miRNA display CGI


Results 1 - 18 of 18 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
11604 5' -56.2 NC_003085.1 + 26507 0.66 0.613603
Target:  5'- uGGGccGGCUCGUCCGgcuucgcCGUCGCCgUcGACg -3'
miRNA:   3'- cUCC--UCGAGUAGGC-------GUAGUGGgA-CUG- -5'
11604 5' -56.2 NC_003085.1 + 16375 0.66 0.603575
Target:  5'- cAGGAGUgagCcUCCGCGggCACguCCUGGCg -3'
miRNA:   3'- cUCCUCGa--GuAGGCGUa-GUG--GGACUG- -5'
11604 5' -56.2 NC_003085.1 + 6716 0.66 0.603575
Target:  5'- -uGGAuGC-CGUccaccgcgcCCGCAUCGCCCcGACg -3'
miRNA:   3'- cuCCU-CGaGUA---------GGCGUAGUGGGaCUG- -5'
11604 5' -56.2 NC_003085.1 + 31883 0.66 0.592458
Target:  5'- --cGAGCUCGUCCGCGaUGCCgUG-Cg -3'
miRNA:   3'- cucCUCGAGUAGGCGUaGUGGgACuG- -5'
11604 5' -56.2 NC_003085.1 + 20066 0.66 0.592458
Target:  5'- -uGGAGCgggaCAUCCGCuuccacgcgCGCUgUGACg -3'
miRNA:   3'- cuCCUCGa---GUAGGCGua-------GUGGgACUG- -5'
11604 5' -56.2 NC_003085.1 + 38004 0.66 0.592458
Target:  5'- uGGGAcGCUCAcaCCGCGUCGgCCCcaacGGCg -3'
miRNA:   3'- cUCCU-CGAGUa-GGCGUAGU-GGGa---CUG- -5'
11604 5' -56.2 NC_003085.1 + 25666 0.66 0.581375
Target:  5'- -uGGAGUaCAUCCGCAUCGucguaCCggggGACc -3'
miRNA:   3'- cuCCUCGaGUAGGCGUAGUg----GGa---CUG- -5'
11604 5' -56.2 NC_003085.1 + 13476 0.66 0.570335
Target:  5'- -cGGAGCguuUCCuggGCGUCGgCCUGGCc -3'
miRNA:   3'- cuCCUCGaguAGG---CGUAGUgGGACUG- -5'
11604 5' -56.2 NC_003085.1 + 15276 0.67 0.559348
Target:  5'- --cGAGCUCAcCCGCcgCGCCCgcgucaugcUGGCc -3'
miRNA:   3'- cucCUCGAGUaGGCGuaGUGGG---------ACUG- -5'
11604 5' -56.2 NC_003085.1 + 48804 0.67 0.515007
Target:  5'- -cGGGGCUCAcggcagcaccucuUUCGCGccgagCGCCUUGGCg -3'
miRNA:   3'- cuCCUCGAGU-------------AGGCGUa----GUGGGACUG- -5'
11604 5' -56.2 NC_003085.1 + 9156 0.7 0.377855
Target:  5'- -cGGAGCUCG-CCGCcgCGCaguCCUGAg -3'
miRNA:   3'- cuCCUCGAGUaGGCGuaGUG---GGACUg -5'
11604 5' -56.2 NC_003085.1 + 42453 0.7 0.368966
Target:  5'- aGGGAGCg-GUCCGUGUCgagGCCCgUGGCg -3'
miRNA:   3'- cUCCUCGagUAGGCGUAG---UGGG-ACUG- -5'
11604 5' -56.2 NC_003085.1 + 707 0.7 0.368966
Target:  5'- -cGGGGCaacUCCGCGUgGCgCCUGACg -3'
miRNA:   3'- cuCCUCGaguAGGCGUAgUG-GGACUG- -5'
11604 5' -56.2 NC_003085.1 + 7577 0.71 0.334866
Target:  5'- cGAGGGGUUCAUCaCGUAcgCAUCC-GACa -3'
miRNA:   3'- -CUCCUCGAGUAG-GCGUa-GUGGGaCUG- -5'
11604 5' -56.2 NC_003085.1 + 12300 0.72 0.273757
Target:  5'- aAGGAGCUCGUCCcCGUCACCg---- -3'
miRNA:   3'- cUCCUCGAGUAGGcGUAGUGGgacug -5'
11604 5' -56.2 NC_003085.1 + 40610 0.72 0.269553
Target:  5'- cGAGGGGCcugUgcugacggccgcugcCGUCCuCGUCGCCCUGACg -3'
miRNA:   3'- -CUCCUCG---A---------------GUAGGcGUAGUGGGACUG- -5'
11604 5' -56.2 NC_003085.1 + 27634 0.73 0.249312
Target:  5'- uGGGGGGCUCGccgccagcgggacgCCGCAUCGCCaCcGACu -3'
miRNA:   3'- -CUCCUCGAGUa-------------GGCGUAGUGG-GaCUG- -5'
11604 5' -56.2 NC_003085.1 + 39762 1.1 0.00053
Target:  5'- uGAGGAGCUCAUCCGCAUCACCCUGACg -3'
miRNA:   3'- -CUCCUCGAGUAGGCGUAGUGGGACUG- -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.