miRNA display CGI


Results 1 - 19 of 19 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
23222 3' -51.4 NC_005259.1 + 29880 0.66 0.916904
Target:  5'- cCGcCCGAUgucgAGGUCGGCAAGCa---- -3'
miRNA:   3'- uGCuGGUUG----UCUAGCCGUUCGaacuu -5'
23222 3' -51.4 NC_005259.1 + 27386 0.66 0.916904
Target:  5'- gUGACCGGCGGcgguGUCGGCAgcGGCg---- -3'
miRNA:   3'- uGCUGGUUGUC----UAGCCGU--UCGaacuu -5'
23222 3' -51.4 NC_005259.1 + 40886 0.66 0.910382
Target:  5'- cCGGCCAccgugGCgGGGUCGGCAGcgucccacGCUUGGu -3'
miRNA:   3'- uGCUGGU-----UG-UCUAGCCGUU--------CGAACUu -5'
23222 3' -51.4 NC_005259.1 + 63614 0.66 0.90357
Target:  5'- gGCGGCCAccgacgccugAUAGAUCaucguGGCGAGCUg--- -3'
miRNA:   3'- -UGCUGGU----------UGUCUAG-----CCGUUCGAacuu -5'
23222 3' -51.4 NC_005259.1 + 28999 0.67 0.881428
Target:  5'- uACGGCCAcgAGAUCGGCGAauGCg---- -3'
miRNA:   3'- -UGCUGGUugUCUAGCCGUU--CGaacuu -5'
23222 3' -51.4 NC_005259.1 + 42551 0.67 0.848134
Target:  5'- gUGGCgGGCAGcUCGGCGAGCa---- -3'
miRNA:   3'- uGCUGgUUGUCuAGCCGUUCGaacuu -5'
23222 3' -51.4 NC_005259.1 + 67834 0.68 0.839188
Target:  5'- uCGACCGGCAGccCGGUGAGCg---- -3'
miRNA:   3'- uGCUGGUUGUCuaGCCGUUCGaacuu -5'
23222 3' -51.4 NC_005259.1 + 32509 0.68 0.82061
Target:  5'- aAC-ACCGugAGGUagucgaggcgggCGGCAGGCUUGAc -3'
miRNA:   3'- -UGcUGGUugUCUA------------GCCGUUCGAACUu -5'
23222 3' -51.4 NC_005259.1 + 56243 0.68 0.811
Target:  5'- cCGACCAcguugGGAUCGGCGGcCUUGAGc -3'
miRNA:   3'- uGCUGGUug---UCUAGCCGUUcGAACUU- -5'
23222 3' -51.4 NC_005259.1 + 62995 0.68 0.811
Target:  5'- uCGACuCGAUGGcAUUGGCAGGCUgugGGAa -3'
miRNA:   3'- uGCUG-GUUGUC-UAGCCGUUCGAa--CUU- -5'
23222 3' -51.4 NC_005259.1 + 44556 0.68 0.809054
Target:  5'- -aGACCGGCAGGcagcgcgccgacCGGCAGGCUcaUGAu -3'
miRNA:   3'- ugCUGGUUGUCUa-----------GCCGUUCGA--ACUu -5'
23222 3' -51.4 NC_005259.1 + 41791 0.68 0.801191
Target:  5'- uCGGCgAGCAG-UCGGCAGGCg---- -3'
miRNA:   3'- uGCUGgUUGUCuAGCCGUUCGaacuu -5'
23222 3' -51.4 NC_005259.1 + 49714 0.69 0.791194
Target:  5'- -aGAuCCGGCAGAuauUCGGCGGGCggcGAGa -3'
miRNA:   3'- ugCU-GGUUGUCU---AGCCGUUCGaa-CUU- -5'
23222 3' -51.4 NC_005259.1 + 25441 0.7 0.727939
Target:  5'- uGCGAgCCguAugAGGUCGGCGAGCgucuUGAc -3'
miRNA:   3'- -UGCU-GG--UugUCUAGCCGUUCGa---ACUu -5'
23222 3' -51.4 NC_005259.1 + 58960 0.71 0.672314
Target:  5'- uUGGCCAGCAGGucgggcagcucgUCGGCGacggcgAGCUUGGc -3'
miRNA:   3'- uGCUGGUUGUCU------------AGCCGU------UCGAACUu -5'
23222 3' -51.4 NC_005259.1 + 3541 0.71 0.66102
Target:  5'- cCGACCAcagcCAGAUCcGCGAGCUUGc- -3'
miRNA:   3'- uGCUGGUu---GUCUAGcCGUUCGAACuu -5'
23222 3' -51.4 NC_005259.1 + 5731 0.72 0.615671
Target:  5'- gGCGGCCAuucucGCGGccaagCGGCGAGCUgccUGAAa -3'
miRNA:   3'- -UGCUGGU-----UGUCua---GCCGUUCGA---ACUU- -5'
23222 3' -51.4 NC_005259.1 + 67698 0.75 0.412689
Target:  5'- aAUGAUCAugAGAUCGGCGGGCa---- -3'
miRNA:   3'- -UGCUGGUugUCUAGCCGUUCGaacuu -5'
23222 3' -51.4 NC_005259.1 + 52507 1.06 0.004321
Target:  5'- uACGACCAACAGAUCGGCAAGCUUGAAu -3'
miRNA:   3'- -UGCUGGUUGUCUAGCCGUUCGAACUU- -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.