miRNA display CGI


Results 1 - 20 of 40 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
1537 5' -55.7 NC_001347.2 + 229291 1.09 0.005533
Target:  5'- gCGGCCAGAACGCUCGAAAACCCCCGAc -3'
miRNA:   3'- -GCCGGUCUUGCGAGCUUUUGGGGGCU- -5'
1537 5' -55.7 NC_001347.2 + 39547 0.77 0.479286
Target:  5'- gGGCCAuGGGCGC-CGGAcACCUCCGAc -3'
miRNA:   3'- gCCGGU-CUUGCGaGCUUuUGGGGGCU- -5'
1537 5' -55.7 NC_001347.2 + 135891 0.73 0.692789
Target:  5'- gGGUgGGAAgccccCGCUCGGGucCCCCCGGg -3'
miRNA:   3'- gCCGgUCUU-----GCGAGCUUuuGGGGGCU- -5'
1537 5' -55.7 NC_001347.2 + 81407 0.73 0.712215
Target:  5'- uGGCCAGcacGCGCUCGAccAAAUCCaCGAu -3'
miRNA:   3'- gCCGGUCu--UGCGAGCU--UUUGGGgGCU- -5'
1537 5' -55.7 NC_001347.2 + 162696 0.72 0.721837
Target:  5'- aGGCCcaAGAGCaGCUCGAGuguGGCCUCCa- -3'
miRNA:   3'- gCCGG--UCUUG-CGAGCUU---UUGGGGGcu -5'
1537 5' -55.7 NC_001347.2 + 185042 0.72 0.730435
Target:  5'- uCGGCCGGcgcGCGCUUGAgcugugcGAugCCCUGGu -3'
miRNA:   3'- -GCCGGUCu--UGCGAGCU-------UUugGGGGCU- -5'
1537 5' -55.7 NC_001347.2 + 135963 0.71 0.781347
Target:  5'- cCGGCCGGGcCGUcggaugggggggUCGAGcggggggaggggaggGACCCCCGGc -3'
miRNA:   3'- -GCCGGUCUuGCG------------AGCUU---------------UUGGGGGCU- -5'
1537 5' -55.7 NC_001347.2 + 156816 0.71 0.785808
Target:  5'- gGGCCAGGACG-UCGGAGgguccgcgcgucgGCCUCUGGa -3'
miRNA:   3'- gCCGGUCUUGCgAGCUUU-------------UGGGGGCU- -5'
1537 5' -55.7 NC_001347.2 + 132977 0.71 0.804179
Target:  5'- uGGUCAGAugGaacgucgucgguCUCGAGcgcCCCCCGAu -3'
miRNA:   3'- gCCGGUCUugC------------GAGCUUuu-GGGGGCU- -5'
1537 5' -55.7 NC_001347.2 + 4639 0.71 0.804179
Target:  5'- aGGCCuGAACGCcaagCGAAggUCCCUc- -3'
miRNA:   3'- gCCGGuCUUGCGa---GCUUuuGGGGGcu -5'
1537 5' -55.7 NC_001347.2 + 87745 0.7 0.821076
Target:  5'- gCGGCCAGAccuCGC-CGAAGGagCCCUGGc -3'
miRNA:   3'- -GCCGGUCUu--GCGaGCUUUUg-GGGGCU- -5'
1537 5' -55.7 NC_001347.2 + 135679 0.7 0.837331
Target:  5'- gGGCCGGGAaggggaGCUgGGugggGGAUCCCCGGu -3'
miRNA:   3'- gCCGGUCUUg-----CGAgCU----UUUGGGGGCU- -5'
1537 5' -55.7 NC_001347.2 + 142145 0.69 0.8748
Target:  5'- uGGCgCuGGACGC-CGAGAACuuggauugcgaCCCCGAa -3'
miRNA:   3'- gCCG-GuCUUGCGaGCUUUUG-----------GGGGCU- -5'
1537 5' -55.7 NC_001347.2 + 177724 0.68 0.901156
Target:  5'- aGGCUcGGACGCcCGAgguGAACCCCauCGAc -3'
miRNA:   3'- gCCGGuCUUGCGaGCU---UUUGGGG--GCU- -5'
1537 5' -55.7 NC_001347.2 + 209767 0.68 0.907208
Target:  5'- aCGGCCAGuucuuGCGCUUc--GGCCgCCGGg -3'
miRNA:   3'- -GCCGGUCu----UGCGAGcuuUUGGgGGCU- -5'
1537 5' -55.7 NC_001347.2 + 23256 0.68 0.918648
Target:  5'- aCGGCCuGGGCGCcCcc--ACCCCCGc -3'
miRNA:   3'- -GCCGGuCUUGCGaGcuuuUGGGGGCu -5'
1537 5' -55.7 NC_001347.2 + 75992 0.68 0.924034
Target:  5'- gGGUCGGccaGCUCGcAGAGCUCCUGGu -3'
miRNA:   3'- gCCGGUCuugCGAGC-UUUUGGGGGCU- -5'
1537 5' -55.7 NC_001347.2 + 35255 0.68 0.924034
Target:  5'- aGGCCgcGGGguACGgaCUCGAAGGCgCCCGGu -3'
miRNA:   3'- gCCGG--UCU--UGC--GAGCUUUUGgGGGCU- -5'
1537 5' -55.7 NC_001347.2 + 79191 0.68 0.924034
Target:  5'- gCGGcCCAGAGCGUgucggccgauuUCGAaaugGAGgCCCUGAu -3'
miRNA:   3'- -GCC-GGUCUUGCG-----------AGCU----UUUgGGGGCU- -5'
1537 5' -55.7 NC_001347.2 + 165971 0.68 0.927671
Target:  5'- gCGGCCAGGugugcggguucguaGCGCgcacCcAGGACCUCCGGu -3'
miRNA:   3'- -GCCGGUCU--------------UGCGa---GcUUUUGGGGGCU- -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.