miRNA display CGI


Results 1 - 20 of 29 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
15701 3' -52.9 NC_004065.1 + 75787 0.66 0.98743
Target:  5'- -gGCGGUcggcGAGGGGGAgcGGCGgcGAg -3'
miRNA:   3'- uaCGCCAa---CUUCCUCUa-CCGCuaCUa -5'
15701 3' -52.9 NC_004065.1 + 61648 0.66 0.9858
Target:  5'- -aGaCGGUUGGcgcuGGAGAcgaUGGCGGUGu- -3'
miRNA:   3'- uaC-GCCAACUu---CCUCU---ACCGCUACua -5'
15701 3' -52.9 NC_004065.1 + 145707 0.66 0.9858
Target:  5'- -gGCGGggguaGGAGGAGA-GGuCGGUGGa -3'
miRNA:   3'- uaCGCCaa---CUUCCUCUaCC-GCUACUa -5'
15701 3' -52.9 NC_004065.1 + 192281 0.66 0.9858
Target:  5'- -gGCGGgUGAGGGGGGugaUGGUGuuGUGGUc -3'
miRNA:   3'- uaCGCCaACUUCCUCU---ACCGC--UACUA- -5'
15701 3' -52.9 NC_004065.1 + 52574 0.66 0.984012
Target:  5'- -cGCGGguuguaguugUGGAGGGGAcaGCGAUGGa -3'
miRNA:   3'- uaCGCCa---------ACUUCCUCUacCGCUACUa -5'
15701 3' -52.9 NC_004065.1 + 98391 0.66 0.982058
Target:  5'- -gGUGGUggcGAGGAG--GGCGAUGAg -3'
miRNA:   3'- uaCGCCAac-UUCCUCuaCCGCUACUa -5'
15701 3' -52.9 NC_004065.1 + 153135 0.66 0.97993
Target:  5'- cUGCGGUUGggGuuGGGGUGgagguugaagcuGCGGUGGc -3'
miRNA:   3'- uACGCCAACuuC--CUCUAC------------CGCUACUa -5'
15701 3' -52.9 NC_004065.1 + 45488 0.67 0.978566
Target:  5'- -cGaCGGgcGGAGGAGGacggugacgcaacggUGGCGGUGGc -3'
miRNA:   3'- uaC-GCCaaCUUCCUCU---------------ACCGCUACUa -5'
15701 3' -52.9 NC_004065.1 + 19426 0.67 0.975119
Target:  5'- -gGCGGaggUGccGGAGGcaccgcgcugcUGGCGAUGAg -3'
miRNA:   3'- uaCGCCa--ACuuCCUCU-----------ACCGCUACUa -5'
15701 3' -52.9 NC_004065.1 + 141613 0.67 0.972421
Target:  5'- -aGCGGcUUGAAGGcgGGAUGGUaGAUGu- -3'
miRNA:   3'- uaCGCC-AACUUCC--UCUACCG-CUACua -5'
15701 3' -52.9 NC_004065.1 + 62371 0.67 0.972421
Target:  5'- -gGCGGUggcggcGggGGuGGUGGCGgcGGg -3'
miRNA:   3'- uaCGCCAa-----CuuCCuCUACCGCuaCUa -5'
15701 3' -52.9 NC_004065.1 + 87799 0.68 0.96307
Target:  5'- -gGCGGUgGAcgcgagccAGGGGGUGGCGGUc-- -3'
miRNA:   3'- uaCGCCAaCU--------UCCUCUACCGCUAcua -5'
15701 3' -52.9 NC_004065.1 + 88651 0.68 0.959879
Target:  5'- -gGCGGUggcggcucggcgacgGAGGGcGGUGGCGGUGc- -3'
miRNA:   3'- uaCGCCAa--------------CUUCCuCUACCGCUACua -5'
15701 3' -52.9 NC_004065.1 + 90321 0.68 0.959513
Target:  5'- -cGCGuGUucacccugaUGAAGGAGGUGGCGuagcacguGUGAc -3'
miRNA:   3'- uaCGC-CA---------ACUUCCUCUACCGC--------UACUa -5'
15701 3' -52.9 NC_004065.1 + 109110 0.68 0.959145
Target:  5'- -gGCGGagGAGaggggacGGAGGUGGCGggGAc -3'
miRNA:   3'- uaCGCCaaCUU-------CCUCUACCGCuaCUa -5'
15701 3' -52.9 NC_004065.1 + 54564 0.68 0.955728
Target:  5'- -cGUGGUcacUGGucgGGGAGGUGGCGGaGAc -3'
miRNA:   3'- uaCGCCA---ACU---UCCUCUACCGCUaCUa -5'
15701 3' -52.9 NC_004065.1 + 203328 0.68 0.955728
Target:  5'- -gGUGGUgGAAaGAuGAUGGCGGUGGUg -3'
miRNA:   3'- uaCGCCAaCUUcCU-CUACCGCUACUA- -5'
15701 3' -52.9 NC_004065.1 + 50754 0.68 0.947452
Target:  5'- cGUGUGGUcgcgUGGAGGAGAcacGGCGAa--- -3'
miRNA:   3'- -UACGCCA----ACUUCCUCUa--CCGCUacua -5'
15701 3' -52.9 NC_004065.1 + 48581 0.69 0.938214
Target:  5'- -aGCGGgcacgGAgucggccuccAGGAGGcUGGCGAUGAc -3'
miRNA:   3'- uaCGCCaa---CU----------UCCUCU-ACCGCUACUa -5'
15701 3' -52.9 NC_004065.1 + 121824 0.69 0.927995
Target:  5'- cUGCGGac---GGAGGUGGCGggGAUg -3'
miRNA:   3'- uACGCCaacuuCCUCUACCGCuaCUA- -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.