miRNA display CGI


Results 1 - 20 of 28 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
19211 3' -63.2 NC_004684.1 + 57282 0.65 0.367201
Target:  5'- cCAGGUccacgcgcuugucgCCGGUGUGGCUgagcaCCCGGCg--- -3'
miRNA:   3'- -GUCCA--------------GGCCGCGCCGA-----GGGUCGacua -5'
19211 3' -63.2 NC_004684.1 + 9029 0.66 0.361473
Target:  5'- gCGGGgcggcaaCCGGCGCGGCaacgCCAGCaGGg -3'
miRNA:   3'- -GUCCa------GGCCGCGCCGag--GGUCGaCUa -5'
19211 3' -63.2 NC_004684.1 + 18881 0.66 0.352598
Target:  5'- uCAGGgcaCCaGCGCGGCUCCUccacgucGGCgGGg -3'
miRNA:   3'- -GUCCa--GGcCGCGCCGAGGG-------UCGaCUa -5'
19211 3' -63.2 NC_004684.1 + 239 0.66 0.345452
Target:  5'- ----cCCGGCGCGGUaacaCCgAGCUGAUc -3'
miRNA:   3'- guccaGGCCGCGCCGa---GGgUCGACUA- -5'
19211 3' -63.2 NC_004684.1 + 53158 0.66 0.337635
Target:  5'- cCGGGUCCGGCGUgaaGGCcUCCGGg-GAc -3'
miRNA:   3'- -GUCCAGGCCGCG---CCGaGGGUCgaCUa -5'
19211 3' -63.2 NC_004684.1 + 20261 0.66 0.337635
Target:  5'- -cGGcCCGGCGC-GUUCCCGGCcccugUGGUc -3'
miRNA:   3'- guCCaGGCCGCGcCGAGGGUCG-----ACUA- -5'
19211 3' -63.2 NC_004684.1 + 20493 0.66 0.337635
Target:  5'- gGGGaUgCGGCGgGGUgCUCGGCUGAc -3'
miRNA:   3'- gUCC-AgGCCGCgCCGaGGGUCGACUa -5'
19211 3' -63.2 NC_004684.1 + 6193 0.66 0.325397
Target:  5'- gCAGGuacaugucgauggccUCCGGCGCGauCUCggCCAGCUGGg -3'
miRNA:   3'- -GUCC---------------AGGCCGCGCc-GAG--GGUCGACUa -5'
19211 3' -63.2 NC_004684.1 + 35959 0.66 0.32239
Target:  5'- aCGGGUUCGGCGU--CUCCCAGUa--- -3'
miRNA:   3'- -GUCCAGGCCGCGccGAGGGUCGacua -5'
19211 3' -63.2 NC_004684.1 + 33812 0.66 0.32239
Target:  5'- -cGGUUCGGCGuCGGCgggcggugugCCCGGCg--- -3'
miRNA:   3'- guCCAGGCCGC-GCCGa---------GGGUCGacua -5'
19211 3' -63.2 NC_004684.1 + 6790 0.66 0.318659
Target:  5'- cCGGGUgaccggccugcgcaCCGuGCGCGGCguggagacauaCCAGCUGGUc -3'
miRNA:   3'- -GUCCA--------------GGC-CGCGCCGag---------GGUCGACUA- -5'
19211 3' -63.2 NC_004684.1 + 38284 0.67 0.314962
Target:  5'- -uGGUCUGGCGCaGCUCaCGGCUc-- -3'
miRNA:   3'- guCCAGGCCGCGcCGAGgGUCGAcua -5'
19211 3' -63.2 NC_004684.1 + 42652 0.67 0.314226
Target:  5'- gCAGGUCacgaaucUGGCGCaGCacgCCCAGCUcGGUg -3'
miRNA:   3'- -GUCCAG-------GCCGCGcCGa--GGGUCGA-CUA- -5'
19211 3' -63.2 NC_004684.1 + 57533 0.67 0.307664
Target:  5'- uCGGGaUCCGGCgGCaGCUCaCCGGCggcGGUg -3'
miRNA:   3'- -GUCC-AGGCCG-CGcCGAG-GGUCGa--CUA- -5'
19211 3' -63.2 NC_004684.1 + 1310 0.67 0.300496
Target:  5'- -uGG-CCGGacauGCGGUUCCaCGGCUGGg -3'
miRNA:   3'- guCCaGGCCg---CGCCGAGG-GUCGACUa -5'
19211 3' -63.2 NC_004684.1 + 29998 0.67 0.299787
Target:  5'- uGGGcaagcugCCGaGCacacccaGCGGCUCCUGGCUGAg -3'
miRNA:   3'- gUCCa------GGC-CG-------CGCCGAGGGUCGACUa -5'
19211 3' -63.2 NC_004684.1 + 19667 0.67 0.286549
Target:  5'- aAGGUaacgcgcucuaCCGGCGCGGCggcaaggCCUGGCcGAg -3'
miRNA:   3'- gUCCA-----------GGCCGCGCCGa------GGGUCGaCUa -5'
19211 3' -63.2 NC_004684.1 + 28777 0.68 0.273117
Target:  5'- cCAGGUCagCGGCaugccaccCGGUUCCgAGCUGGUg -3'
miRNA:   3'- -GUCCAG--GCCGc-------GCCGAGGgUCGACUA- -5'
19211 3' -63.2 NC_004684.1 + 61558 0.68 0.266593
Target:  5'- -uGGUCCGGgUGCGGCagcacucgCgCAGCUGGg -3'
miRNA:   3'- guCCAGGCC-GCGCCGa-------GgGUCGACUa -5'
19211 3' -63.2 NC_004684.1 + 59880 0.68 0.247776
Target:  5'- uGGGUCaCGcGCGCGGCggCCAGCg--- -3'
miRNA:   3'- gUCCAG-GC-CGCGCCGagGGUCGacua -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.