miRNA display CGI


Results 1 - 20 of 44 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
25794 5' -60.1 NC_005337.1 + 25800 0.66 0.678974
Target:  5'- -cGAuGGCCGUGCaGCUcuuggcGGAGGCGUa- -3'
miRNA:   3'- acCU-CCGGCACG-CGGu-----CCUCCGUAac -5'
25794 5' -60.1 NC_005337.1 + 9758 0.68 0.528103
Target:  5'- cGucGGCCG-GCGCCGGGuuGGCAc-- -3'
miRNA:   3'- aCcuCCGGCaCGCGGUCCu-CCGUaac -5'
25794 5' -60.1 NC_005337.1 + 10409 0.68 0.557731
Target:  5'- gUGGAGGUgCGgcUGCGcCCAGGAGGaCGc-- -3'
miRNA:   3'- -ACCUCCG-GC--ACGC-GGUCCUCC-GUaac -5'
25794 5' -60.1 NC_005337.1 + 29544 0.67 0.597911
Target:  5'- cGGcGGCCGUGCacccacucgcuGCuCAGGuGGCAc-- -3'
miRNA:   3'- aCCuCCGGCACG-----------CG-GUCCuCCGUaac -5'
25794 5' -60.1 NC_005337.1 + 93274 0.67 0.608035
Target:  5'- gGcGAGGCCGggggugcgucgGCGCCuGGuGGCGg-- -3'
miRNA:   3'- aC-CUCCGGCa----------CGCGGuCCuCCGUaac -5'
25794 5' -60.1 NC_005337.1 + 60571 0.66 0.647619
Target:  5'- aGGucGCUGUccgggaagaaguuGCGCCGGaAGGCGUUGu -3'
miRNA:   3'- aCCucCGGCA-------------CGCGGUCcUCCGUAAC- -5'
25794 5' -60.1 NC_005337.1 + 30651 0.66 0.658771
Target:  5'- gGGAGGCUGccGCGUCGcgggccuuccGGGGGUAUa- -3'
miRNA:   3'- aCCUCCGGCa-CGCGGU----------CCUCCGUAac -5'
25794 5' -60.1 NC_005337.1 + 41078 0.66 0.668887
Target:  5'- aGGAGGUCGUGCGacauccaCGGGAaguugaGGUAc-- -3'
miRNA:   3'- aCCUCCGGCACGCg------GUCCU------CCGUaac -5'
25794 5' -60.1 NC_005337.1 + 84046 0.66 0.668887
Target:  5'- cGGAGGCgCGcacGaCGCCcucgGGGAGGCGc-- -3'
miRNA:   3'- aCCUCCG-GCa--C-GCGG----UCCUCCGUaac -5'
25794 5' -60.1 NC_005337.1 + 74177 0.68 0.528103
Target:  5'- gGGAGGCgCGcucGgGCCGGGAgucGGCGUUc -3'
miRNA:   3'- aCCUCCG-GCa--CgCGGUCCU---CCGUAAc -5'
25794 5' -60.1 NC_005337.1 + 65991 0.69 0.508678
Target:  5'- gUGcGAGGCCGUGCGUCccgugGGcGAGcGCGUg- -3'
miRNA:   3'- -AC-CUCCGGCACGCGG-----UC-CUC-CGUAac -5'
25794 5' -60.1 NC_005337.1 + 32228 0.69 0.489561
Target:  5'- cGGAGG-CGUGCuCCGGGAagcaGGCGUa- -3'
miRNA:   3'- aCCUCCgGCACGcGGUCCU----CCGUAac -5'
25794 5' -60.1 NC_005337.1 + 31268 0.76 0.194944
Target:  5'- cGGAuGCgGUGCGCCAgGGAGGCGa-- -3'
miRNA:   3'- aCCUcCGgCACGCGGU-CCUCCGUaac -5'
25794 5' -60.1 NC_005337.1 + 90441 0.76 0.199815
Target:  5'- aGGAGGUCGUGCGC--GGAGGCcaUGa -3'
miRNA:   3'- aCCUCCGGCACGCGguCCUCCGuaAC- -5'
25794 5' -60.1 NC_005337.1 + 1017 0.75 0.225238
Target:  5'- cUGGAGGCCGUcgaauuucacuuuGCG-CGGGAGGCGg-- -3'
miRNA:   3'- -ACCUCCGGCA-------------CGCgGUCCUCCGUaac -5'
25794 5' -60.1 NC_005337.1 + 130172 0.73 0.286277
Target:  5'- cGGAGGCCGUGCGCgC-GGAGcacGCGg-- -3'
miRNA:   3'- aCCUCCGGCACGCG-GuCCUC---CGUaac -5'
25794 5' -60.1 NC_005337.1 + 59179 0.71 0.391265
Target:  5'- --cAGGCCGUGCGUCGGGGcaccGGCGa-- -3'
miRNA:   3'- accUCCGGCACGCGGUCCU----CCGUaac -5'
25794 5' -60.1 NC_005337.1 + 88779 0.7 0.425538
Target:  5'- gUGGAGGCCuucgacGUGCGUCcGGAGaGCGg-- -3'
miRNA:   3'- -ACCUCCGG------CACGCGGuCCUC-CGUaac -5'
25794 5' -60.1 NC_005337.1 + 124602 0.7 0.443332
Target:  5'- cGGAuGCCGaacgcgugGCGCU-GGAGGCAUUGc -3'
miRNA:   3'- aCCUcCGGCa-------CGCGGuCCUCCGUAAC- -5'
25794 5' -60.1 NC_005337.1 + 38572 0.69 0.480129
Target:  5'- cGGAcuCCGUGCacGCCaAGGAGGCGUg- -3'
miRNA:   3'- aCCUccGGCACG--CGG-UCCUCCGUAac -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.