miRNA display CGI


Results 1 - 20 of 45 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
7313 3' -63.3 NC_001900.1 + 310 0.66 0.347849
Target:  5'- -aCCGGCCCAaCaagGGCCGGGGa-- -3'
miRNA:   3'- ggGGCCGGGUcGcuaCCGGCUCCagc -5'
7313 3' -63.3 NC_001900.1 + 2415 0.7 0.162894
Target:  5'- cUCCCGGUCCuuucuGCugccgGGUGGCUguguGAGGUCGa -3'
miRNA:   3'- -GGGGCCGGGu----CG-----CUACCGG----CUCCAGC- -5'
7313 3' -63.3 NC_001900.1 + 4070 0.67 0.262433
Target:  5'- gCCUGGCUCgaccaccgagacGGUGAUGGCCuucGAGGUg- -3'
miRNA:   3'- gGGGCCGGG------------UCGCUACCGG---CUCCAgc -5'
7313 3' -63.3 NC_001900.1 + 4984 0.67 0.293688
Target:  5'- aCCCCGGCaugcucgucgggcuCCAGCacGgcGGCgGGGGcCGg -3'
miRNA:   3'- -GGGGCCG--------------GGUCG--CuaCCGgCUCCaGC- -5'
7313 3' -63.3 NC_001900.1 + 5065 0.68 0.243334
Target:  5'- uCCCCgguGGCCCGGUGAaGGUcucgcaaCGAGGcgUCGa -3'
miRNA:   3'- -GGGG---CCGGGUCGCUaCCG-------GCUCC--AGC- -5'
7313 3' -63.3 NC_001900.1 + 5808 0.66 0.347849
Target:  5'- -aCCGGCgUCGGCGGUcaUCGAGGUUGg -3'
miRNA:   3'- ggGGCCG-GGUCGCUAccGGCUCCAGC- -5'
7313 3' -63.3 NC_001900.1 + 6429 0.66 0.302831
Target:  5'- gCUCgCGGCCaAGCaGAacgcugaGGCUGAGGUCGa -3'
miRNA:   3'- -GGG-GCCGGgUCG-CUa------CCGGCUCCAGC- -5'
7313 3' -63.3 NC_001900.1 + 6724 0.67 0.262433
Target:  5'- aCCCCgcugcGGCCUuccCGAugUGGCCGucGGUCGa -3'
miRNA:   3'- -GGGG-----CCGGGuc-GCU--ACCGGCu-CCAGC- -5'
7313 3' -63.3 NC_001900.1 + 8078 0.78 0.045938
Target:  5'- gCCaacgaaGGCCaC-GCGAUGGCCGAGGUCa -3'
miRNA:   3'- gGGg-----CCGG-GuCGCUACCGGCUCCAGc -5'
7313 3' -63.3 NC_001900.1 + 8169 0.67 0.262433
Target:  5'- uCCCCGGCaCCgAGaCGGUcGCCGAGaaggcguacGUCGa -3'
miRNA:   3'- -GGGGCCG-GG-UC-GCUAcCGGCUC---------CAGC- -5'
7313 3' -63.3 NC_001900.1 + 8632 0.68 0.232209
Target:  5'- gCCCCGGUCCAGCGGa-GCC-AGcUCGa -3'
miRNA:   3'- -GGGGCCGGGUCGCUacCGGcUCcAGC- -5'
7313 3' -63.3 NC_001900.1 + 9195 0.7 0.175978
Target:  5'- aCCCGGCCC-GUGcgGGCCuucuugcucauGAGGUa- -3'
miRNA:   3'- gGGGCCGGGuCGCuaCCGG-----------CUCCAgc -5'
7313 3' -63.3 NC_001900.1 + 10242 0.67 0.275391
Target:  5'- gCCCUgauGGCCuCAGCGGaGGCCGGauGUCa -3'
miRNA:   3'- -GGGG---CCGG-GUCGCUaCCGGCUc-CAGc -5'
7313 3' -63.3 NC_001900.1 + 10503 0.66 0.310012
Target:  5'- gCCUCGGCCU-GCug-GGCaCGAuGGUCGa -3'
miRNA:   3'- -GGGGCCGGGuCGcuaCCG-GCU-CCAGC- -5'
7313 3' -63.3 NC_001900.1 + 10575 0.67 0.288855
Target:  5'- aCCaUCGuGCCCAGCa--GGCCGAGGcccaUCGc -3'
miRNA:   3'- -GG-GGC-CGGGUCGcuaCCGGCUCC----AGC- -5'
7313 3' -63.3 NC_001900.1 + 15807 0.68 0.23801
Target:  5'- gCCagaaGGCCC-GCGAagccgUGGUCGAGGcCGu -3'
miRNA:   3'- gGGg---CCGGGuCGCU-----ACCGGCUCCaGC- -5'
7313 3' -63.3 NC_001900.1 + 17322 0.66 0.31806
Target:  5'- gCCCGaGCCCGGUGAagaacucgccagugcGGUCGAGGa-- -3'
miRNA:   3'- gGGGC-CGGGUCGCUa--------------CCGGCUCCagc -5'
7313 3' -63.3 NC_001900.1 + 18178 0.73 0.101331
Target:  5'- cUCCUGGUCCAGCGGUGuGCagcAGGUCu -3'
miRNA:   3'- -GGGGCCGGGUCGCUAC-CGgc-UCCAGc -5'
7313 3' -63.3 NC_001900.1 + 19612 0.68 0.232209
Target:  5'- uCCCaCGGCCaCGGCGGUGuCCagaaguucGGGUCGa -3'
miRNA:   3'- -GGG-GCCGG-GUCGCUACcGGc-------UCCAGC- -5'
7313 3' -63.3 NC_001900.1 + 19996 0.66 0.32476
Target:  5'- cCUUCGGCUCc-CGA-GGCCGuGGUCGc -3'
miRNA:   3'- -GGGGCCGGGucGCUaCCGGCuCCAGC- -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.