 0.729926
Target:  5'- gCGCCCGUCAucgGCGCAauAAgGCG-CGGc -3'
miRNA:   3'- aGCGGGCAGU---UGUGU--UUgCGCaGCCc -5'
22882 3' -53.9 NC_005137.2 + 34517 0.71 0.748571
Target:  5'- gCGCCCGUgGACACG-ACGCGcaccguguugcguUCGcGGu -3'
miRNA:   3'- aGCGGGCAgUUGUGUuUGCGC-------------AGC-CC- -5'
22882 3' -53.9 NC_005137.2 + 103563 0.7 0.814418
Target:  5'- aUUGCgCGUaCGAgACAAGCGCGU-GGGc -3'
miRNA:   3'- -AGCGgGCA-GUUgUGUUUGCGCAgCCC- -5'
22882 3' -53.9 NC_005137.2 + 100147 0.69 0.855919
Target:  5'- cUCGCCCacg--UACGGGCGCGcCGGGu -3'
miRNA:   3'- -AGCGGGcaguuGUGUUUGCGCaGCCC- -5'
22882 3' -53.9 NC_005137.2 + 88128 0.69 0.855919
Target:  5'- aCGCCC-UCAACGgAcACGCGaUCGGc -3'
miRNA:   3'- aGCGGGcAGUUGUgUuUGCGC-AGCCc -5'
22882 3' -53.9 NC_005137.2 + 45306 0.69 0.855919
Target:  5'- uUUGUCCGUgAugagcugacGCGCAAACGUGUCGa- -3'
miRNA:   3'- -AGCGGGCAgU---------UGUGUUUGCGCAGCcc -5'
22882 3' -53.9 NC_005137.2 + 109007 0.69 0.863632
Target:  5'- aCGCUgGUCAuCGCGAuaACGCGcgUGGGu -3'
miRNA:   3'- aGCGGgCAGUuGUGUU--UGCGCa-GCCC- -5'
22882 3' -53.9 NC_005137.2 + 35650 0.69 0.863632
Target:  5'- aCGCCCGUacugggauuGCACGAacguGCGCGUuCGcGGu -3'
miRNA:   3'- aGCGGGCAgu-------UGUGUU----UGCGCA-GC-CC- -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.