miRNA display CGI


Results 1 - 20 of 22 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
20397 5' -59.4 NC_004687.1 + 32794 0.65 0.814049
Target:  5'- cGGGGUcccgacuGUGGGGCcUUcgcggACUGuUCGACAg -3'
miRNA:   3'- -CCCCG-------CACCCCGcAG-----UGAC-AGCUGUg -5'
20397 5' -59.4 NC_004687.1 + 90001 0.66 0.788972
Target:  5'- -aGGCGUGGGGUGgugaCAaUGUCGAg-- -3'
miRNA:   3'- ccCCGCACCCCGCa---GUgACAGCUgug -5'
20397 5' -59.4 NC_004687.1 + 143182 0.66 0.780057
Target:  5'- -cGGCG-GGGucucGCGUgGCUacGUCGACACc -3'
miRNA:   3'- ccCCGCaCCC----CGCAgUGA--CAGCUGUG- -5'
20397 5' -59.4 NC_004687.1 + 16785 0.67 0.761861
Target:  5'- cGGGGCGaggacuGGGUGUCg--GUCGGCGg -3'
miRNA:   3'- -CCCCGCac----CCCGCAGugaCAGCUGUg -5'
20397 5' -59.4 NC_004687.1 + 63428 0.67 0.741349
Target:  5'- cGGGcaGCGUugaggucggacaGGGCGUCAUUGUCGcCAUa -3'
miRNA:   3'- -CCC--CGCAc-----------CCCGCAGUGACAGCuGUG- -5'
20397 5' -59.4 NC_004687.1 + 67261 0.67 0.733778
Target:  5'- cGGGGUGUGGGuGCcccacagCGC-GUCGAuCGCc -3'
miRNA:   3'- -CCCCGCACCC-CGca-----GUGaCAGCU-GUG- -5'
20397 5' -59.4 NC_004687.1 + 124839 0.67 0.714628
Target:  5'- uGGGCGUugccGGaGGUGUCcgGCUGggcCGACAUg -3'
miRNA:   3'- cCCCGCA----CC-CCGCAG--UGACa--GCUGUG- -5'
20397 5' -59.4 NC_004687.1 + 43204 0.68 0.704949
Target:  5'- cGGGGCGcuugccGGaGGCGUgGCccguggcGUCGGCAUg -3'
miRNA:   3'- -CCCCGCa-----CC-CCGCAgUGa------CAGCUGUG- -5'
20397 5' -59.4 NC_004687.1 + 106921 0.68 0.685428
Target:  5'- cGGGGCGggcgcgGGuGGCGcgaacgACUGcaUCGGCACg -3'
miRNA:   3'- -CCCCGCa-----CC-CCGCag----UGAC--AGCUGUG- -5'
20397 5' -59.4 NC_004687.1 + 17474 0.68 0.655855
Target:  5'- cGGGGUGUc-GGCGUCACgggcgcccacGUCGGCAg -3'
miRNA:   3'- -CCCCGCAccCCGCAGUGa---------CAGCUGUg -5'
20397 5' -59.4 NC_004687.1 + 144519 0.69 0.636037
Target:  5'- uGGGGCGUGGuGGC-UCACcacacCGGCAg -3'
miRNA:   3'- -CCCCGCACC-CCGcAGUGaca--GCUGUg -5'
20397 5' -59.4 NC_004687.1 + 71606 0.69 0.62612
Target:  5'- -cGGCGUGGGGuCGgCGCUGUUGcCGu -3'
miRNA:   3'- ccCCGCACCCC-GCaGUGACAGCuGUg -5'
20397 5' -59.4 NC_004687.1 + 83990 0.69 0.596424
Target:  5'- -cGGCcucGuGGGCGUaGCUGUCGACACc -3'
miRNA:   3'- ccCCGca-C-CCCGCAgUGACAGCUGUG- -5'
20397 5' -59.4 NC_004687.1 + 135897 0.7 0.5572
Target:  5'- cGGGCGUGGuGGuCGUCuGCgacGcCGACACc -3'
miRNA:   3'- cCCCGCACC-CC-GCAG-UGa--CaGCUGUG- -5'
20397 5' -59.4 NC_004687.1 + 74000 0.7 0.5572
Target:  5'- aGGGCGguaucGGuGGCGUCGgUGgCGGCAUg -3'
miRNA:   3'- cCCCGCa----CC-CCGCAGUgACaGCUGUG- -5'
20397 5' -59.4 NC_004687.1 + 48179 0.7 0.537856
Target:  5'- -cGGCGUcGGGGCGcUCcagACUGUCGAUgaGCu -3'
miRNA:   3'- ccCCGCA-CCCCGC-AG---UGACAGCUG--UG- -5'
20397 5' -59.4 NC_004687.1 + 91945 0.71 0.47864
Target:  5'- aGGGUGUGGuggaugcccucgacGGUGUCGgUGUCGGCGu -3'
miRNA:   3'- cCCCGCACC--------------CCGCAGUgACAGCUGUg -5'
20397 5' -59.4 NC_004687.1 + 63690 0.73 0.391083
Target:  5'- aGGGCGgcgGGGaGCGUCGCUGcaaucuaggagggCGGCAUg -3'
miRNA:   3'- cCCCGCa--CCC-CGCAGUGACa------------GCUGUG- -5'
20397 5' -59.4 NC_004687.1 + 90027 0.74 0.354815
Target:  5'- uGGGGCucuccguucgcuGUGGucaGCGUUACUGUCGACGg -3'
miRNA:   3'- -CCCCG------------CACCc--CGCAGUGACAGCUGUg -5'
20397 5' -59.4 NC_004687.1 + 93704 0.74 0.339804
Target:  5'- cGGGCGUGGcaGGaacgcuguaCGUCGCUGcCGACACc -3'
miRNA:   3'- cCCCGCACC--CC---------GCAGUGACaGCUGUG- -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.