miRNA display CGI


Results 1 - 20 of 39 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
30723 5' -61.7 NC_006552.1 + 52224 1.1 0.000249
Target:  5'- aCCAGCCGGCCCUGGACAACCUGGCCAa -3'
miRNA:   3'- -GGUCGGCCGGGACCUGUUGGACCGGU- -5'
30723 5' -61.7 NC_006552.1 + 60288 0.8 0.04308
Target:  5'- cCCGGCUGGCCCUGGGCAucggccCCUGGgUg -3'
miRNA:   3'- -GGUCGGCCGGGACCUGUu-----GGACCgGu -5'
30723 5' -61.7 NC_006552.1 + 61655 0.76 0.098202
Target:  5'- gCCGGCCGGacguccaaCCUGGccgccGCAcggACCUGGCCGc -3'
miRNA:   3'- -GGUCGGCCg-------GGACC-----UGU---UGGACCGGU- -5'
30723 5' -61.7 NC_006552.1 + 57416 0.72 0.171247
Target:  5'- aCGGCCuGGCCCUGGACGACa---CCGa -3'
miRNA:   3'- gGUCGG-CCGGGACCUGUUGgaccGGU- -5'
30723 5' -61.7 NC_006552.1 + 13629 0.71 0.20484
Target:  5'- gUCGGCaCGGgCCUGcucGGCGGCCUGGCg- -3'
miRNA:   3'- -GGUCG-GCCgGGAC---CUGUUGGACCGgu -5'
30723 5' -61.7 NC_006552.1 + 26247 0.71 0.206922
Target:  5'- gCCGGUCGGCCCagcUccgguagcgucggcaGGAUGACCgUGGCCGc -3'
miRNA:   3'- -GGUCGGCCGGG---A---------------CCUGUUGG-ACCGGU- -5'
30723 5' -61.7 NC_006552.1 + 20531 0.71 0.213818
Target:  5'- uUCAGCCGGCCUUGcucGCGcaccacaucuaccuGCCUGGCgAg -3'
miRNA:   3'- -GGUCGGCCGGGACc--UGU--------------UGGACCGgU- -5'
30723 5' -61.7 NC_006552.1 + 63025 0.71 0.215437
Target:  5'- -uGGCC-GCCCaGcGCAACCUGGCCGc -3'
miRNA:   3'- ggUCGGcCGGGaCcUGUUGGACCGGU- -5'
30723 5' -61.7 NC_006552.1 + 53610 0.7 0.220909
Target:  5'- gCC-GCCGGCUgaGGugGagGCCUGaGCCAu -3'
miRNA:   3'- -GGuCGGCCGGgaCCugU--UGGAC-CGGU- -5'
30723 5' -61.7 NC_006552.1 + 24732 0.7 0.2265
Target:  5'- aCCAGCCGGCgCC-GGGCcuGCUcGGUCAa -3'
miRNA:   3'- -GGUCGGCCG-GGaCCUGu-UGGaCCGGU- -5'
30723 5' -61.7 NC_006552.1 + 50337 0.7 0.2265
Target:  5'- gCguGCUGGCCCUGGugGcuccguuuuacGgCUGGCUg -3'
miRNA:   3'- -GguCGGCCGGGACCugU-----------UgGACCGGu -5'
30723 5' -61.7 NC_006552.1 + 33378 0.7 0.238041
Target:  5'- aCgGGCCGGCCCUucguaGGGCGGCggcgcuuagaCUGcGCCGa -3'
miRNA:   3'- -GgUCGGCCGGGA-----CCUGUUG----------GAC-CGGU- -5'
30723 5' -61.7 NC_006552.1 + 37960 0.7 0.243994
Target:  5'- uCCGGCCuuGGCCa-GGGCGucuugcacgGCCUGGUCGa -3'
miRNA:   3'- -GGUCGG--CCGGgaCCUGU---------UGGACCGGU- -5'
30723 5' -61.7 NC_006552.1 + 53995 0.7 0.25007
Target:  5'- gCCAGgCgcguGGCCCUGGc---CCUGGCCGc -3'
miRNA:   3'- -GGUCgG----CCGGGACCuguuGGACCGGU- -5'
30723 5' -61.7 NC_006552.1 + 64444 0.69 0.269049
Target:  5'- cUCGGCCuGGCCgUGGugGGgCUGGUgGa -3'
miRNA:   3'- -GGUCGG-CCGGgACCugUUgGACCGgU- -5'
30723 5' -61.7 NC_006552.1 + 35354 0.69 0.275628
Target:  5'- gCCAGCCGgaggcuugccGCCCgGGAUAuccgagagaCUGGCCGg -3'
miRNA:   3'- -GGUCGGC----------CGGGaCCUGUug-------GACCGGU- -5'
30723 5' -61.7 NC_006552.1 + 37668 0.69 0.276293
Target:  5'- gCuGCCGGCCCcuguccuuggauguaGGGCGACCugauguucaUGGCCGc -3'
miRNA:   3'- gGuCGGCCGGGa--------------CCUGUUGG---------ACCGGU- -5'
30723 5' -61.7 NC_006552.1 + 52477 0.69 0.296137
Target:  5'- --cGCCaGCgCgUGGGCAACCUgcGGCCAg -3'
miRNA:   3'- gguCGGcCG-GgACCUGUUGGA--CCGGU- -5'
30723 5' -61.7 NC_006552.1 + 43232 0.68 0.303232
Target:  5'- uUCAGCCGGCCaagcgcuUGGAaucgAugCUGGCUc -3'
miRNA:   3'- -GGUCGGCCGGg------ACCUg---UugGACCGGu -5'
30723 5' -61.7 NC_006552.1 + 23632 0.68 0.316332
Target:  5'- uUCAGCCGcgugcacgauuuuucGaCCUUGGACGGCCaguagaacgguccacUGGCCAc -3'
miRNA:   3'- -GGUCGGC---------------C-GGGACCUGUUGG---------------ACCGGU- -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.