miRNA display CGI


Results 1 - 20 of 35 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
28918 5' -57.2 NC_006146.1 + 115583 0.68 0.767073
Target:  5'- uGGCaaaUGcCUCGGCcGGGa--AGACGCUg -3'
miRNA:   3'- -CCG---ACaGAGCCGaCCCguaUCUGCGA- -5'
28918 5' -57.2 NC_006146.1 + 22119 0.66 0.889362
Target:  5'- aGGCcggGUCUCGGguCUGGGgGUcuguGGugGUg -3'
miRNA:   3'- -CCGa--CAGAGCC--GACCCgUA----UCugCGa -5'
28918 5' -57.2 NC_006146.1 + 28275 0.66 0.889362
Target:  5'- aGGCcggGUCUCGGguCUGGGgGUcuguGGugGUg -3'
miRNA:   3'- -CCGa--CAGAGCC--GACCCgUA----UCugCGa -5'
28918 5' -57.2 NC_006146.1 + 119121 0.73 0.499996
Target:  5'- uGGCUGgaCUCGGCucUGGGCAgAGAgGCc -3'
miRNA:   3'- -CCGACa-GAGCCG--ACCCGUaUCUgCGa -5'
28918 5' -57.2 NC_006146.1 + 33958 0.71 0.588486
Target:  5'- cGCUgGUC-CGGgUGGGCGUGGucCGCUg -3'
miRNA:   3'- cCGA-CAGaGCCgACCCGUAUCu-GCGA- -5'
28918 5' -57.2 NC_006146.1 + 41614 0.71 0.598554
Target:  5'- gGGCUGg-UCcGCUGGGCccGGGCGCa -3'
miRNA:   3'- -CCGACagAGcCGACCCGuaUCUGCGa -5'
28918 5' -57.2 NC_006146.1 + 95300 0.71 0.618756
Target:  5'- cGCUGUagaCGGUgGGGCAgUAGGCGCg -3'
miRNA:   3'- cCGACAga-GCCGaCCCGU-AUCUGCGa -5'
28918 5' -57.2 NC_006146.1 + 106470 0.69 0.705292
Target:  5'- aGGCUGUCUCGGCgccgagaccccaagUaucaugugcacggGGGCcaagucagacagGUGGGCGCa -3'
miRNA:   3'- -CCGACAGAGCCG--------------A-------------CCCG------------UAUCUGCGa -5'
28918 5' -57.2 NC_006146.1 + 119942 0.69 0.724974
Target:  5'- cGGCgcugcugccggagGUCUCGGUgggGGGuCAggAGACGCc -3'
miRNA:   3'- -CCGa------------CAGAGCCGa--CCC-GUa-UCUGCGa -5'
28918 5' -57.2 NC_006146.1 + 19041 0.66 0.889362
Target:  5'- aGGCcggGUCUCGGguCUGGGgGUcuguGGugGUg -3'
miRNA:   3'- -CCGa--CAGAGCC--GACCCgUA----UCugCGa -5'
28918 5' -57.2 NC_006146.1 + 15964 0.67 0.845329
Target:  5'- aGGCcgGUCUCGGguCUGGGgGUcuguGGugGUg -3'
miRNA:   3'- -CCGa-CAGAGCC--GACCCgUA----UCugCGa -5'
28918 5' -57.2 NC_006146.1 + 33589 0.67 0.829073
Target:  5'- cGCUGguccggUUUGGgUGGGCGUGGucCGCg -3'
miRNA:   3'- cCGACa-----GAGCCgACCCGUAUCu-GCGa -5'
28918 5' -57.2 NC_006146.1 + 49482 0.68 0.776351
Target:  5'- gGGCcgcgGUgUCGGCcagGGGCGgcGugGCa -3'
miRNA:   3'- -CCGa---CAgAGCCGa--CCCGUauCugCGa -5'
28918 5' -57.2 NC_006146.1 + 99792 0.67 0.845329
Target:  5'- gGGCgcaggUGUCUCGGaaGGGCAccGGCGa- -3'
miRNA:   3'- -CCG-----ACAGAGCCgaCCCGUauCUGCga -5'
28918 5' -57.2 NC_006146.1 + 53356 0.68 0.785503
Target:  5'- cGGCgugagGUCUUGGCUGG-Ccc-GGCGCUu -3'
miRNA:   3'- -CCGa----CAGAGCCGACCcGuauCUGCGA- -5'
28918 5' -57.2 NC_006146.1 + 97792 0.67 0.829073
Target:  5'- cGCUGUUUCuGUaaacgGGGCccGGACGCUg -3'
miRNA:   3'- cCGACAGAGcCGa----CCCGuaUCUGCGA- -5'
28918 5' -57.2 NC_006146.1 + 12886 0.66 0.889362
Target:  5'- aGGCcggGUCUCGGguCUGGGgGUcuguGGugGUg -3'
miRNA:   3'- -CCGa--CAGAGCC--GACCCgUA----UCugCGa -5'
28918 5' -57.2 NC_006146.1 + 25197 0.66 0.889362
Target:  5'- aGGCcggGUCUCGGguCUGGGgGUcuguGGugGUg -3'
miRNA:   3'- -CCGa--CAGAGCC--GACCCgUA----UCugCGa -5'
28918 5' -57.2 NC_006146.1 + 144383 0.68 0.803394
Target:  5'- uGGCUGUCUUGcCUGGGUGU-GugGg- -3'
miRNA:   3'- -CCGACAGAGCcGACCCGUAuCugCga -5'
28918 5' -57.2 NC_006146.1 + 102017 0.67 0.812116
Target:  5'- gGGCUGUCUccCGGCUaGGGacUGGAacuUGCUg -3'
miRNA:   3'- -CCGACAGA--GCCGA-CCCguAUCU---GCGA- -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.