miRNA display CGI


Results 1 - 20 of 58 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
5239 3' -60.6 NC_001798.1 + 64985 1.08 0.001271
Target:  5'- aCUCGGCCGACUCCAGAUCCAGGCCCAu -3'
miRNA:   3'- -GAGCCGGCUGAGGUCUAGGUCCGGGU- -5'
5239 3' -60.6 NC_001798.1 + 128384 0.77 0.19308
Target:  5'- --aGGCCGACUgCCAGcUCUGGGCCCu -3'
miRNA:   3'- gagCCGGCUGA-GGUCuAGGUCCGGGu -5'
5239 3' -60.6 NC_001798.1 + 66797 0.76 0.222946
Target:  5'- gUCGGCCGACgcgCgCGGGUCCGucgcggagcccGGCCCGg -3'
miRNA:   3'- gAGCCGGCUGa--G-GUCUAGGU-----------CCGGGU- -5'
5239 3' -60.6 NC_001798.1 + 135165 0.75 0.239304
Target:  5'- -aCGGCgCGGuuuuguuuCUCCGGGcUCCAGGCCCAg -3'
miRNA:   3'- gaGCCG-GCU--------GAGGUCU-AGGUCCGGGU- -5'
5239 3' -60.6 NC_001798.1 + 76058 0.74 0.301117
Target:  5'- -gCGGCUggagGACgUgCGGAUCCAGGCCCGc -3'
miRNA:   3'- gaGCCGG----CUG-AgGUCUAGGUCCGGGU- -5'
5239 3' -60.6 NC_001798.1 + 115752 0.72 0.366685
Target:  5'- -cCGGCCGG-UCCGGGggcaUCCAGGCCa- -3'
miRNA:   3'- gaGCCGGCUgAGGUCU----AGGUCCGGgu -5'
5239 3' -60.6 NC_001798.1 + 4887 0.72 0.366685
Target:  5'- gUCGGCUGGaUCCGGAgaUCCGGGgCCGc -3'
miRNA:   3'- gAGCCGGCUgAGGUCU--AGGUCCgGGU- -5'
5239 3' -60.6 NC_001798.1 + 86830 0.71 0.398823
Target:  5'- gUCGcuCCGGCUCCcGGcCCGGGCCCGg -3'
miRNA:   3'- gAGCc-GGCUGAGGuCUaGGUCCGGGU- -5'
5239 3' -60.6 NC_001798.1 + 121324 0.71 0.398823
Target:  5'- --gGGUCGAaacCCAGAcCCGGGCCCAc -3'
miRNA:   3'- gagCCGGCUga-GGUCUaGGUCCGGGU- -5'
5239 3' -60.6 NC_001798.1 + 22811 0.71 0.414707
Target:  5'- -gCGGCCccgGAuCUCCGGAUCCAGccgacggaccgccGCCCAc -3'
miRNA:   3'- gaGCCGG---CU-GAGGUCUAGGUC-------------CGGGU- -5'
5239 3' -60.6 NC_001798.1 + 149657 0.71 0.424079
Target:  5'- --aGGCCgGGCgCCGGGUCgCGGGCCCc -3'
miRNA:   3'- gagCCGG-CUGaGGUCUAG-GUCCGGGu -5'
5239 3' -60.6 NC_001798.1 + 72825 0.71 0.431841
Target:  5'- uCUCGGCCGGCUaUCAGG-CCgcacgcgcggcacGGGCCCc -3'
miRNA:   3'- -GAGCCGGCUGA-GGUCUaGG-------------UCCGGGu -5'
5239 3' -60.6 NC_001798.1 + 25262 0.71 0.441439
Target:  5'- -gCGGCUGGCgccgCCAGccgCCGGGgCCCAg -3'
miRNA:   3'- gaGCCGGCUGa---GGUCua-GGUCC-GGGU- -5'
5239 3' -60.6 NC_001798.1 + 2117 0.7 0.468213
Target:  5'- -gCGGCCcGCggCCAGGUCCucGCCCGg -3'
miRNA:   3'- gaGCCGGcUGa-GGUCUAGGucCGGGU- -5'
5239 3' -60.6 NC_001798.1 + 28869 0.7 0.477322
Target:  5'- cCUCGGCCGGCggagccCCGGAgcUCCgaAGGUCUg -3'
miRNA:   3'- -GAGCCGGCUGa-----GGUCU--AGG--UCCGGGu -5'
5239 3' -60.6 NC_001798.1 + 2080 0.7 0.495797
Target:  5'- gCUCGGCgGACcacUCCGGGgg-GGGCCCGc -3'
miRNA:   3'- -GAGCCGgCUG---AGGUCUaggUCCGGGU- -5'
5239 3' -60.6 NC_001798.1 + 109045 0.69 0.513642
Target:  5'- -cCGGCCGGCcCCAGGuaucgcgucuuugUCCuggGGGCCCc -3'
miRNA:   3'- gaGCCGGCUGaGGUCU-------------AGG---UCCGGGu -5'
5239 3' -60.6 NC_001798.1 + 116397 0.69 0.520283
Target:  5'- -aCGGCCGGCUgCugcacaacacCCAGGCCCGc -3'
miRNA:   3'- gaGCCGGCUGAgGucua------GGUCCGGGU- -5'
5239 3' -60.6 NC_001798.1 + 78574 0.69 0.524093
Target:  5'- -cUGGCCGcGCgCgAGcgCCGGGCCCAg -3'
miRNA:   3'- gaGCCGGC-UGaGgUCuaGGUCCGGGU- -5'
5239 3' -60.6 NC_001798.1 + 21787 0.69 0.524093
Target:  5'- -aCGGCCcGCcCCccGUCCGGGCCCGc -3'
miRNA:   3'- gaGCCGGcUGaGGucUAGGUCCGGGU- -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.