miRNA display CGI


Results 1 - 20 of 36 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
2800 3' -64.7 NC_001491.2 + 114771 0.66 0.53515
Target:  5'- cGCGC-CGGCGa--GCGcACCCGCGu- -3'
miRNA:   3'- uCGCGuGCCGCgucCGC-UGGGCGCcu -5'
2800 3' -64.7 NC_001491.2 + 125557 0.66 0.53515
Target:  5'- cGCGCcccgagGCGGCGCucGCGcgcuCCCGCGc- -3'
miRNA:   3'- uCGCG------UGCCGCGucCGCu---GGGCGCcu -5'
2800 3' -64.7 NC_001491.2 + 57515 0.66 0.525814
Target:  5'- cGCGU-CGGC-CAGGCc-CUCGCGGAu -3'
miRNA:   3'- uCGCGuGCCGcGUCCGcuGGGCGCCU- -5'
2800 3' -64.7 NC_001491.2 + 68562 0.66 0.525814
Target:  5'- gAGC-CGCGcCGCGGGCGGCUCaaaCGGGg -3'
miRNA:   3'- -UCGcGUGCcGCGUCCGCUGGGc--GCCU- -5'
2800 3' -64.7 NC_001491.2 + 145951 0.66 0.525814
Target:  5'- uGCGCcuCGGCGUagcgcgAGGCGGCCa--GGAc -3'
miRNA:   3'- uCGCGu-GCCGCG------UCCGCUGGgcgCCU- -5'
2800 3' -64.7 NC_001491.2 + 80935 0.66 0.516539
Target:  5'- uGGCGCacaACGGUaaAGGCGAaCCCuggGUGGAa -3'
miRNA:   3'- -UCGCG---UGCCGcgUCCGCU-GGG---CGCCU- -5'
2800 3' -64.7 NC_001491.2 + 146396 0.66 0.489131
Target:  5'- uGGC-CGCGGCaGC-GGCGGCCUGggcCGGGu -3'
miRNA:   3'- -UCGcGUGCCG-CGuCCGCUGGGC---GCCU- -5'
2800 3' -64.7 NC_001491.2 + 144497 0.67 0.480146
Target:  5'- uGGCGggUGGcCGguGGCGGgguUCCGCGGc -3'
miRNA:   3'- -UCGCguGCC-GCguCCGCU---GGGCGCCu -5'
2800 3' -64.7 NC_001491.2 + 122234 0.67 0.480146
Target:  5'- uGGCGCuuGCGGCGCuuuuuGGCagcGCUagCGCGGGu -3'
miRNA:   3'- -UCGCG--UGCCGCGu----CCGc--UGG--GCGCCU- -5'
2800 3' -64.7 NC_001491.2 + 139498 0.67 0.471242
Target:  5'- gAGCG---GGCGUGGG-GACCCGgGGAg -3'
miRNA:   3'- -UCGCgugCCGCGUCCgCUGGGCgCCU- -5'
2800 3' -64.7 NC_001491.2 + 114639 0.67 0.462423
Target:  5'- gAGgGCGCcGCGCAGaGCcACCgCGCGGc -3'
miRNA:   3'- -UCgCGUGcCGCGUC-CGcUGG-GCGCCu -5'
2800 3' -64.7 NC_001491.2 + 115446 0.67 0.462423
Target:  5'- cGGCGCGCGcuucggggaGCuGGCGGCCaGCGGc -3'
miRNA:   3'- -UCGCGUGCcg-------CGuCCGCUGGgCGCCu -5'
2800 3' -64.7 NC_001491.2 + 85442 0.67 0.461546
Target:  5'- cGCGCAugagaguCGGaCGCGuGUGcCCCGCGGGc -3'
miRNA:   3'- uCGCGU-------GCC-GCGUcCGCuGGGCGCCU- -5'
2800 3' -64.7 NC_001491.2 + 115251 0.67 0.44505
Target:  5'- gGGgGacucuCGGCGCugcuGGCGGCCCuGgGGAa -3'
miRNA:   3'- -UCgCgu---GCCGCGu---CCGCUGGG-CgCCU- -5'
2800 3' -64.7 NC_001491.2 + 139840 0.68 0.418863
Target:  5'- gAGCGCGCGuGUGCGcGGUuuuucgaGACCCGgcuCGGGa -3'
miRNA:   3'- -UCGCGUGC-CGCGU-CCG-------CUGGGC---GCCU- -5'
2800 3' -64.7 NC_001491.2 + 46049 0.68 0.411437
Target:  5'- uGGCGguCGGaaugucCGCGGGCG-CCUGCGaGGg -3'
miRNA:   3'- -UCGCguGCC------GCGUCCGCuGGGCGC-CU- -5'
2800 3' -64.7 NC_001491.2 + 51165 0.68 0.40898
Target:  5'- --aGCGCGGCGCggucugcgcgauggAGGCGagGCUCGcCGGAa -3'
miRNA:   3'- ucgCGUGCCGCG--------------UCCGC--UGGGC-GCCU- -5'
2800 3' -64.7 NC_001491.2 + 146822 0.68 0.403282
Target:  5'- cGCGCACcGCG-AGGCGcaGCUCGuCGGAg -3'
miRNA:   3'- uCGCGUGcCGCgUCCGC--UGGGC-GCCU- -5'
2800 3' -64.7 NC_001491.2 + 97358 0.68 0.395231
Target:  5'- cGGUcuGCGCGGCGCuGGCaacGCgCGCGGu -3'
miRNA:   3'- -UCG--CGUGCCGCGuCCGc--UGgGCGCCu -5'
2800 3' -64.7 NC_001491.2 + 123526 0.68 0.386495
Target:  5'- gAGCuuGCGGcCGCGGGCGcgcagguACgCCGCGGc -3'
miRNA:   3'- -UCGcgUGCC-GCGUCCGC-------UG-GGCGCCu -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.