miRNA display CGI


Results 1 - 20 of 90 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
5544 3' -62 NC_001806.1 + 1447 0.8 0.117983
Target:  5'- gCCGGCGGCAGGGCCcccGGG-CCGUCg- -3'
miRNA:   3'- -GGCCGCCGUCUUGGc--CCCaGGCAGgu -5'
5544 3' -62 NC_001806.1 + 1751 0.66 0.653429
Target:  5'- cCCGGCGGUacucgcgcggGGAcaugggcACCGGcGuGUCCGggCCGa -3'
miRNA:   3'- -GGCCGCCG----------UCU-------UGGCC-C-CAGGCa-GGU- -5'
5544 3' -62 NC_001806.1 + 2459 0.7 0.465831
Target:  5'- cCCGGCGGCcccgugGGggUgGGGGUuaUCGUCg- -3'
miRNA:   3'- -GGCCGCCG------UCuuGgCCCCA--GGCAGgu -5'
5544 3' -62 NC_001806.1 + 2682 0.66 0.66407
Target:  5'- gCCGuGUGGCuGGGCCccGGGGgcugCCGccgCCAg -3'
miRNA:   3'- -GGC-CGCCGuCUUGG--CCCCa---GGCa--GGU- -5'
5544 3' -62 NC_001806.1 + 2866 0.69 0.520263
Target:  5'- -gGGgGGCGcgggcguccGAGCCGGGGg-CGUCCGc -3'
miRNA:   3'- ggCCgCCGU---------CUUGGCCCCagGCAGGU- -5'
5544 3' -62 NC_001806.1 + 3309 0.75 0.225734
Target:  5'- gCGGCGGCGGGGaagcggggcCCGcGGGUCCcUCCGg -3'
miRNA:   3'- gGCCGCCGUCUU---------GGC-CCCAGGcAGGU- -5'
5544 3' -62 NC_001806.1 + 3511 0.66 0.692918
Target:  5'- gUGGCgGGCGGcgUCGGGGU-CGUCg- -3'
miRNA:   3'- gGCCG-CCGUCuuGGCCCCAgGCAGgu -5'
5544 3' -62 NC_001806.1 + 4346 0.67 0.632102
Target:  5'- cCCGGCGGCGcucGAugcggcccgcggagGCCgcgGGGGUCCucgCCGc -3'
miRNA:   3'- -GGCCGCCGU---CU--------------UGG---CCCCAGGca-GGU- -5'
5544 3' -62 NC_001806.1 + 4439 0.66 0.654397
Target:  5'- gCGGgGGCGGcguccgcCCGGGGgcugCCGgcgCCGc -3'
miRNA:   3'- gGCCgCCGUCuu-----GGCCCCa---GGCa--GGU- -5'
5544 3' -62 NC_001806.1 + 4658 0.71 0.403033
Target:  5'- gCGGCGGCuGGGCCGGcGGgcgcggcgacaggCgGUCCGu -3'
miRNA:   3'- gGCCGCCGuCUUGGCC-CCa------------GgCAGGU- -5'
5544 3' -62 NC_001806.1 + 4730 0.71 0.40629
Target:  5'- cCCGuucGCGGCcccGGGCCGGGGcCCGgucgCCGg -3'
miRNA:   3'- -GGC---CGCCGu--CUUGGCCCCaGGCa---GGU- -5'
5544 3' -62 NC_001806.1 + 4830 0.68 0.548409
Target:  5'- -gGGCGGCGaGGCCgcGGGGUCgggcgucgggauCGUCCGg -3'
miRNA:   3'- ggCCGCCGUcUUGG--CCCCAG------------GCAGGU- -5'
5544 3' -62 NC_001806.1 + 5105 0.66 0.683338
Target:  5'- gUCGGUggGGCccggGGAGCCGGGGcgcugcuuguucUCCGacgCCAu -3'
miRNA:   3'- -GGCCG--CCG----UCUUGGCCCC------------AGGCa--GGU- -5'
5544 3' -62 NC_001806.1 + 5935 0.72 0.358474
Target:  5'- gCCGGCgGGCGGGACCgccccaagggggcGGGG-CCG-CCGg -3'
miRNA:   3'- -GGCCG-CCGUCUUGG-------------CCCCaGGCaGGU- -5'
5544 3' -62 NC_001806.1 + 6076 0.67 0.604967
Target:  5'- cCCGGgGGCGGGcCCGggcggcggggggcGGGUCUcUCCGg -3'
miRNA:   3'- -GGCCgCCGUCUuGGC-------------CCCAGGcAGGU- -5'
5544 3' -62 NC_001806.1 + 10686 0.67 0.644709
Target:  5'- cCCGGUcGCAGAugggGCCGGGGgggCGUacgCCAu -3'
miRNA:   3'- -GGCCGcCGUCU----UGGCCCCag-GCA---GGU- -5'
5544 3' -62 NC_001806.1 + 17789 0.71 0.40629
Target:  5'- -gGGUGGgAGAACCGuGGG-CCGUgCCGa -3'
miRNA:   3'- ggCCGCCgUCUUGGC-CCCaGGCA-GGU- -5'
5544 3' -62 NC_001806.1 + 18376 0.66 0.683338
Target:  5'- -aGGCGGUGGAGaagcgcauuuuCCGGcagCCGUCCAg -3'
miRNA:   3'- ggCCGCCGUCUU-----------GGCCccaGGCAGGU- -5'
5544 3' -62 NC_001806.1 + 19888 0.71 0.382276
Target:  5'- aCCGGUGGguuucugucguCGGAGgcccCCGGGGUgCGUCCc -3'
miRNA:   3'- -GGCCGCC-----------GUCUU----GGCCCCAgGCAGGu -5'
5544 3' -62 NC_001806.1 + 20393 0.81 0.08966
Target:  5'- uCCGGCgGGCGGGACCGGGGggcCCGgggacggCCAa -3'
miRNA:   3'- -GGCCG-CCGUCUUGGCCCCa--GGCa------GGU- -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.