miRNA display CGI


Results 1 - 20 of 57 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
19243 3' -58.5 NC_004684.1 + 1984 0.75 0.176698
Target:  5'- cUGGCGcgcgaaccgcguucuGGCAgCGCCUGGGugGGGGUc -3'
miRNA:   3'- -ACCGU---------------CCGUgGUGGACCUugCUCCAc -5'
19243 3' -58.5 NC_004684.1 + 2272 0.71 0.283438
Target:  5'- cGGCGGGCAUUgccgccaGCCUGGGccACGAcgcGGUGc -3'
miRNA:   3'- aCCGUCCGUGG-------UGGACCU--UGCU---CCAC- -5'
19243 3' -58.5 NC_004684.1 + 3201 0.67 0.509783
Target:  5'- cGGCAcaccGGCAacgccgacgugCGCCUGGAA-GAGGUGc -3'
miRNA:   3'- aCCGU----CCGUg----------GUGGACCUUgCUCCAC- -5'
19243 3' -58.5 NC_004684.1 + 5006 0.67 0.489599
Target:  5'- gGGCccGGUGCCGCUccugaUGGAccgcgacgACGAGGUGc -3'
miRNA:   3'- aCCGu-CCGUGGUGG-----ACCU--------UGCUCCAC- -5'
19243 3' -58.5 NC_004684.1 + 5150 0.66 0.593434
Target:  5'- gGGCAGGaccaGCCGCgCUaccccGAuguCGAGGUGg -3'
miRNA:   3'- aCCGUCCg---UGGUG-GAc----CUu--GCUCCAC- -5'
19243 3' -58.5 NC_004684.1 + 6864 0.71 0.284135
Target:  5'- gUGGUGGuGCugCACuggcuCUGGGGCGAGGUc -3'
miRNA:   3'- -ACCGUC-CGugGUG-----GACCUUGCUCCAc -5'
19243 3' -58.5 NC_004684.1 + 6968 0.67 0.489599
Target:  5'- cGGCAacGGCAaCGCCaaGAagACGAGGUGa -3'
miRNA:   3'- aCCGU--CCGUgGUGGacCU--UGCUCCAC- -5'
19243 3' -58.5 NC_004684.1 + 7984 0.66 0.572187
Target:  5'- cGGCAGGaggaCGCCUGGAaggccuACGAcgcGGUa -3'
miRNA:   3'- aCCGUCCgug-GUGGACCU------UGCU---CCAc -5'
19243 3' -58.5 NC_004684.1 + 8448 0.69 0.383632
Target:  5'- gGGCccGGCGCaagGCCUGGcuguuguccccggaGGCGGGGUGg -3'
miRNA:   3'- aCCGu-CCGUGg--UGGACC--------------UUGCUCCAC- -5'
19243 3' -58.5 NC_004684.1 + 9566 0.67 0.530307
Target:  5'- cGGCGGccaGCACCGCC-GGGACcAGGc- -3'
miRNA:   3'- aCCGUC---CGUGGUGGaCCUUGcUCCac -5'
19243 3' -58.5 NC_004684.1 + 9870 0.7 0.369051
Target:  5'- aGGCGGGcCACCGCCUcgGGAuccgGCGcAGGc- -3'
miRNA:   3'- aCCGUCC-GUGGUGGA--CCU----UGC-UCCac -5'
19243 3' -58.5 NC_004684.1 + 9979 0.66 0.579605
Target:  5'- cGGCAcaccGGUcgagugauacgcugGCCGCCUGGAuaGCGAcuGGUa -3'
miRNA:   3'- aCCGU----CCG--------------UGGUGGACCU--UGCU--CCAc -5'
19243 3' -58.5 NC_004684.1 + 12057 0.71 0.305658
Target:  5'- aGGC-GGC-UCGCCUGGccgccgagcgcGACGAGGUGc -3'
miRNA:   3'- aCCGuCCGuGGUGGACC-----------UUGCUCCAC- -5'
19243 3' -58.5 NC_004684.1 + 12762 0.67 0.520006
Target:  5'- uUGGCccgcgcGGCugCGCCUGcGGccaACGAGGa- -3'
miRNA:   3'- -ACCGu-----CCGugGUGGAC-CU---UGCUCCac -5'
19243 3' -58.5 NC_004684.1 + 12978 0.68 0.479647
Target:  5'- cGGCAGGCAaCACCgagcgccGGGCcGGGUGg -3'
miRNA:   3'- aCCGUCCGUgGUGGac-----CUUGcUCCAC- -5'
19243 3' -58.5 NC_004684.1 + 13357 0.66 0.551126
Target:  5'- cGGCGGGCAcacCCGCCacGAAggcCGAGGa- -3'
miRNA:   3'- aCCGUCCGU---GGUGGacCUU---GCUCCac -5'
19243 3' -58.5 NC_004684.1 + 13984 0.67 0.498637
Target:  5'- gGcGCAGGCcagcccgGCCACCUGGAcACGGugcaGUGg -3'
miRNA:   3'- aC-CGUCCG-------UGGUGGACCU-UGCUc---CAC- -5'
19243 3' -58.5 NC_004684.1 + 16724 0.7 0.34426
Target:  5'- cGGCaccGGGCGCaCGCCUGGuccgcacccccGACGGcGGUGu -3'
miRNA:   3'- aCCG---UCCGUG-GUGGACC-----------UUGCU-CCAC- -5'
19243 3' -58.5 NC_004684.1 + 17289 0.72 0.277231
Target:  5'- aGGUggGGGCcaGCCGCCUGGu-CGuGGUGg -3'
miRNA:   3'- aCCG--UCCG--UGGUGGACCuuGCuCCAC- -5'
19243 3' -58.5 NC_004684.1 + 17542 0.74 0.209943
Target:  5'- gUGGUcgccuaccAGG-ACCGCCUGGA-CGAGGUGc -3'
miRNA:   3'- -ACCG--------UCCgUGGUGGACCUuGCUCCAC- -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.