miRNA display CGI


Results 1 - 17 of 17 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
1830 3' -49.8 NC_001347.2 + 198732 0.66 0.999681
Target:  5'- -uUCCgCCGCUUAACA-ACGUGUcCAg -3'
miRNA:   3'- gcAGG-GGCGAGUUGUaUGCAUAuGUg -5'
1830 3' -49.8 NC_001347.2 + 66252 0.66 0.999601
Target:  5'- aGUUCCUGCUUGGCGUugucguccaACGgcUGCAg -3'
miRNA:   3'- gCAGGGGCGAGUUGUA---------UGCauAUGUg -5'
1830 3' -49.8 NC_001347.2 + 155843 0.66 0.999601
Target:  5'- --aCCCUGCUCAAUAaagucACGUuuuccuUACACg -3'
miRNA:   3'- gcaGGGGCGAGUUGUa----UGCAu-----AUGUG- -5'
1830 3' -49.8 NC_001347.2 + 227133 0.67 0.999024
Target:  5'- cCGaCCCCGCUgccagauugugccgCGACAUGCG---ACGCg -3'
miRNA:   3'- -GCaGGGGCGA--------------GUUGUAUGCauaUGUG- -5'
1830 3' -49.8 NC_001347.2 + 148507 0.67 0.998883
Target:  5'- gCGUCCaacgCCGuCUCGcGCAUuaACGUGUGCAg -3'
miRNA:   3'- -GCAGG----GGC-GAGU-UGUA--UGCAUAUGUg -5'
1830 3' -49.8 NC_001347.2 + 167765 0.67 0.998883
Target:  5'- aCGUccCCCCGCUgAGCGUugGcg-GCGa -3'
miRNA:   3'- -GCA--GGGGCGAgUUGUAugCauaUGUg -5'
1830 3' -49.8 NC_001347.2 + 42596 0.67 0.998651
Target:  5'- gGUCaaCGCcgUCAACAagcuCGUGUACACg -3'
miRNA:   3'- gCAGggGCG--AGUUGUau--GCAUAUGUG- -5'
1830 3' -49.8 NC_001347.2 + 36547 0.67 0.998379
Target:  5'- --aCCgCCGCUCGuuGCGccUACGUAgagGCGCa -3'
miRNA:   3'- gcaGG-GGCGAGU--UGU--AUGCAUa--UGUG- -5'
1830 3' -49.8 NC_001347.2 + 148804 0.68 0.997694
Target:  5'- gCGUCgUCGCUCGGCGg----GUGCGCa -3'
miRNA:   3'- -GCAGgGGCGAGUUGUaugcaUAUGUG- -5'
1830 3' -49.8 NC_001347.2 + 77260 0.68 0.997694
Target:  5'- uGUCCUCGCaCGAgGUGCaGgcgAUGCGCg -3'
miRNA:   3'- gCAGGGGCGaGUUgUAUG-Ca--UAUGUG- -5'
1830 3' -49.8 NC_001347.2 + 47899 0.68 0.997694
Target:  5'- aGUCCCgGC-CGAggUGUACGUGgACGCg -3'
miRNA:   3'- gCAGGGgCGaGUU--GUAUGCAUaUGUG- -5'
1830 3' -49.8 NC_001347.2 + 228431 0.68 0.99727
Target:  5'- gCGUCgCUGCUgaCGGcCGUGCGUcgGCACc -3'
miRNA:   3'- -GCAGgGGCGA--GUU-GUAUGCAuaUGUG- -5'
1830 3' -49.8 NC_001347.2 + 224573 0.68 0.995594
Target:  5'- cCGUCCCa-CUCGGCGUauaacGCGUG-ACACu -3'
miRNA:   3'- -GCAGGGgcGAGUUGUA-----UGCAUaUGUG- -5'
1830 3' -49.8 NC_001347.2 + 103499 0.69 0.994644
Target:  5'- -cUUCUCGCUCGACAacuuucuacacgacUACGUGgagACGCa -3'
miRNA:   3'- gcAGGGGCGAGUUGU--------------AUGCAUa--UGUG- -5'
1830 3' -49.8 NC_001347.2 + 177182 0.7 0.984966
Target:  5'- cCGUCCCCGC-CAugGUcuaaacugACGUAUuccaaaccgcaugACGCg -3'
miRNA:   3'- -GCAGGGGCGaGUugUA--------UGCAUA-------------UGUG- -5'
1830 3' -49.8 NC_001347.2 + 150118 0.71 0.981288
Target:  5'- aGcCaCCCGCUUAGCA-GCGUGuUGCGCg -3'
miRNA:   3'- gCaG-GGGCGAGUUGUaUGCAU-AUGUG- -5'
1830 3' -49.8 NC_001347.2 + 61195 0.72 0.965249
Target:  5'- gCGcUgCCUGCUCGAaa-GCGUGUACACg -3'
miRNA:   3'- -GC-AgGGGCGAGUUguaUGCAUAUGUG- -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.