miRNA display CGI


Results 1 - 20 of 29 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
23441 3' -57.1 NC_005259.1 + 32220 0.66 0.724134
Target:  5'- aCACCGacgccUCGGCACCGAgcUgCUCGa-- -3'
miRNA:   3'- -GUGGC-----AGCCGUGGCUauAgGGGCagu -5'
23441 3' -57.1 NC_005259.1 + 8487 0.66 0.693012
Target:  5'- gCGCUGUCGGCACUGAUGgugugcaCCagaCG-CAg -3'
miRNA:   3'- -GUGGCAGCCGUGGCUAUa------GGg--GCaGU- -5'
23441 3' -57.1 NC_005259.1 + 19655 0.66 0.693012
Target:  5'- gCACCGccUCGGgcaGCCGcuacAUCCCCGgUCAg -3'
miRNA:   3'- -GUGGC--AGCCg--UGGCua--UAGGGGC-AGU- -5'
23441 3' -57.1 NC_005259.1 + 12160 0.66 0.671973
Target:  5'- cCGCCGaCGGCACCGc---CCUCGgUCGa -3'
miRNA:   3'- -GUGGCaGCCGUGGCuauaGGGGC-AGU- -5'
23441 3' -57.1 NC_005259.1 + 17314 0.67 0.650795
Target:  5'- aCGCCGagCGGUACCccgagGGUGUgCCgGUCAa -3'
miRNA:   3'- -GUGGCa-GCCGUGG-----CUAUAgGGgCAGU- -5'
23441 3' -57.1 NC_005259.1 + 44422 0.67 0.650795
Target:  5'- gACCGgCaGCGCCGAUAccggCCCCGa-- -3'
miRNA:   3'- gUGGCaGcCGUGGCUAUa---GGGGCagu -5'
23441 3' -57.1 NC_005259.1 + 20042 0.67 0.649733
Target:  5'- gACCGUCaagcGCugCGAUGUCCgcugcgguggcggUCGUCAc -3'
miRNA:   3'- gUGGCAGc---CGugGCUAUAGG-------------GGCAGU- -5'
23441 3' -57.1 NC_005259.1 + 4575 0.67 0.629551
Target:  5'- gAUCGUCGGCA-CGu--UCCCCGaCAa -3'
miRNA:   3'- gUGGCAGCCGUgGCuauAGGGGCaGU- -5'
23441 3' -57.1 NC_005259.1 + 34558 0.67 0.629551
Target:  5'- uGCCGUCGGgGCCGAcggcgagGUUCUCGg-- -3'
miRNA:   3'- gUGGCAGCCgUGGCUa------UAGGGGCagu -5'
23441 3' -57.1 NC_005259.1 + 47194 0.67 0.608316
Target:  5'- uGCCGUCGGCgaagaacuuGCCGAgcuucugcUGUCCCuCGa-- -3'
miRNA:   3'- gUGGCAGCCG---------UGGCU--------AUAGGG-GCagu -5'
23441 3' -57.1 NC_005259.1 + 6444 0.68 0.583994
Target:  5'- gCACCGUCGcGCugaucggcagcgucGCCGGUG-CCCUGUa- -3'
miRNA:   3'- -GUGGCAGC-CG--------------UGGCUAUaGGGGCAgu -5'
23441 3' -57.1 NC_005259.1 + 53255 0.68 0.566139
Target:  5'- aCACCGUCGcCGCCGcUGUCgCCGg-- -3'
miRNA:   3'- -GUGGCAGCcGUGGCuAUAGgGGCagu -5'
23441 3' -57.1 NC_005259.1 + 61791 0.68 0.555701
Target:  5'- aCACCGgCGGC-CUGAUAgCCCUGUa- -3'
miRNA:   3'- -GUGGCaGCCGuGGCUAUaGGGGCAgu -5'
23441 3' -57.1 NC_005259.1 + 40146 0.69 0.54532
Target:  5'- uCGCCGUCGGUugUcGGUGcccgCCCCGgCAg -3'
miRNA:   3'- -GUGGCAGCCGugG-CUAUa---GGGGCaGU- -5'
23441 3' -57.1 NC_005259.1 + 58197 0.69 0.535002
Target:  5'- cCGCCGUgGGCuuGCCGGUGUCaggGUCAg -3'
miRNA:   3'- -GUGGCAgCCG--UGGCUAUAGgggCAGU- -5'
23441 3' -57.1 NC_005259.1 + 22800 0.69 0.51458
Target:  5'- uCACCGagGGUGCCGAUuUCCCgaugugugacugCGUCGu -3'
miRNA:   3'- -GUGGCagCCGUGGCUAuAGGG------------GCAGU- -5'
23441 3' -57.1 NC_005259.1 + 37054 0.69 0.494483
Target:  5'- cCACCGcccaCGGCGgCGGUGUCCaCGUCc -3'
miRNA:   3'- -GUGGCa---GCCGUgGCUAUAGGgGCAGu -5'
23441 3' -57.1 NC_005259.1 + 61498 0.7 0.455421
Target:  5'- gACCGUUgaGGCGCuCGGUGUgCCgGUCGa -3'
miRNA:   3'- gUGGCAG--CCGUG-GCUAUAgGGgCAGU- -5'
23441 3' -57.1 NC_005259.1 + 9326 0.7 0.449704
Target:  5'- uCACCGaugaacgugucgaggUCGGCACCGAUGa--CCGUCu -3'
miRNA:   3'- -GUGGC---------------AGCCGUGGCUAUaggGGCAGu -5'
23441 3' -57.1 NC_005259.1 + 30126 0.71 0.427245
Target:  5'- uGCCGUcCGGCugCGAUA-CCUCGggCAg -3'
miRNA:   3'- gUGGCA-GCCGugGCUAUaGGGGCa-GU- -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.