miRNA display CGI


Results 1 - 18 of 18 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
2040 5' -55.6 NC_001347.2 + 95124 0.66 0.972984
Target:  5'- aCGUCUGaGCGCCGcugacaguuuugGGGGCGGAgggaACaGGa -3'
miRNA:   3'- -GCAGGUaCGUGGC------------UCCCGUCU----UGaCC- -5'
2040 5' -55.6 NC_001347.2 + 52510 0.66 0.970257
Target:  5'- uGUCUGUGCGCCGu-GGU---GCUGGg -3'
miRNA:   3'- gCAGGUACGUGGCucCCGucuUGACC- -5'
2040 5' -55.6 NC_001347.2 + 10186 0.66 0.960561
Target:  5'- gGUCCAcGCACCGAGagacugaGGCAGcguccgguUUGGu -3'
miRNA:   3'- gCAGGUaCGUGGCUC-------CCGUCuu------GACC- -5'
2040 5' -55.6 NC_001347.2 + 126300 0.66 0.957379
Target:  5'- gCGUCUucggGCacACCGAGGGcCAGGugcuGCUGa -3'
miRNA:   3'- -GCAGGua--CG--UGGCUCCC-GUCU----UGACc -5'
2040 5' -55.6 NC_001347.2 + 29188 0.67 0.953643
Target:  5'- uGUCCGUGCccacGCCGAcaccccGGGUguacuaccAGAcGCUGGa -3'
miRNA:   3'- gCAGGUACG----UGGCU------CCCG--------UCU-UGACC- -5'
2040 5' -55.6 NC_001347.2 + 15624 0.67 0.949692
Target:  5'- gCGUUCGUcGaCGCgCGAGGGCgcGGAGCgGGu -3'
miRNA:   3'- -GCAGGUA-C-GUG-GCUCCCG--UCUUGaCC- -5'
2040 5' -55.6 NC_001347.2 + 209928 0.67 0.949692
Target:  5'- uGUCCAaccgugGCACCGuaGGCGGAACa-- -3'
miRNA:   3'- gCAGGUa-----CGUGGCucCCGUCUUGacc -5'
2040 5' -55.6 NC_001347.2 + 67392 0.67 0.941133
Target:  5'- cCGUCUcgcccGCGCUGuGGGCGcuGCUGGg -3'
miRNA:   3'- -GCAGGua---CGUGGCuCCCGUcuUGACC- -5'
2040 5' -55.6 NC_001347.2 + 82497 0.68 0.926624
Target:  5'- gCGUCCGUaGUcacgGCCGAGGccagcGCAGcguAGCUGGc -3'
miRNA:   3'- -GCAGGUA-CG----UGGCUCC-----CGUC---UUGACC- -5'
2040 5' -55.6 NC_001347.2 + 1895 0.68 0.926624
Target:  5'- gCGUCUGUGCugCGGcuGGCuGGcGCUGGg -3'
miRNA:   3'- -GCAGGUACGugGCUc-CCG-UCuUGACC- -5'
2040 5' -55.6 NC_001347.2 + 29129 0.68 0.921338
Target:  5'- gCGcUgCGUGCuCCGAucGGGCGGucGACUGGa -3'
miRNA:   3'- -GC-AgGUACGuGGCU--CCCGUC--UUGACC- -5'
2040 5' -55.6 NC_001347.2 + 135205 0.68 0.921338
Target:  5'- gGUCCGagGCGCCGAccccggcuGGGCGGccgaUGGg -3'
miRNA:   3'- gCAGGUa-CGUGGCU--------CCCGUCuug-ACC- -5'
2040 5' -55.6 NC_001347.2 + 169524 0.68 0.921338
Target:  5'- -cUCUGUGUACCGGGGucauacaaaaGCuGGGCUGGu -3'
miRNA:   3'- gcAGGUACGUGGCUCC----------CGuCUUGACC- -5'
2040 5' -55.6 NC_001347.2 + 163247 0.68 0.915827
Target:  5'- aCGUUCGUGCGagUCGGGuGGCAGuuGCUGc -3'
miRNA:   3'- -GCAGGUACGU--GGCUC-CCGUCu-UGACc -5'
2040 5' -55.6 NC_001347.2 + 91170 0.68 0.912413
Target:  5'- uCGcCCGUGCuCCGAGGaGCAGcGcgccuccuaccagaaGCUGGa -3'
miRNA:   3'- -GCaGGUACGuGGCUCC-CGUC-U---------------UGACC- -5'
2040 5' -55.6 NC_001347.2 + 39638 0.69 0.891564
Target:  5'- uCGcCCGUGUGCCGcGGGCGacacGcAGCUGGc -3'
miRNA:   3'- -GCaGGUACGUGGCuCCCGU----C-UUGACC- -5'
2040 5' -55.6 NC_001347.2 + 212508 0.71 0.816595
Target:  5'- uGUCCAc-UACCGAGGGUA--ACUGGa -3'
miRNA:   3'- gCAGGUacGUGGCUCCCGUcuUGACC- -5'
2040 5' -55.6 NC_001347.2 + 8337 0.71 0.799497
Target:  5'- -uUCCAaGCGCCGAGGGUAGGuGCg-- -3'
miRNA:   3'- gcAGGUaCGUGGCUCCCGUCU-UGacc -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.