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
20081 3' -55.5 NC_004687.1 + 136737 0.66 0.920858
Target:  5'- cGAGGCCGugcuGCUGGGCGcUG---GCGAa -3'
miRNA:   3'- -CUCUGGUu---CGACCCGUaACaggCGCU- -5'
20081 3' -55.5 NC_004687.1 + 102493 0.66 0.917427
Target:  5'- aGAaGCCGGGCUcggugggacgggggcGGGCGaUGgCCGCGAu -3'
miRNA:   3'- -CUcUGGUUCGA---------------CCCGUaACaGGCGCU- -5'
20081 3' -55.5 NC_004687.1 + 130769 0.66 0.915091
Target:  5'- cGAGGCCGAGCUGcccGCGaucGUCgGCGc -3'
miRNA:   3'- -CUCUGGUUCGACc--CGUaa-CAGgCGCu -5'
20081 3' -55.5 NC_004687.1 + 76127 0.66 0.915091
Target:  5'- -cGACCAGGUUGaGGCGcaUGcCCGgGAa -3'
miRNA:   3'- cuCUGGUUCGAC-CCGUa-ACaGGCgCU- -5'
20081 3' -55.5 NC_004687.1 + 81665 0.66 0.909082
Target:  5'- cAGACCGAGCaGGuuAUUGccgCCGCGu -3'
miRNA:   3'- cUCUGGUUCGaCCcgUAACa--GGCGCu -5'
20081 3' -55.5 NC_004687.1 + 137133 0.66 0.902832
Target:  5'- -cGAUCGGGacCUGGGCuc-GUCUGCGGg -3'
miRNA:   3'- cuCUGGUUC--GACCCGuaaCAGGCGCU- -5'
20081 3' -55.5 NC_004687.1 + 58752 0.66 0.896344
Target:  5'- uGGACCAcagaGGCgGGGCugcUGUCCG-GAc -3'
miRNA:   3'- cUCUGGU----UCGaCCCGua-ACAGGCgCU- -5'
20081 3' -55.5 NC_004687.1 + 106444 0.67 0.888935
Target:  5'- -cGGCCAugAGCUGGGCAcgGccucgcuUCaCGCGGg -3'
miRNA:   3'- cuCUGGU--UCGACCCGUaaC-------AG-GCGCU- -5'
20081 3' -55.5 NC_004687.1 + 1737 0.67 0.882665
Target:  5'- uGAGACCAggcAGCUGGaGCGaUGagCGaCGAg -3'
miRNA:   3'- -CUCUGGU---UCGACC-CGUaACagGC-GCU- -5'
20081 3' -55.5 NC_004687.1 + 4200 0.67 0.882665
Target:  5'- cGGGCCGAGCUGcGGCAcaGcUCUGUGc -3'
miRNA:   3'- cUCUGGUUCGAC-CCGUaaC-AGGCGCu -5'
20081 3' -55.5 NC_004687.1 + 74971 0.67 0.882665
Target:  5'- -cGGCCAaccGGCUGGGCGUgcacgGcCUGCu- -3'
miRNA:   3'- cuCUGGU---UCGACCCGUAa----CaGGCGcu -5'
20081 3' -55.5 NC_004687.1 + 107739 0.67 0.882665
Target:  5'- uGAGACCAGGCUGGuGCucgaUG-CCGg-- -3'
miRNA:   3'- -CUCUGGUUCGACC-CGua--ACaGGCgcu -5'
20081 3' -55.5 NC_004687.1 + 118126 0.67 0.868078
Target:  5'- cGGGGCCAAGaaGGGCGUgGUggaCGCGc -3'
miRNA:   3'- -CUCUGGUUCgaCCCGUAaCAg--GCGCu -5'
20081 3' -55.5 NC_004687.1 + 65585 0.67 0.860457
Target:  5'- -uGACCucguacuccuGCUGGGUGcUGUCCGgGAu -3'
miRNA:   3'- cuCUGGuu--------CGACCCGUaACAGGCgCU- -5'
20081 3' -55.5 NC_004687.1 + 101955 0.68 0.845402
Target:  5'- gGAGGCCAGGCcggagaaucggcgccGGGCGgagUGUUCGgGGg -3'
miRNA:   3'- -CUCUGGUUCGa--------------CCCGUa--ACAGGCgCU- -5'
20081 3' -55.5 NC_004687.1 + 57028 0.68 0.84459
Target:  5'- gGGGucuCCGGGCUGGGCGcgcUUGUUgGCc- -3'
miRNA:   3'- -CUCu--GGUUCGACCCGU---AACAGgCGcu -5'
20081 3' -55.5 NC_004687.1 + 91126 0.68 0.836357
Target:  5'- aGAGAUCucGUUGGGCAgcgacUG-CUGCGAg -3'
miRNA:   3'- -CUCUGGuuCGACCCGUa----ACaGGCGCU- -5'
20081 3' -55.5 NC_004687.1 + 89796 0.68 0.836357
Target:  5'- cAGGCCGcGCUGGGCc--GUCCacuGCGGc -3'
miRNA:   3'- cUCUGGUuCGACCCGuaaCAGG---CGCU- -5'
20081 3' -55.5 NC_004687.1 + 84605 0.68 0.836357
Target:  5'- -cGGCCAcaGGCUGuGGCGgggUGUCCuGCa- -3'
miRNA:   3'- cuCUGGU--UCGAC-CCGUa--ACAGG-CGcu -5'
20081 3' -55.5 NC_004687.1 + 42078 0.68 0.825372
Target:  5'- -cGACCAgaaagugauaccacAGCUGGGCcuugagcccGUCCGCGc -3'
miRNA:   3'- cuCUGGU--------------UCGACCCGuaa------CAGGCGCu -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.