miRNA display CGI


Results 1 - 20 of 80 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
26322 3' -64.2 NC_005345.2 + 9354 0.83 0.014401
Target:  5'- uGGUGGcUGCGGGCGGC-CGGGCUCGa- -3'
miRNA:   3'- -CCGCC-ACGCCCGUCGaGCCCGAGCcc -5'
26322 3' -64.2 NC_005345.2 + 12614 0.69 0.195384
Target:  5'- cGCGcucgGcCGGGCacGGCUCGGGCacCGGGc -3'
miRNA:   3'- cCGCca--C-GCCCG--UCGAGCCCGa-GCCC- -5'
26322 3' -64.2 NC_005345.2 + 22667 0.68 0.22144
Target:  5'- cGGaCGGU-CGGGCAGUcgcucgUCGuGGCggugaagCGGGg -3'
miRNA:   3'- -CC-GCCAcGCCCGUCG------AGC-CCGa------GCCC- -5'
26322 3' -64.2 NC_005345.2 + 30136 0.66 0.309565
Target:  5'- gGGCGGcgacGuCGaGGCGccgccccGCUCGGGCcgaggcUCGGGc -3'
miRNA:   3'- -CCGCCa---C-GC-CCGU-------CGAGCCCG------AGCCC- -5'
26322 3' -64.2 NC_005345.2 + 7347 0.73 0.096541
Target:  5'- cGCGGUGUGGcccgcgguggcGCAGC-CGGGCggGGGu -3'
miRNA:   3'- cCGCCACGCC-----------CGUCGaGCCCGagCCC- -5'
26322 3' -64.2 NC_005345.2 + 37572 0.73 0.096541
Target:  5'- aGGCGGgcgcagGCGGGCuGCaggCGGGCgacCGGc -3'
miRNA:   3'- -CCGCCa-----CGCCCGuCGa--GCCCGa--GCCc -5'
26322 3' -64.2 NC_005345.2 + 35904 0.72 0.116338
Target:  5'- cGGCGGcaucGuCGGGUGGCUCGGGacgCGGc -3'
miRNA:   3'- -CCGCCa---C-GCCCGUCGAGCCCga-GCCc -5'
26322 3' -64.2 NC_005345.2 + 41279 0.7 0.159271
Target:  5'- cGGCGG-GUGGGUGuGCUgGGGCcgccUCGGu -3'
miRNA:   3'- -CCGCCaCGCCCGU-CGAgCCCG----AGCCc -5'
26322 3' -64.2 NC_005345.2 + 21630 0.69 0.170731
Target:  5'- -uCGG-GCGGgagaucgauccucaGCGGCUCGGGCggggUGGGg -3'
miRNA:   3'- ccGCCaCGCC--------------CGUCGAGCCCGa---GCCC- -5'
26322 3' -64.2 NC_005345.2 + 14916 0.69 0.190506
Target:  5'- aGCGGgccgcgGCGcGGCGGCUgcagCGGGCggCGGc -3'
miRNA:   3'- cCGCCa-----CGC-CCGUCGA----GCCCGa-GCCc -5'
26322 3' -64.2 NC_005345.2 + 46401 0.69 0.180609
Target:  5'- uGGCGcGcuccacaUGCGGGCcGCUgucaucgcCGGGCgggCGGGa -3'
miRNA:   3'- -CCGC-C-------ACGCCCGuCGA--------GCCCGa--GCCC- -5'
26322 3' -64.2 NC_005345.2 + 25524 0.69 0.167691
Target:  5'- cGGCGGcUGCguaagcggcagGGGCAGCUCGacgagugguGGCgcuacuacCGGGg -3'
miRNA:   3'- -CCGCC-ACG-----------CCCGUCGAGC---------CCGa-------GCCC- -5'
26322 3' -64.2 NC_005345.2 + 8946 0.82 0.019586
Target:  5'- gGGCGGgcUGCGGGU-GCUCGGGCUCGa- -3'
miRNA:   3'- -CCGCC--ACGCCCGuCGAGCCCGAGCcc -5'
26322 3' -64.2 NC_005345.2 + 26356 0.69 0.185264
Target:  5'- cGCGGUGUGGGCGuCggaGGGUgagaacacgcaguUCGGGc -3'
miRNA:   3'- cCGCCACGCCCGUcGag-CCCG-------------AGCCC- -5'
26322 3' -64.2 NC_005345.2 + 33667 0.74 0.08215
Target:  5'- ----uUGCGGcGCAGCUCGGGCUCGa- -3'
miRNA:   3'- ccgccACGCC-CGUCGAGCCCGAGCcc -5'
26322 3' -64.2 NC_005345.2 + 21773 0.7 0.159271
Target:  5'- cGCuG-GCGGGCgAGC-CGGGgUCGGGu -3'
miRNA:   3'- cCGcCaCGCCCG-UCGaGCCCgAGCCC- -5'
26322 3' -64.2 NC_005345.2 + 6954 0.69 0.190506
Target:  5'- uGGUGGUGCcGGCGaucGCUUcgcugcggcaGGGCuuUCGGGg -3'
miRNA:   3'- -CCGCCACGcCCGU---CGAG----------CCCG--AGCCC- -5'
26322 3' -64.2 NC_005345.2 + 6819 0.68 0.210153
Target:  5'- cGGCGGacgccaugGCGGGCGGgaucgacauggucCUCGcGGCgacggaCGGGa -3'
miRNA:   3'- -CCGCCa-------CGCCCGUC-------------GAGC-CCGa-----GCCC- -5'
26322 3' -64.2 NC_005345.2 + 24802 0.73 0.084397
Target:  5'- aGGUGGUGCagccGGGCGaccggaucguGCUCGGGUUCGa- -3'
miRNA:   3'- -CCGCCACG----CCCGU----------CGAGCCCGAGCcc -5'
26322 3' -64.2 NC_005345.2 + 48568 0.72 0.104324
Target:  5'- cGCGGaUGCGGGCgccgaugAGCUCGcGGCgggCGaGGa -3'
miRNA:   3'- cCGCC-ACGCCCG-------UCGAGC-CCGa--GC-CC- -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.