miRNA display CGI


Results 1 - 20 of 38 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
24806 3' -53.5 NC_005284.1 + 43851 0.66 0.782327
Target:  5'- gGCGaCGAGgccgGC-CAUGCgGGCcuGCGCAu -3'
miRNA:   3'- -UGC-GUUCaa--CGuGUAUGgCCG--UGCGU- -5'
24806 3' -53.5 NC_005284.1 + 4419 0.66 0.782327
Target:  5'- -aGCGGGUUaagacgGCACAcacCCGGCacACGCAg -3'
miRNA:   3'- ugCGUUCAA------CGUGUau-GGCCG--UGCGU- -5'
24806 3' -53.5 NC_005284.1 + 33584 0.66 0.772065
Target:  5'- -aGCcGGgcgUGCACGUcaggACCGGCucCGCGu -3'
miRNA:   3'- ugCGuUCa--ACGUGUA----UGGCCGu-GCGU- -5'
24806 3' -53.5 NC_005284.1 + 601 0.66 0.772065
Target:  5'- -gGCAAGc-GCccuGCGUGCCGGUAUGUg -3'
miRNA:   3'- ugCGUUCaaCG---UGUAUGGCCGUGCGu -5'
24806 3' -53.5 NC_005284.1 + 36302 0.66 0.772065
Target:  5'- cACGCcga--GCGCGUucUCGGCGCGCAc -3'
miRNA:   3'- -UGCGuucaaCGUGUAu-GGCCGUGCGU- -5'
24806 3' -53.5 NC_005284.1 + 28448 0.66 0.761651
Target:  5'- gACGCAGGUcUGC-C--ACCGGCACauuGCGc -3'
miRNA:   3'- -UGCGUUCA-ACGuGuaUGGCCGUG---CGU- -5'
24806 3' -53.5 NC_005284.1 + 27647 0.66 0.758499
Target:  5'- cCGC-AGUUGCAUcgcagaugcgucgcgGCgGGCACGCGc -3'
miRNA:   3'- uGCGuUCAACGUGua-------------UGgCCGUGCGU- -5'
24806 3' -53.5 NC_005284.1 + 32326 0.66 0.751098
Target:  5'- uUGCAGGUaGUagaaGCGUGCCG-CACGCu -3'
miRNA:   3'- uGCGUUCAaCG----UGUAUGGCcGUGCGu -5'
24806 3' -53.5 NC_005284.1 + 8905 0.67 0.729621
Target:  5'- -gGCAAGUUGCGCGgcaGCaguGGCuuCGCGc -3'
miRNA:   3'- ugCGUUCAACGUGUa--UGg--CCGu-GCGU- -5'
24806 3' -53.5 NC_005284.1 + 16146 0.67 0.718723
Target:  5'- cGCGCAGccGUgggGCACAUcgcugaugggGCuCGGCGCGUc -3'
miRNA:   3'- -UGCGUU--CAa--CGUGUA----------UG-GCCGUGCGu -5'
24806 3' -53.5 NC_005284.1 + 12332 0.67 0.707735
Target:  5'- aACGCAGGgagGCGau--CCGGCuucGCGCGa -3'
miRNA:   3'- -UGCGUUCaa-CGUguauGGCCG---UGCGU- -5'
24806 3' -53.5 NC_005284.1 + 35649 0.67 0.707735
Target:  5'- uGCGuCAGGUU-CACgAUGCCGuucGCGCGCGg -3'
miRNA:   3'- -UGC-GUUCAAcGUG-UAUGGC---CGUGCGU- -5'
24806 3' -53.5 NC_005284.1 + 33183 0.67 0.707735
Target:  5'- cGCGCGAGaucUUGCccaacgcuucgGCAUGCCGcuGCGCGUc -3'
miRNA:   3'- -UGCGUUC---AACG-----------UGUAUGGC--CGUGCGu -5'
24806 3' -53.5 NC_005284.1 + 40832 0.67 0.707735
Target:  5'- uUGCG---UGCGCGU-CCGGCACuGCAa -3'
miRNA:   3'- uGCGUucaACGUGUAuGGCCGUG-CGU- -5'
24806 3' -53.5 NC_005284.1 + 21887 0.67 0.693336
Target:  5'- gACGCAgcGGUUGCggaacgcguuuucgGCGUcGCCGGCgacgaucaGCGCGa -3'
miRNA:   3'- -UGCGU--UCAACG--------------UGUA-UGGCCG--------UGCGU- -5'
24806 3' -53.5 NC_005284.1 + 17684 0.68 0.689997
Target:  5'- cGCGCGAucgUGCGCGacgcccugaaucucGCCGGCGCGUc -3'
miRNA:   3'- -UGCGUUca-ACGUGUa-------------UGGCCGUGCGu -5'
24806 3' -53.5 NC_005284.1 + 49113 0.68 0.685537
Target:  5'- aGCGCGAGggcgaagUGUuCAUGCguuuuaaGGCGCGCGu -3'
miRNA:   3'- -UGCGUUCa------ACGuGUAUGg------CCGUGCGU- -5'
24806 3' -53.5 NC_005284.1 + 19303 0.68 0.685537
Target:  5'- gACGCAAGUacaugGCAUcgAUCGGCGuggGCAu -3'
miRNA:   3'- -UGCGUUCAa----CGUGuaUGGCCGUg--CGU- -5'
24806 3' -53.5 NC_005284.1 + 42026 0.68 0.663124
Target:  5'- uCGCGA---GCGCGUGCCGGCcgaGCGg -3'
miRNA:   3'- uGCGUUcaaCGUGUAUGGCCGug-CGU- -5'
24806 3' -53.5 NC_005284.1 + 45507 0.68 0.663124
Target:  5'- cACGCGAuGUUGUACcgAUgGGaCGCGUAa -3'
miRNA:   3'- -UGCGUU-CAACGUGuaUGgCC-GUGCGU- -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.