miRNA display CGI


Results 1 - 20 of 20 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
28059 3' -57.7 NC_005887.1 + 10691 0.66 0.541956
Target:  5'- aGCUuccGUaaGcCGUCGaACGCGAUGGaccGCGCGg -3'
miRNA:   3'- gCGA---CA--C-GCAGC-UGCGUUACC---CGCGC- -5'
28059 3' -57.7 NC_005887.1 + 26210 0.66 0.531301
Target:  5'- gCGCgccgGUG-GUUGGCGgGGUGGuugcGCGCGg -3'
miRNA:   3'- -GCGa---CACgCAGCUGCgUUACC----CGCGC- -5'
28059 3' -57.7 NC_005887.1 + 7211 0.66 0.520723
Target:  5'- uCGC-GUGCGcaggcgcugUCGGCGUc--GGGCGCa -3'
miRNA:   3'- -GCGaCACGC---------AGCUGCGuuaCCCGCGc -5'
28059 3' -57.7 NC_005887.1 + 33041 0.66 0.489512
Target:  5'- aCG-UGUGCGUCGGCGUuuc-GGUGCc -3'
miRNA:   3'- -GCgACACGCAGCUGCGuuacCCGCGc -5'
28059 3' -57.7 NC_005887.1 + 13614 0.66 0.489512
Target:  5'- uGCUGgcaGCG-CGGCGCGcgGcGGcCGCa -3'
miRNA:   3'- gCGACa--CGCaGCUGCGUuaC-CC-GCGc -5'
28059 3' -57.7 NC_005887.1 + 6811 0.66 0.489512
Target:  5'- aCGCUGcGCGacUGGCGCuacGuGGCGCGg -3'
miRNA:   3'- -GCGACaCGCa-GCUGCGuuaC-CCGCGC- -5'
28059 3' -57.7 NC_005887.1 + 15890 0.66 0.486438
Target:  5'- aGCUcgGUGCGcUCGACGCGcagcUGGccgaccugcguuccGCGCGg -3'
miRNA:   3'- gCGA--CACGC-AGCUGCGUu---ACC--------------CGCGC- -5'
28059 3' -57.7 NC_005887.1 + 37469 0.67 0.439563
Target:  5'- uGCaGUGCGcCgGAUGCGAUcaGGGCgGCGg -3'
miRNA:   3'- gCGaCACGCaG-CUGCGUUA--CCCG-CGC- -5'
28059 3' -57.7 NC_005887.1 + 2225 0.67 0.427056
Target:  5'- gGCUG-GCGcauccggucggaagUCGuCGCGAcgagcaUGGGCGCGc -3'
miRNA:   3'- gCGACaCGC--------------AGCuGCGUU------ACCCGCGC- -5'
28059 3' -57.7 NC_005887.1 + 26461 0.68 0.401769
Target:  5'- aGCUGcGCGUCGAgCGCAccgagcugcUGGuGCGCc -3'
miRNA:   3'- gCGACaCGCAGCU-GCGUu--------ACC-CGCGc -5'
28059 3' -57.7 NC_005887.1 + 36782 0.68 0.383663
Target:  5'- gCGCagGUcaGCGUCGGCGaUAgauugcagccacGUGGGCGCa -3'
miRNA:   3'- -GCGa-CA--CGCAGCUGC-GU------------UACCCGCGc -5'
28059 3' -57.7 NC_005887.1 + 16523 0.68 0.383663
Target:  5'- uCGC-GUcGcCGcCGGCGCcgAGUGGGCGCGu -3'
miRNA:   3'- -GCGaCA-C-GCaGCUGCG--UUACCCGCGC- -5'
28059 3' -57.7 NC_005887.1 + 4675 0.68 0.383663
Target:  5'- cCGCUGcGCaGaCGGCGagggucuGAUGGGCGCGc -3'
miRNA:   3'- -GCGACaCG-CaGCUGCg------UUACCCGCGC- -5'
28059 3' -57.7 NC_005887.1 + 14606 0.69 0.349112
Target:  5'- aCGCguacgGcCGUCGGCGCcGUcgaGGGCGCGc -3'
miRNA:   3'- -GCGaca--C-GCAGCUGCGuUA---CCCGCGC- -5'
28059 3' -57.7 NC_005887.1 + 30345 0.71 0.279725
Target:  5'- uGC-GUGCGcCGGaugucUGCAacGUGGGCGCGa -3'
miRNA:   3'- gCGaCACGCaGCU-----GCGU--UACCCGCGC- -5'
28059 3' -57.7 NC_005887.1 + 6982 0.71 0.272731
Target:  5'- aGCUGUGCaGgcccgCGugGUGccGGGCGUGa -3'
miRNA:   3'- gCGACACG-Ca----GCugCGUuaCCCGCGC- -5'
28059 3' -57.7 NC_005887.1 + 23707 0.71 0.259164
Target:  5'- gGCUGgaacaGCGUCGACaGCAGcGGGcCGCc -3'
miRNA:   3'- gCGACa----CGCAGCUG-CGUUaCCC-GCGc -5'
28059 3' -57.7 NC_005887.1 + 3414 0.71 0.246154
Target:  5'- cCGCUGgcaggGCGgcuUUGucACGCAgAUGGGCGCGa -3'
miRNA:   3'- -GCGACa----CGC---AGC--UGCGU-UACCCGCGC- -5'
28059 3' -57.7 NC_005887.1 + 21029 0.8 0.066983
Target:  5'- gGCcGaUGCgGUCGGCGCGGUGGGCGUGc -3'
miRNA:   3'- gCGaC-ACG-CAGCUGCGUUACCCGCGC- -5'
28059 3' -57.7 NC_005887.1 + 13425 1.08 0.000547
Target:  5'- uCGCUGUGCGUCGACGCAAUGGGCGCGc -3'
miRNA:   3'- -GCGACACGCAGCUGCGUUACCCGCGC- -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.