miRNA display CGI


Results 1 - 18 of 18 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
19699 5' -51 NC_004686.1 + 7971 0.66 0.935164
Target:  5'- aCCgggC-AGCGGCUCCccGGACGAaucguguugcUGCAGg -3'
miRNA:   3'- -GGa--GuUUGUUGAGGa-CCUGCU----------GCGUC- -5'
19699 5' -51 NC_004686.1 + 39750 0.66 0.9296
Target:  5'- gCUCGAcgacgGCGcCUCCUacacGGACGcCGCGGc -3'
miRNA:   3'- gGAGUU-----UGUuGAGGA----CCUGCuGCGUC- -5'
19699 5' -51 NC_004686.1 + 10915 0.66 0.923748
Target:  5'- gCC-CAcAACAACUCCgGGcaGCGugGguGa -3'
miRNA:   3'- -GGaGU-UUGUUGAGGaCC--UGCugCguC- -5'
19699 5' -51 NC_004686.1 + 45349 0.66 0.911179
Target:  5'- cCCUU--GCAGCUUCUGcuuaGCGGCGguGa -3'
miRNA:   3'- -GGAGuuUGUUGAGGACc---UGCUGCguC- -5'
19699 5' -51 NC_004686.1 + 54910 0.67 0.904466
Target:  5'- aCCUgCGGGCAACaaguucucgUCgUGGACGACGgAc -3'
miRNA:   3'- -GGA-GUUUGUUG---------AGgACCUGCUGCgUc -5'
19699 5' -51 NC_004686.1 + 19902 0.67 0.903089
Target:  5'- gCUCGGGCAcgagaguGCgcgCCUGGGCGACuaacucgGCAu -3'
miRNA:   3'- gGAGUUUGU-------UGa--GGACCUGCUG-------CGUc -5'
19699 5' -51 NC_004686.1 + 10081 0.67 0.890196
Target:  5'- ----uGACAACaUCgCUGGGuCGGCGCAGa -3'
miRNA:   3'- ggaguUUGUUG-AG-GACCU-GCUGCGUC- -5'
19699 5' -51 NC_004686.1 + 53795 0.67 0.890196
Target:  5'- uCCUCAccGACAcccGCUCCaugagcaucgGGACGAaaCGCAa -3'
miRNA:   3'- -GGAGU--UUGU---UGAGGa---------CCUGCU--GCGUc -5'
19699 5' -51 NC_004686.1 + 17630 0.68 0.841025
Target:  5'- cCCUUcgGgGACUCCagcgucgaGGAgGGCGCAGa -3'
miRNA:   3'- -GGAGuuUgUUGAGGa-------CCUgCUGCGUC- -5'
19699 5' -51 NC_004686.1 + 13916 0.69 0.822713
Target:  5'- aUCUCGAAUGAUUCggGGcCGGCGCAa -3'
miRNA:   3'- -GGAGUUUGUUGAGgaCCuGCUGCGUc -5'
19699 5' -51 NC_004686.1 + 23487 0.69 0.793706
Target:  5'- gCUCGAACGGCaUCUGGGuCGGCaGCAu -3'
miRNA:   3'- gGAGUUUGUUGaGGACCU-GCUG-CGUc -5'
19699 5' -51 NC_004686.1 + 36137 0.7 0.763117
Target:  5'- uCCUCAaggGACAGCaggccgUCCUGGAuugccaucaacaCGGCGguGg -3'
miRNA:   3'- -GGAGU---UUGUUG------AGGACCU------------GCUGCguC- -5'
19699 5' -51 NC_004686.1 + 21832 0.7 0.756837
Target:  5'- gCCUCGgcGgcgcgggcgcgggcgGCGGCUCC-GGACGGCGCu- -3'
miRNA:   3'- -GGAGU--U---------------UGUUGAGGaCCUGCUGCGuc -5'
19699 5' -51 NC_004686.1 + 28739 0.7 0.742004
Target:  5'- --aCAGAUAGCgUCCuUGGcGCGGCGCGGg -3'
miRNA:   3'- ggaGUUUGUUG-AGG-ACC-UGCUGCGUC- -5'
19699 5' -51 NC_004686.1 + 10268 0.71 0.687408
Target:  5'- gCUCAGAuuguCGACUUCUGGACGGCucuCGGu -3'
miRNA:   3'- gGAGUUU----GUUGAGGACCUGCUGc--GUC- -5'
19699 5' -51 NC_004686.1 + 3451 0.71 0.665098
Target:  5'- uCUUCGAGCAGggUUCC-GGGCaGACGCGGa -3'
miRNA:   3'- -GGAGUUUGUU--GAGGaCCUG-CUGCGUC- -5'
19699 5' -51 NC_004686.1 + 19450 0.77 0.389055
Target:  5'- uCCUCAAcCAuggugguccugguGCUCCUGGugGugGCuGg -3'
miRNA:   3'- -GGAGUUuGU-------------UGAGGACCugCugCGuC- -5'
19699 5' -51 NC_004686.1 + 41651 1.1 0.002576
Target:  5'- uCCUCAAACAACUCCUGGACGACGCAGc -3'
miRNA:   3'- -GGAGUUUGUUGAGGACCUGCUGCGUC- -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.