miRNA display CGI


Results 1 - 20 of 21 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
24833 3' -57.3 NC_005284.1 + 9160 0.66 0.628787
Target:  5'- aGCCuGCCCCGCgaaGACUCGCaccgcccucgUCCGg -3'
miRNA:   3'- -UGG-UGGGGUGg--CUGGGCGauaa------AGGC- -5'
24833 3' -57.3 NC_005284.1 + 41674 0.66 0.622296
Target:  5'- gGCCAUCCaaaucCCGAaCCGCU--UUCCGa -3'
miRNA:   3'- -UGGUGGGgu---GGCUgGGCGAuaAAGGC- -5'
24833 3' -57.3 NC_005284.1 + 34086 0.66 0.612565
Target:  5'- gGCCGCCCCcgguuccguGCCGACaCCGUaaaacugcacgCCGa -3'
miRNA:   3'- -UGGUGGGG---------UGGCUG-GGCGauaaa------GGC- -5'
24833 3' -57.3 NC_005284.1 + 35254 0.66 0.611485
Target:  5'- cGCCaACCCUGCCGcCCCGCgauguaGUUgUCGg -3'
miRNA:   3'- -UGG-UGGGGUGGCuGGGCGa-----UAAaGGC- -5'
24833 3' -57.3 NC_005284.1 + 29913 0.66 0.600692
Target:  5'- uCCACCCCAUCGACCgauccacguCGCgaggUUgCGc -3'
miRNA:   3'- uGGUGGGGUGGCUGG---------GCGaua-AAgGC- -5'
24833 3' -57.3 NC_005284.1 + 31197 0.66 0.589924
Target:  5'- cCCGCCgcgucgaugaaCCGCuCGACCCGC----UCCGg -3'
miRNA:   3'- uGGUGG-----------GGUG-GCUGGGCGauaaAGGC- -5'
24833 3' -57.3 NC_005284.1 + 27761 0.66 0.585626
Target:  5'- uGCCGCCCCAUUcGCCCGUaugcgagaaCCGg -3'
miRNA:   3'- -UGGUGGGGUGGcUGGGCGauaaa----GGC- -5'
24833 3' -57.3 NC_005284.1 + 45280 0.67 0.55786
Target:  5'- cGCuCGCCgggCGCCGACCCacGCUGUcgCCGc -3'
miRNA:   3'- -UG-GUGGg--GUGGCUGGG--CGAUAaaGGC- -5'
24833 3' -57.3 NC_005284.1 + 32949 0.67 0.547276
Target:  5'- cAUCGCCCaCGCCGGCggCGCUGgaagcgCCGg -3'
miRNA:   3'- -UGGUGGG-GUGGCUGg-GCGAUaaa---GGC- -5'
24833 3' -57.3 NC_005284.1 + 45713 0.67 0.536757
Target:  5'- aACUGCCCCGCCGcgaaCGCUug-UCCa -3'
miRNA:   3'- -UGGUGGGGUGGCugg-GCGAuaaAGGc -5'
24833 3' -57.3 NC_005284.1 + 17227 0.67 0.526309
Target:  5'- cCCugCUCGCCGugCCGUUcgUguggCUGg -3'
miRNA:   3'- uGGugGGGUGGCugGGCGAuaAa---GGC- -5'
24833 3' -57.3 NC_005284.1 + 33463 0.68 0.515939
Target:  5'- cACgCGCCCCGCCagucGCCCGC-AUUgaaCCGc -3'
miRNA:   3'- -UG-GUGGGGUGGc---UGGGCGaUAAa--GGC- -5'
24833 3' -57.3 NC_005284.1 + 21288 0.68 0.475345
Target:  5'- aACUAUCCCGCUucCCCGCUAUgUCgGc -3'
miRNA:   3'- -UGGUGGGGUGGcuGGGCGAUAaAGgC- -5'
24833 3' -57.3 NC_005284.1 + 34884 0.68 0.475345
Target:  5'- cACCAUCgCACCccACCCGCauugAUUUCCa -3'
miRNA:   3'- -UGGUGGgGUGGc-UGGGCGa---UAAAGGc -5'
24833 3' -57.3 NC_005284.1 + 45376 0.71 0.316055
Target:  5'- cACCGCCaUCAUCGGCCCGUUGUUggUCa -3'
miRNA:   3'- -UGGUGG-GGUGGCUGGGCGAUAAa-GGc -5'
24833 3' -57.3 NC_005284.1 + 36571 0.71 0.316055
Target:  5'- aACCGCCaCCGCCGAgcgUCCGCUcuugaAUcUCCGc -3'
miRNA:   3'- -UGGUGG-GGUGGCU---GGGCGA-----UAaAGGC- -5'
24833 3' -57.3 NC_005284.1 + 13663 0.73 0.26596
Target:  5'- cGCCAUCCCauccACUGACgCUGCUGUUccUCCGc -3'
miRNA:   3'- -UGGUGGGG----UGGCUG-GGCGAUAA--AGGC- -5'
24833 3' -57.3 NC_005284.1 + 40744 0.75 0.190182
Target:  5'- cGCCAgCCUGCCGcCCCGCU---UCCGg -3'
miRNA:   3'- -UGGUgGGGUGGCuGGGCGAuaaAGGC- -5'
24833 3' -57.3 NC_005284.1 + 21986 0.75 0.175625
Target:  5'- cGCCGCCCCGCa-ACCCGCgcaggCCGa -3'
miRNA:   3'- -UGGUGGGGUGgcUGGGCGauaaaGGC- -5'
24833 3' -57.3 NC_005284.1 + 37720 0.79 0.096174
Target:  5'- gGCCGCCCCGCCGAaaggCCGCgcuuaUCCGa -3'
miRNA:   3'- -UGGUGGGGUGGCUg---GGCGauaa-AGGC- -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.