miRNA display CGI


Results 1 - 20 of 48 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
23040 3' -56.4 NC_005178.1 + 3432 0.69 0.351358
Target:  5'- --gGCCGGAagggccGGCCGUGcAUCGGguGCu -3'
miRNA:   3'- cgaCGGUCU------UCGGCAU-UGGCCguCGu -5'
23040 3' -56.4 NC_005178.1 + 4811 0.67 0.434317
Target:  5'- --aGCCGGAcgGGCCGUagaagcaGACCaGGCcgGGCAa -3'
miRNA:   3'- cgaCGGUCU--UCGGCA-------UUGG-CCG--UCGU- -5'
23040 3' -56.4 NC_005178.1 + 5803 0.69 0.33433
Target:  5'- -gUGCCcGAGGCCGccACCGauGCGGCGa -3'
miRNA:   3'- cgACGGuCUUCGGCauUGGC--CGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 6882 0.75 0.132808
Target:  5'- aCUGCCAGGcaaugAGgCGgcgGAUCGGCAGCAg -3'
miRNA:   3'- cGACGGUCU-----UCgGCa--UUGGCCGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 6912 0.66 0.518834
Target:  5'- aGCUGCUcGccGCUgagGUGGCCcGCAGCAg -3'
miRNA:   3'- -CGACGGuCuuCGG---CAUUGGcCGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 6952 0.66 0.49091
Target:  5'- --aGCCGGcgaggcaaucggcauGAGCCGUucGACCG-CAGCAc -3'
miRNA:   3'- cgaCGGUC---------------UUCGGCA--UUGGCcGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 7418 0.68 0.387225
Target:  5'- gGCUuCCAGcgcgacGCCucGGCCGGCAGCAc -3'
miRNA:   3'- -CGAcGGUCuu----CGGcaUUGGCCGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 8004 0.66 0.529742
Target:  5'- gGCUGCCGG-GGCUGacccugacACCGGCAuCGa -3'
miRNA:   3'- -CGACGGUCuUCGGCau------UGGCCGUcGU- -5'
23040 3' -56.4 NC_005178.1 + 8571 0.67 0.445338
Target:  5'- -aUGCCGcAGGCCG-AGCCGGCcccaacuGCAc -3'
miRNA:   3'- cgACGGUcUUCGGCaUUGGCCGu------CGU- -5'
23040 3' -56.4 NC_005178.1 + 9137 0.67 0.435313
Target:  5'- uCUGCUcgacgaucuucuGGAGGCCgGUGACCGcgagcGCGGCGc -3'
miRNA:   3'- cGACGG------------UCUUCGG-CAUUGGC-----CGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 9461 0.66 0.517748
Target:  5'- uCUGCCGGAcGUgGUGGuCCGGUacugaugAGCAg -3'
miRNA:   3'- cGACGGUCUuCGgCAUU-GGCCG-------UCGU- -5'
23040 3' -56.4 NC_005178.1 + 9659 0.68 0.406039
Target:  5'- cGCgGCCGGuggcuucGCCG-AGCCGGCcgaGGCGg -3'
miRNA:   3'- -CGaCGGUCuu-----CGGCaUUGGCCG---UCGU- -5'
23040 3' -56.4 NC_005178.1 + 10097 0.69 0.3601
Target:  5'- cGCUgGCCAGGAGCgCgGUGAUuuUGcGCAGCAc -3'
miRNA:   3'- -CGA-CGGUCUUCG-G-CAUUG--GC-CGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 10227 0.68 0.413724
Target:  5'- uGCUGCCGGAuaccguccgcgacauGGCCGgacgcaucggccuGCCGGCcacGCu -3'
miRNA:   3'- -CGACGGUCU---------------UCGGCau-----------UGGCCGu--CGu -5'
23040 3' -56.4 NC_005178.1 + 10336 0.67 0.425418
Target:  5'- aGCUGCUcGAcuaccaccAG-CGUGGCCGGCAGg- -3'
miRNA:   3'- -CGACGGuCU--------UCgGCAUUGGCCGUCgu -5'
23040 3' -56.4 NC_005178.1 + 10350 0.66 0.528647
Target:  5'- cGC-GCCGGGcugcgcuGGCCG-AGCUggugGGCAGCGa -3'
miRNA:   3'- -CGaCGGUCU-------UCGGCaUUGG----CCGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 10593 0.67 0.476165
Target:  5'- --gGCCgAGcGAGCCGgcACCG-CAGCAa -3'
miRNA:   3'- cgaCGG-UC-UUCGGCauUGGCcGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 10831 0.72 0.208236
Target:  5'- uCUGCUGGAAGCCugcccgGUcAACUGGCAGCc -3'
miRNA:   3'- cGACGGUCUUCGG------CA-UUGGCCGUCGu -5'
23040 3' -56.4 NC_005178.1 + 12643 0.66 0.529742
Target:  5'- cGCU-CCAGGcGGCCGUcgAugCGuuGCAGCAg -3'
miRNA:   3'- -CGAcGGUCU-UCGGCA--UugGC--CGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 14293 0.67 0.465769
Target:  5'- cUUGCCAGAcgcGGCCcuuGCCGGC-GCc -3'
miRNA:   3'- cGACGGUCU---UCGGcauUGGCCGuCGu -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.