miRNA display CGI


Results 1 - 20 of 85 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
23380 3' -59.4 NC_005259.1 + 54486 0.66 0.577552
Target:  5'- cCCGCcgaGGGUCaucGGCGGGCauGGCGGCg -3'
miRNA:   3'- -GGCG---CUCAGc--CCGUUCGggCCGUUGg -5'
23380 3' -59.4 NC_005259.1 + 51422 0.66 0.577552
Target:  5'- gCCGguUGAGgucUUGGGCGGGCCaCGG-GGCCu -3'
miRNA:   3'- -GGC--GCUC---AGCCCGUUCGG-GCCgUUGG- -5'
23380 3' -59.4 NC_005259.1 + 30135 0.66 0.608639
Target:  5'- gCUGCGAuaccUCGGGCAGcucGaCCgGGCcGCCu -3'
miRNA:   3'- -GGCGCUc---AGCCCGUU---C-GGgCCGuUGG- -5'
23380 3' -59.4 NC_005259.1 + 25927 0.66 0.56726
Target:  5'- gCCGCcGGUCcGGUGAgcgcacgccgguGCCCGGCccGCCg -3'
miRNA:   3'- -GGCGcUCAGcCCGUU------------CGGGCCGu-UGG- -5'
23380 3' -59.4 NC_005259.1 + 57442 0.66 0.608639
Target:  5'- aCGCGgcgaGGUUGGuGCGAcGCUgCGGCAgGCCg -3'
miRNA:   3'- gGCGC----UCAGCC-CGUU-CGG-GCCGU-UGG- -5'
23380 3' -59.4 NC_005259.1 + 65117 0.66 0.577552
Target:  5'- gUGCGucaccGUCGGcGCA---CCGGCGGCCa -3'
miRNA:   3'- gGCGCu----CAGCC-CGUucgGGCCGUUGG- -5'
23380 3' -59.4 NC_005259.1 + 20994 0.66 0.587883
Target:  5'- gUGUGGGccuacUCGGGC-GGCgacccugaCCGGCAGCUg -3'
miRNA:   3'- gGCGCUC-----AGCCCGuUCG--------GGCCGUUGG- -5'
23380 3' -59.4 NC_005259.1 + 3151 0.66 0.608639
Target:  5'- cCCGUGGGaCuacacGGUGAuGCCCGGCGAUg -3'
miRNA:   3'- -GGCGCUCaGc----CCGUU-CGGGCCGUUGg -5'
23380 3' -59.4 NC_005259.1 + 10493 0.66 0.56726
Target:  5'- gUCGUGGuuGUUGGGguuGUCCGGCAcggGCCa -3'
miRNA:   3'- -GGCGCU--CAGCCCguuCGGGCCGU---UGG- -5'
23380 3' -59.4 NC_005259.1 + 12005 0.66 0.595136
Target:  5'- aUCGauaGAGUCGGu--GGCCuuguacggugcgggCGGCAACCg -3'
miRNA:   3'- -GGCg--CUCAGCCcguUCGG--------------GCCGUUGG- -5'
23380 3' -59.4 NC_005259.1 + 42495 0.66 0.598248
Target:  5'- gCCGUGAcccGUCcGGCGguguGGCCa-GCAGCCg -3'
miRNA:   3'- -GGCGCU---CAGcCCGU----UCGGgcCGUUGG- -5'
23380 3' -59.4 NC_005259.1 + 42399 0.66 0.598248
Target:  5'- uCCaUGAGUCGucguacucgauGGC-GGUgCGGCAGCCg -3'
miRNA:   3'- -GGcGCUCAGC-----------CCGuUCGgGCCGUUGG- -5'
23380 3' -59.4 NC_005259.1 + 18779 0.66 0.608639
Target:  5'- aUCGCGG--UGGGCAAGCggUGGCAgggacGCCg -3'
miRNA:   3'- -GGCGCUcaGCCCGUUCGg-GCCGU-----UGG- -5'
23380 3' -59.4 NC_005259.1 + 33901 0.66 0.56726
Target:  5'- cCCGCGcGaCGGGcCGAGaCCGGCcACg -3'
miRNA:   3'- -GGCGCuCaGCCC-GUUCgGGCCGuUGg -5'
23380 3' -59.4 NC_005259.1 + 64213 0.67 0.506723
Target:  5'- cUCGCcGGUC-GGC-AGCCCGGUAucggggucgauaGCCg -3'
miRNA:   3'- -GGCGcUCAGcCCGuUCGGGCCGU------------UGG- -5'
23380 3' -59.4 NC_005259.1 + 9150 0.67 0.557016
Target:  5'- cUCGUGcccGUCGacGGCAuGCCggUGGCAGCCg -3'
miRNA:   3'- -GGCGCu--CAGC--CCGUuCGG--GCCGUUGG- -5'
23380 3' -59.4 NC_005259.1 + 14863 0.67 0.557016
Target:  5'- cUCGCGAGguUCGcGCu-GCCCGaGCcGCCg -3'
miRNA:   3'- -GGCGCUC--AGCcCGuuCGGGC-CGuUGG- -5'
23380 3' -59.4 NC_005259.1 + 68119 0.67 0.526631
Target:  5'- --uCGGGUCGagagcagcGGCGAGCUCGGCAGg- -3'
miRNA:   3'- ggcGCUCAGC--------CCGUUCGGGCCGUUgg -5'
23380 3' -59.4 NC_005259.1 + 46522 0.67 0.546826
Target:  5'- cCCGCGAgccgGUCGGGgaucgcCGAGaUCUGGUcGCCg -3'
miRNA:   3'- -GGCGCU----CAGCCC------GUUC-GGGCCGuUGG- -5'
23380 3' -59.4 NC_005259.1 + 32512 0.67 0.546826
Target:  5'- aCCGUGAgguaGUCGaGGCGGGCggcaGGCuuGACCu -3'
miRNA:   3'- -GGCGCU----CAGC-CCGUUCGgg--CCG--UUGG- -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.