miRNA display CGI


Results 1 - 12 of 12 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
1561 3' -58.8 NC_001347.2 + 142258 0.66 0.876494
Target:  5'- gGCUGCGAG-GCGcUGGCCgCGUcgcugauGGAc -3'
miRNA:   3'- gCGAUGCUCuCGUaGCCGGgGCA-------CCU- -5'
1561 3' -58.8 NC_001347.2 + 75396 0.66 0.870261
Target:  5'- cCGCUccaaGCGGGAGCggCGGCC--GUGGc -3'
miRNA:   3'- -GCGA----UGCUCUCGuaGCCGGggCACCu -5'
1561 3' -58.8 NC_001347.2 + 204642 0.68 0.782677
Target:  5'- gGCUguGCGAGuaacucCGUUGGCCCCGguaaGGAg -3'
miRNA:   3'- gCGA--UGCUCuc----GUAGCCGGGGCa---CCU- -5'
1561 3' -58.8 NC_001347.2 + 171390 0.69 0.764883
Target:  5'- gCGCUGCGAGca-AUCGuGCCCCaagGUGGu -3'
miRNA:   3'- -GCGAUGCUCucgUAGC-CGGGG---CACCu -5'
1561 3' -58.8 NC_001347.2 + 40093 0.69 0.737412
Target:  5'- aCGCccggggGCGAGGGaCGaCGGCCCUGgGGAc -3'
miRNA:   3'- -GCGa-----UGCUCUC-GUaGCCGGGGCaCCU- -5'
1561 3' -58.8 NC_001347.2 + 51245 0.69 0.71867
Target:  5'- aGCUACagccGGGCGUUGG-CCUGUGGAu -3'
miRNA:   3'- gCGAUGcu--CUCGUAGCCgGGGCACCU- -5'
1561 3' -58.8 NC_001347.2 + 21790 0.7 0.690072
Target:  5'- gGCUGCuGcGGGCcgCGGCCCCGUu-- -3'
miRNA:   3'- gCGAUG-CuCUCGuaGCCGGGGCAccu -5'
1561 3' -58.8 NC_001347.2 + 59580 0.7 0.690072
Target:  5'- uGCUuguaACGAaGGCGUCaaGGCCgCGUGGAg -3'
miRNA:   3'- gCGA----UGCUcUCGUAG--CCGGgGCACCU- -5'
1561 3' -58.8 NC_001347.2 + 131914 0.7 0.669809
Target:  5'- gGC-ACGAcGAGCGagGGCCCCGUcguacgaGGAa -3'
miRNA:   3'- gCGaUGCU-CUCGUagCCGGGGCA-------CCU- -5'
1561 3' -58.8 NC_001347.2 + 144436 0.73 0.489274
Target:  5'- cCGCUGCcagauggcacgGGGGGCGaCGGCCCCGaGGGc -3'
miRNA:   3'- -GCGAUG-----------CUCUCGUaGCCGGGGCaCCU- -5'
1561 3' -58.8 NC_001347.2 + 18542 0.81 0.198341
Target:  5'- uGCUGCGAGuGGUacgucGUCGGCCUCGUGGGc -3'
miRNA:   3'- gCGAUGCUC-UCG-----UAGCCGGGGCACCU- -5'
1561 3' -58.8 NC_001347.2 + 194082 1.08 0.003113
Target:  5'- uCGCUACGAGAGCAUCGGCCCCGUGGAc -3'
miRNA:   3'- -GCGAUGCUCUCGUAGCCGGGGCACCU- -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.