miRNA display CGI


Results 1 - 20 of 34 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
13974 3' -59.7 NC_003521.1 + 58959 0.65 0.859172
Target:  5'- gCUCGCCGaGGGGucgugcguGGCGaaucagccgcuagaGGAGGGGGa -3'
miRNA:   3'- aGAGCGGCaCUCCu-------UCGC--------------CCUCCCUU- -5'
13974 3' -59.7 NC_003521.1 + 169961 0.66 0.828437
Target:  5'- -gUCGUCGUugcucuccuccuggGAGGcGGCGGcGGGGGAc -3'
miRNA:   3'- agAGCGGCA--------------CUCCuUCGCC-CUCCCUu -5'
13974 3' -59.7 NC_003521.1 + 39970 0.66 0.846453
Target:  5'- --gCGUCGUGAGGAauugaAGUGGGgaAGGGc- -3'
miRNA:   3'- agaGCGGCACUCCU-----UCGCCC--UCCCuu -5'
13974 3' -59.7 NC_003521.1 + 26034 0.66 0.822779
Target:  5'- --aCGgCGgugaaGAGGAcggcggcgAGCGGGAGGGGGg -3'
miRNA:   3'- agaGCgGCa----CUCCU--------UCGCCCUCCCUU- -5'
13974 3' -59.7 NC_003521.1 + 118791 0.66 0.846453
Target:  5'- aUCUCGCUGcggagGuAGGAGGUGGGuuucAGGGc- -3'
miRNA:   3'- -AGAGCGGCa----C-UCCUUCGCCC----UCCCuu -5'
13974 3' -59.7 NC_003521.1 + 240198 0.66 0.846453
Target:  5'- --gCGUCGUGAGGAauugaAGUGGGgaAGGGc- -3'
miRNA:   3'- agaGCGGCACUCCU-----UCGCCC--UCCCuu -5'
13974 3' -59.7 NC_003521.1 + 32350 0.66 0.830837
Target:  5'- gUUUGCCG-GAGccGGCGGGAcGGGGc -3'
miRNA:   3'- aGAGCGGCaCUCcuUCGCCCU-CCCUu -5'
13974 3' -59.7 NC_003521.1 + 45451 0.66 0.846453
Target:  5'- cCUCGCCGUGGcGuGuuGCuGGAuGGGAAg -3'
miRNA:   3'- aGAGCGGCACU-C-CuuCGcCCU-CCCUU- -5'
13974 3' -59.7 NC_003521.1 + 46381 0.66 0.838731
Target:  5'- ---gGCUGUGAGGGGcGCGGGGugcguGGGGc -3'
miRNA:   3'- agagCGGCACUCCUU-CGCCCU-----CCCUu -5'
13974 3' -59.7 NC_003521.1 + 105469 0.66 0.846453
Target:  5'- --cCGCCGcgGAGacggcgcgcGCGGGAGGGAGg -3'
miRNA:   3'- agaGCGGCa-CUCcuu------CGCCCUCCCUU- -5'
13974 3' -59.7 NC_003521.1 + 148976 0.67 0.814564
Target:  5'- gUC-CGCCGcccuGGAGGgGGGAuGGGAGa -3'
miRNA:   3'- -AGaGCGGCacu-CCUUCgCCCU-CCCUU- -5'
13974 3' -59.7 NC_003521.1 + 229247 0.67 0.806197
Target:  5'- ---gGCCGcgGAGGugcuuGCGGuGAGGGAAg -3'
miRNA:   3'- agagCGGCa-CUCCuu---CGCC-CUCCCUU- -5'
13974 3' -59.7 NC_003521.1 + 190686 0.67 0.806197
Target:  5'- aCUaCGCCGgggaGAGGAGaCGGGAGGa-- -3'
miRNA:   3'- aGA-GCGGCa---CUCCUUcGCCCUCCcuu -5'
13974 3' -59.7 NC_003521.1 + 7975 0.67 0.780267
Target:  5'- ---gGCCGgGAGGGuccgcGGCGGcGGGGGAGg -3'
miRNA:   3'- agagCGGCaCUCCU-----UCGCC-CUCCCUU- -5'
13974 3' -59.7 NC_003521.1 + 232571 0.67 0.771371
Target:  5'- --cUGCUGUGuGGuGAGCGGGGGGcGAc -3'
miRNA:   3'- agaGCGGCACuCC-UUCGCCCUCC-CUu -5'
13974 3' -59.7 NC_003521.1 + 67258 0.67 0.771371
Target:  5'- -aUCGacCCGUGgcAGGAgGGCGGGcAGGGAGg -3'
miRNA:   3'- agAGC--GGCAC--UCCU-UCGCCC-UCCCUU- -5'
13974 3' -59.7 NC_003521.1 + 105004 0.67 0.771371
Target:  5'- cUUCGCUGcUGcAGG-AGCGGGAacGGGAGc -3'
miRNA:   3'- aGAGCGGC-AC-UCCuUCGCCCU--CCCUU- -5'
13974 3' -59.7 NC_003521.1 + 172911 0.67 0.780267
Target:  5'- cCUCGUCcuucuggGAGGAGGaGGGAGGGu- -3'
miRNA:   3'- aGAGCGGca-----CUCCUUCgCCCUCCCuu -5'
13974 3' -59.7 NC_003521.1 + 91351 0.67 0.797687
Target:  5'- gCUgGUCGgGAGGAcgguGgGGGAGGGGg -3'
miRNA:   3'- aGAgCGGCaCUCCUu---CgCCCUCCCUu -5'
13974 3' -59.7 NC_003521.1 + 28032 0.67 0.786422
Target:  5'- --aCGCCGcG-GGGAGCGGGAcccaacagaggcggGGGAGa -3'
miRNA:   3'- agaGCGGCaCuCCUUCGCCCU--------------CCCUU- -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.