miRNA display CGI


Results 1 - 20 of 30 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
2968 3' -59.9 NC_001493.1 + 88996 1.08 0.00134
Target:  5'- cCACGGCCACCGAGCCGGAGUUCCUCGa -3'
miRNA:   3'- -GUGCCGGUGGCUCGGCCUCAAGGAGC- -5'
2968 3' -59.9 NC_001493.1 + 123575 0.73 0.337111
Target:  5'- uCGgGGCCACCGGGCgGGAGgggaUCGa -3'
miRNA:   3'- -GUgCCGGUGGCUCGgCCUCaaggAGC- -5'
2968 3' -59.9 NC_001493.1 + 8021 0.73 0.337111
Target:  5'- uCGgGGCCACCGGGCgGGAGgggaUCGa -3'
miRNA:   3'- -GUgCCGGUGGCUCGgCCUCaaggAGC- -5'
2968 3' -59.9 NC_001493.1 + 90833 0.72 0.375553
Target:  5'- aACGGCCucucgacuCgGAGCCGGcGggCCUCGa -3'
miRNA:   3'- gUGCCGGu-------GgCUCGGCCuCaaGGAGC- -5'
2968 3' -59.9 NC_001493.1 + 126405 0.7 0.468976
Target:  5'- cCAUGGCCGCCgucauauuagagcGAGCCGccGAGUUUgUCGc -3'
miRNA:   3'- -GUGCCGGUGG-------------CUCGGC--CUCAAGgAGC- -5'
2968 3' -59.9 NC_001493.1 + 10851 0.7 0.468976
Target:  5'- cCAUGGCCGCCgucauauuagagcGAGCCGccGAGUUUgUCGc -3'
miRNA:   3'- -GUGCCGGUGG-------------CUCGGC--CUCAAGgAGC- -5'
2968 3' -59.9 NC_001493.1 + 49178 0.7 0.469888
Target:  5'- gACGGCCGCCaugcGCCGcuccAGUUCCUCc -3'
miRNA:   3'- gUGCCGGUGGcu--CGGCc---UCAAGGAGc -5'
2968 3' -59.9 NC_001493.1 + 96008 0.7 0.488323
Target:  5'- gGCGGUCGCgGGcGCCGuGAGacucUUCCUCGu -3'
miRNA:   3'- gUGCCGGUGgCU-CGGC-CUC----AAGGAGC- -5'
2968 3' -59.9 NC_001493.1 + 5154 0.69 0.564061
Target:  5'- -cCGGUCACCGgggccgagcgugcAGCCGGuGgacUUCCUCGu -3'
miRNA:   3'- guGCCGGUGGC-------------UCGGCCuC---AAGGAGC- -5'
2968 3' -59.9 NC_001493.1 + 120709 0.69 0.564061
Target:  5'- -cCGGUCACCGgggccgagcgugcAGCCGGuGgacUUCCUCGu -3'
miRNA:   3'- guGCCGGUGGC-------------UCGGCCuC---AAGGAGC- -5'
2968 3' -59.9 NC_001493.1 + 28883 0.69 0.57489
Target:  5'- gACGGCCACCGAaacGCuugccuuugugCGGGGaagCCUCa -3'
miRNA:   3'- gUGCCGGUGGCU---CG-----------GCCUCaa-GGAGc -5'
2968 3' -59.9 NC_001493.1 + 41927 0.68 0.614602
Target:  5'- cCAUGGUCacgACCGAGCCGGGcgagUCCaCGg -3'
miRNA:   3'- -GUGCCGG---UGGCUCGGCCUca--AGGaGC- -5'
2968 3' -59.9 NC_001493.1 + 28734 0.68 0.63456
Target:  5'- gCACGGCCGCUgGAGCgCGGGaUggaCUCGa -3'
miRNA:   3'- -GUGCCGGUGG-CUCG-GCCUcAag-GAGC- -5'
2968 3' -59.9 NC_001493.1 + 62576 0.67 0.644539
Target:  5'- cCACGGCCA-CGGGCaCGGGGggcgaggUCCa-- -3'
miRNA:   3'- -GUGCCGGUgGCUCG-GCCUCa------AGGagc -5'
2968 3' -59.9 NC_001493.1 + 18407 0.67 0.664463
Target:  5'- cCACGGCCACggggcgagcccUGAGgaacccuucCCGGAGgacCCUCGc -3'
miRNA:   3'- -GUGCCGGUG-----------GCUC---------GGCCUCaa-GGAGC- -5'
2968 3' -59.9 NC_001493.1 + 133961 0.67 0.664463
Target:  5'- cCACGGCCACggggcgagcccUGAGgaacccuucCCGGAGgacCCUCGc -3'
miRNA:   3'- -GUGCCGGUG-----------GCUC---------GGCCUCaa-GGAGC- -5'
2968 3' -59.9 NC_001493.1 + 118432 0.67 0.684288
Target:  5'- cCACGGCgGCCaGAGUgGGcAGagUCUUCGa -3'
miRNA:   3'- -GUGCCGgUGG-CUCGgCC-UCa-AGGAGC- -5'
2968 3' -59.9 NC_001493.1 + 2878 0.67 0.684288
Target:  5'- cCACGGCgGCCaGAGUgGGcAGagUCUUCGa -3'
miRNA:   3'- -GUGCCGgUGG-CUCGgCC-UCa-AGGAGC- -5'
2968 3' -59.9 NC_001493.1 + 18147 0.67 0.684288
Target:  5'- aCGCGGCCccgaaacugAUCGAGUgGGAGgu-CUCGg -3'
miRNA:   3'- -GUGCCGG---------UGGCUCGgCCUCaagGAGC- -5'
2968 3' -59.9 NC_001493.1 + 133701 0.67 0.684288
Target:  5'- aCGCGGCCccgaaacugAUCGAGUgGGAGgu-CUCGg -3'
miRNA:   3'- -GUGCCGG---------UGGCUCGgCCUCaagGAGC- -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.