miRNA display CGI


Results 1 - 20 of 37 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
18441 3' -54.9 NC_004681.1 + 17819 0.66 0.809697
Target:  5'- aCGCggCGGcCGCgCAAGGCAccGGcCUCa -3'
miRNA:   3'- -GCGuaGCC-GCG-GUUCUGUaaCC-GAGc -5'
18441 3' -54.9 NC_004681.1 + 56316 0.67 0.751151
Target:  5'- aGCAcacccaCGGCGCCAAGGCGUccaaGGUgcagCGc -3'
miRNA:   3'- gCGUa-----GCCGCGGUUCUGUAa---CCGa---GC- -5'
18441 3' -54.9 NC_004681.1 + 18498 0.67 0.751151
Target:  5'- gGUAUCGGCGCCGAG-----GGuCUCa -3'
miRNA:   3'- gCGUAGCCGCGGUUCuguaaCC-GAGc -5'
18441 3' -54.9 NC_004681.1 + 34696 0.67 0.751151
Target:  5'- uCGCuUCGGCGCCuucGGugcg-GGCUUGg -3'
miRNA:   3'- -GCGuAGCCGCGGu--UCuguaaCCGAGC- -5'
18441 3' -54.9 NC_004681.1 + 27812 0.67 0.761264
Target:  5'- gCGCggCGGCGCCA--ACggUGGCg-- -3'
miRNA:   3'- -GCGuaGCCGCGGUucUGuaACCGagc -5'
18441 3' -54.9 NC_004681.1 + 16368 0.67 0.781094
Target:  5'- gCGaCGagGGCGCCAAGugGgUUGcCUCGg -3'
miRNA:   3'- -GC-GUagCCGCGGUUCugU-AACcGAGC- -5'
18441 3' -54.9 NC_004681.1 + 17071 0.66 0.800329
Target:  5'- aGCAccaaCGGUGCCGguGGAUucugGGCUCa -3'
miRNA:   3'- gCGUa---GCCGCGGU--UCUGuaa-CCGAGc -5'
18441 3' -54.9 NC_004681.1 + 17488 0.66 0.800329
Target:  5'- gGCAUgGGCgGCCucgGAGACuuccggGUUGGCUUc -3'
miRNA:   3'- gCGUAgCCG-CGG---UUCUG------UAACCGAGc -5'
18441 3' -54.9 NC_004681.1 + 62692 0.66 0.800329
Target:  5'- gCGuCGUCGGCGCCGgaugaggcGGACGgggugggGGCg-- -3'
miRNA:   3'- -GC-GUAGCCGCGGU--------UCUGUaa-----CCGagc -5'
18441 3' -54.9 NC_004681.1 + 26611 0.68 0.709641
Target:  5'- gGCGUUGGCGUCcAGACGUU--CUCGc -3'
miRNA:   3'- gCGUAGCCGCGGuUCUGUAAccGAGC- -5'
18441 3' -54.9 NC_004681.1 + 24841 0.68 0.709641
Target:  5'- gGCGUCGGCGgCGcGGGCGgcGGC-CGc -3'
miRNA:   3'- gCGUAGCCGCgGU-UCUGUaaCCGaGC- -5'
18441 3' -54.9 NC_004681.1 + 3038 0.69 0.666955
Target:  5'- cCGCAcccgCGGCGCCAAgGGCcuggUGGCa-- -3'
miRNA:   3'- -GCGUa---GCCGCGGUU-CUGua--ACCGagc -5'
18441 3' -54.9 NC_004681.1 + 39966 0.84 0.084054
Target:  5'- gCGCGUCGGCGCCGGGucaacuCAccGGCUCGg -3'
miRNA:   3'- -GCGUAGCCGCGGUUCu-----GUaaCCGAGC- -5'
18441 3' -54.9 NC_004681.1 + 37476 0.73 0.409824
Target:  5'- cCGCAUUGGCaGCCGGGAUugcauggUGGCgCGg -3'
miRNA:   3'- -GCGUAGCCG-CGGUUCUGua-----ACCGaGC- -5'
18441 3' -54.9 NC_004681.1 + 39320 0.73 0.437825
Target:  5'- gCGCG-CGGCGCCGcgcuGGACAc-GGCUCc -3'
miRNA:   3'- -GCGUaGCCGCGGU----UCUGUaaCCGAGc -5'
18441 3' -54.9 NC_004681.1 + 38233 0.71 0.504055
Target:  5'- cCGCggCGGCGCCAuaggcaccgugucaGGACccuccgGGCUCa -3'
miRNA:   3'- -GCGuaGCCGCGGU--------------UCUGuaa---CCGAGc -5'
18441 3' -54.9 NC_004681.1 + 18108 0.71 0.507125
Target:  5'- gGCAUCGGCGCCcccggccAGGCAccGGgUCa -3'
miRNA:   3'- gCGUAGCCGCGGu------UCUGUaaCCgAGc -5'
18441 3' -54.9 NC_004681.1 + 31230 0.7 0.559346
Target:  5'- aGCGUggcugggggacCGGCGCCGAGuguUUGGCUaCGg -3'
miRNA:   3'- gCGUA-----------GCCGCGGUUCuguAACCGA-GC- -5'
18441 3' -54.9 NC_004681.1 + 25002 0.69 0.612957
Target:  5'- gGCGUCGGCGgCAAGGg--UGGCgacaCGg -3'
miRNA:   3'- gCGUAGCCGCgGUUCUguaACCGa---GC- -5'
18441 3' -54.9 NC_004681.1 + 9091 0.69 0.645382
Target:  5'- cCGCGUcgucacCGGCGCCGcuGGCucgGGCUCu -3'
miRNA:   3'- -GCGUA------GCCGCGGUu-CUGuaaCCGAGc -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.