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
23431 5' -57.5 NC_005259.1 + 29410 0.66 0.649482
Target:  5'- cUCGGC--GAGCUCGuGCGCGCacacagGAUg- -3'
miRNA:   3'- -AGCCGaaCUCGAGC-CGCGUGg-----CUAgu -5'
23431 5' -57.5 NC_005259.1 + 58760 0.66 0.649482
Target:  5'- uUCGGCgaacGAcGCUgCGGgcgcugUGCGCCGGUCGa -3'
miRNA:   3'- -AGCCGaa--CU-CGA-GCC------GCGUGGCUAGU- -5'
23431 5' -57.5 NC_005259.1 + 41378 0.66 0.648411
Target:  5'- gCGGUc-GAGCUuggccgguacccaUGGCGCGCCGcUCGg -3'
miRNA:   3'- aGCCGaaCUCGA-------------GCCGCGUGGCuAGU- -5'
23431 5' -57.5 NC_005259.1 + 10248 0.66 0.628058
Target:  5'- aCGGCggUGuGCUUGaugaGCGgGCCGGUCu -3'
miRNA:   3'- aGCCGa-ACuCGAGC----CGCgUGGCUAGu -5'
23431 5' -57.5 NC_005259.1 + 65097 0.66 0.616275
Target:  5'- cUCGGCUcgUGgcacGGUcagugcgucaccgUCGGCGCACCGG-CGg -3'
miRNA:   3'- -AGCCGA--AC----UCG-------------AGCCGCGUGGCUaGU- -5'
23431 5' -57.5 NC_005259.1 + 34211 0.67 0.606647
Target:  5'- gUUGGUUUGAauGUcccCGGCGCuGCCGGUCu -3'
miRNA:   3'- -AGCCGAACU--CGa--GCCGCG-UGGCUAGu -5'
23431 5' -57.5 NC_005259.1 + 30818 0.67 0.595968
Target:  5'- gUCGGgU--AGUcCGGCGCGCCGAggUCGg -3'
miRNA:   3'- -AGCCgAacUCGaGCCGCGUGGCU--AGU- -5'
23431 5' -57.5 NC_005259.1 + 13339 0.67 0.595968
Target:  5'- aCGGCggGAccGCccCGcCGCACCGAUCAc -3'
miRNA:   3'- aGCCGaaCU--CGa-GCcGCGUGGCUAGU- -5'
23431 5' -57.5 NC_005259.1 + 27546 0.67 0.574706
Target:  5'- aCGGCggGAuGUUgCGGC-CACCGAUCc -3'
miRNA:   3'- aGCCGaaCU-CGA-GCCGcGUGGCUAGu -5'
23431 5' -57.5 NC_005259.1 + 50384 0.67 0.574706
Target:  5'- cUCGGCccacgUGucgcGGCUCGccgaGCGCGCCGGUg- -3'
miRNA:   3'- -AGCCGa----AC----UCGAGC----CGCGUGGCUAgu -5'
23431 5' -57.5 NC_005259.1 + 42757 0.67 0.563085
Target:  5'- gCGGUUcucGAucuGCUCGGCGgucucggggccgcCACCGAUCAc -3'
miRNA:   3'- aGCCGAa--CU---CGAGCCGC-------------GUGGCUAGU- -5'
23431 5' -57.5 NC_005259.1 + 17361 0.68 0.532776
Target:  5'- gUCGGC---GGCUCGGCGCugguCgUGGUCGa -3'
miRNA:   3'- -AGCCGaacUCGAGCCGCGu---G-GCUAGU- -5'
23431 5' -57.5 NC_005259.1 + 62930 0.68 0.532776
Target:  5'- cUCGGUUUGcGGCUCGcGCuGCuGCCGggCAc -3'
miRNA:   3'- -AGCCGAAC-UCGAGC-CG-CG-UGGCuaGU- -5'
23431 5' -57.5 NC_005259.1 + 8779 0.68 0.531741
Target:  5'- gCGGCggugaUGAGCUCGGCcCGCUuggcgagGAUCu -3'
miRNA:   3'- aGCCGa----ACUCGAGCCGcGUGG-------CUAGu -5'
23431 5' -57.5 NC_005259.1 + 18693 0.68 0.512217
Target:  5'- gUCuGCUUGAGCaCGGCGguCUGAccUCGa -3'
miRNA:   3'- -AGcCGAACUCGaGCCGCguGGCU--AGU- -5'
23431 5' -57.5 NC_005259.1 + 51792 0.69 0.472144
Target:  5'- uUCGGC----GCUCGGCGggUCGGUCAg -3'
miRNA:   3'- -AGCCGaacuCGAGCCGCguGGCUAGU- -5'
23431 5' -57.5 NC_005259.1 + 67900 0.69 0.472144
Target:  5'- uUCGGCUgUGGGuCUCGGCGa---GGUCAa -3'
miRNA:   3'- -AGCCGA-ACUC-GAGCCGCguggCUAGU- -5'
23431 5' -57.5 NC_005259.1 + 26655 0.69 0.462373
Target:  5'- cUCGGCa--GGUUCGGCGCACCcggCGg -3'
miRNA:   3'- -AGCCGaacUCGAGCCGCGUGGcuaGU- -5'
23431 5' -57.5 NC_005259.1 + 47900 0.69 0.452709
Target:  5'- gUCGGCUcguUGAGCgccuugaUGGCGuCGCCGAg-- -3'
miRNA:   3'- -AGCCGA---ACUCGa------GCCGC-GUGGCUagu -5'
23431 5' -57.5 NC_005259.1 + 18905 0.7 0.433718
Target:  5'- cUCGGCaacgaucUGAuGCUCGGCG-ACuCGAUCAu -3'
miRNA:   3'- -AGCCGa------ACU-CGAGCCGCgUG-GCUAGU- -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.