miRNA display CGI


Results 1 - 20 of 31 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
22591 5' -55.5 NC_005091.1 + 34558 0.72 0.349612
Target:  5'- aUCGCAGCauuGUCgaugUAGCAGGCGAGg -3'
miRNA:   3'- -AGUGUCGcguCAGa---GUCGUCCGCUUg -5'
22591 5' -55.5 NC_005091.1 + 6879 0.72 0.333004
Target:  5'- gUCGCAcGCGCAG-CggaAGCGGGCGcGACg -3'
miRNA:   3'- -AGUGU-CGCGUCaGag-UCGUCCGC-UUG- -5'
22591 5' -55.5 NC_005091.1 + 38851 0.66 0.703521
Target:  5'- cCACAucuGCGCgaacagguguucauaGGUCUCGGCAgccGGCGucGCg -3'
miRNA:   3'- aGUGU---CGCG---------------UCAGAGUCGU---CCGCu-UG- -5'
22591 5' -55.5 NC_005091.1 + 1994 0.66 0.699161
Target:  5'- aCACGaCGCuGUCgCGGCcaugcuGGCGAACg -3'
miRNA:   3'- aGUGUcGCGuCAGaGUCGu-----CCGCUUG- -5'
22591 5' -55.5 NC_005091.1 + 24962 0.66 0.666173
Target:  5'- cCGCAGUGCcgaccAGUCUC-GCAGucuCGAACu -3'
miRNA:   3'- aGUGUCGCG-----UCAGAGuCGUCc--GCUUG- -5'
22591 5' -55.5 NC_005091.1 + 34465 0.67 0.610683
Target:  5'- uUCGCcGCGCGGUCccacUCGGCAGucGCcAGCa -3'
miRNA:   3'- -AGUGuCGCGUCAG----AGUCGUC--CGcUUG- -5'
22591 5' -55.5 NC_005091.1 + 37832 0.67 0.610683
Target:  5'- gUCACGGUGCGGUUguccauGGUGAACa -3'
miRNA:   3'- -AGUGUCGCGUCAGagucguCCGCUUG- -5'
22591 5' -55.5 NC_005091.1 + 21224 0.68 0.577534
Target:  5'- aUUGCAGCGCAGg--CGGUu-GCGAGCa -3'
miRNA:   3'- -AGUGUCGCGUCagaGUCGucCGCUUG- -5'
22591 5' -55.5 NC_005091.1 + 48958 0.69 0.523306
Target:  5'- -gGCGGgGCAGgauuggggCUUGGCGGGCGcGCu -3'
miRNA:   3'- agUGUCgCGUCa-------GAGUCGUCCGCuUG- -5'
22591 5' -55.5 NC_005091.1 + 55578 0.69 0.490673
Target:  5'- --uCAGCGCGGUCcacgcgcUCGuGCAGGCGGc- -3'
miRNA:   3'- aguGUCGCGUCAG-------AGU-CGUCCGCUug -5'
22591 5' -55.5 NC_005091.1 + 57829 0.69 0.471145
Target:  5'- -gACGGCGCAgGUCgagCAGCAaucGGCGGu- -3'
miRNA:   3'- agUGUCGCGU-CAGa--GUCGU---CCGCUug -5'
22591 5' -55.5 NC_005091.1 + 55839 0.69 0.471145
Target:  5'- -aGCGGCGCAGcCggUCAGCAacuGGCGcACg -3'
miRNA:   3'- agUGUCGCGUCaG--AGUCGU---CCGCuUG- -5'
22591 5' -55.5 NC_005091.1 + 435 0.69 0.471145
Target:  5'- -gACGGCGCAgGUCgagCAGCAaucGGCGGu- -3'
miRNA:   3'- agUGUCGCGU-CAGa--GUCGU---CCGCUug -5'
22591 5' -55.5 NC_005091.1 + 4830 0.7 0.451024
Target:  5'- gCGCGGCGgcaaCGGUCa-AGCGGGCGAAg -3'
miRNA:   3'- aGUGUCGC----GUCAGagUCGUCCGCUUg -5'
22591 5' -55.5 NC_005091.1 + 26269 1.1 0.000651
Target:  5'- cUCACAGCGCAGUCUCAGCAGGCGAACg -3'
miRNA:   3'- -AGUGUCGCGUCAGAGUCGUCCGCUUG- -5'
22591 5' -55.5 NC_005091.1 + 42653 0.72 0.358135
Target:  5'- gCGCGGCGCGGacaagcgucuUCUCGGCgAGcGCGAGa -3'
miRNA:   3'- aGUGUCGCGUC----------AGAGUCG-UC-CGCUUg -5'
22591 5' -55.5 NC_005091.1 + 23550 0.71 0.393657
Target:  5'- uUCGCuGCGCAGUUcCuGCGccagauGGCGAGCg -3'
miRNA:   3'- -AGUGuCGCGUCAGaGuCGU------CCGCUUG- -5'
22591 5' -55.5 NC_005091.1 + 34799 0.7 0.440161
Target:  5'- -aACGGCGCGGUCggcuaUCAGCgcgacagcaucguGGGCGcGCa -3'
miRNA:   3'- agUGUCGCGUCAG-----AGUCG-------------UCCGCuUG- -5'
22591 5' -55.5 NC_005091.1 + 23374 0.69 0.491711
Target:  5'- cUC-CGGUGCAGUCgucggUCAGCcGGGCGGc- -3'
miRNA:   3'- -AGuGUCGCGUCAG-----AGUCG-UCCGCUug -5'
22591 5' -55.5 NC_005091.1 + 13586 0.68 0.554562
Target:  5'- -aGCAGCGacgugaaCGGUCUCGGC-GGCGcACc -3'
miRNA:   3'- agUGUCGC-------GUCAGAGUCGuCCGCuUG- -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.