miRNA display CGI


Results 1 - 20 of 27 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
16649 3' -55.8 NC_004156.1 + 81982 0.66 0.946132
Target:  5'- aCGGUGCcAGCugCAGaGCCA--ACUg -3'
miRNA:   3'- -GCCACGuUCGugGUCaCGGUcaUGGu -5'
16649 3' -55.8 NC_004156.1 + 35391 0.66 0.946132
Target:  5'- uGG-GCAAGUACCgAGUGCgCA--ACCAu -3'
miRNA:   3'- gCCaCGUUCGUGG-UCACG-GUcaUGGU- -5'
16649 3' -55.8 NC_004156.1 + 141799 0.66 0.946132
Target:  5'- -aGUGCAaagAGCACCaaaaguaacauuAGUGCaaagAGUACCAa -3'
miRNA:   3'- gcCACGU---UCGUGG------------UCACGg---UCAUGGU- -5'
16649 3' -55.8 NC_004156.1 + 90276 0.66 0.93656
Target:  5'- gGGUGU----GCCAGUGCCguugacuaguaacAGUGCCGa -3'
miRNA:   3'- gCCACGuucgUGGUCACGG-------------UCAUGGU- -5'
16649 3' -55.8 NC_004156.1 + 137056 0.67 0.932147
Target:  5'- ---gGCAA-CGCCAGUgGCCuAGUGCCAa -3'
miRNA:   3'- gccaCGUUcGUGGUCA-CGG-UCAUGGU- -5'
16649 3' -55.8 NC_004156.1 + 146184 0.67 0.930634
Target:  5'- gCGG-GCAGucgagucgcaguguGCACCGGUGCaCGGUugUg -3'
miRNA:   3'- -GCCaCGUU--------------CGUGGUCACG-GUCAugGu -5'
16649 3' -55.8 NC_004156.1 + 47567 0.67 0.927022
Target:  5'- uGGUGCcuguauugaAAGUAgUGGUGCCuGUACUAa -3'
miRNA:   3'- gCCACG---------UUCGUgGUCACGGuCAUGGU- -5'
16649 3' -55.8 NC_004156.1 + 53613 0.67 0.924907
Target:  5'- aCGGUGCcucggcuuuuacuGGCACUGGUGgUGGUGCUg -3'
miRNA:   3'- -GCCACGu------------UCGUGGUCACgGUCAUGGu -5'
16649 3' -55.8 NC_004156.1 + 77175 0.67 0.916076
Target:  5'- -uGUaCAAG-ACCAGUGCCAGUuuGCCGu -3'
miRNA:   3'- gcCAcGUUCgUGGUCACGGUCA--UGGU- -5'
16649 3' -55.8 NC_004156.1 + 53349 0.67 0.916076
Target:  5'- ---aGCAccacCACCAGUGCCAGUaaaaGCCGa -3'
miRNA:   3'- gccaCGUuc--GUGGUCACGGUCA----UGGU- -5'
16649 3' -55.8 NC_004156.1 + 44705 0.67 0.916076
Target:  5'- ----cCAGGCgACCGGUGCC-GUACCAg -3'
miRNA:   3'- gccacGUUCG-UGGUCACGGuCAUGGU- -5'
16649 3' -55.8 NC_004156.1 + 141714 0.67 0.910255
Target:  5'- aGaUGUAGGCGCCGGUagcGCUAGU-CCAa -3'
miRNA:   3'- gCcACGUUCGUGGUCA---CGGUCAuGGU- -5'
16649 3' -55.8 NC_004156.1 + 89174 0.67 0.904205
Target:  5'- -aGUGCGauguaaagcgcAGCACuagCAGUGCCGGUACgAa -3'
miRNA:   3'- gcCACGU-----------UCGUG---GUCACGGUCAUGgU- -5'
16649 3' -55.8 NC_004156.1 + 20603 0.68 0.897928
Target:  5'- gCGGUGCuguuGUGCCAGcucgugcaucgGCCuAGUGCCGc -3'
miRNA:   3'- -GCCACGuu--CGUGGUCa----------CGG-UCAUGGU- -5'
16649 3' -55.8 NC_004156.1 + 164398 0.68 0.891425
Target:  5'- -aGUGCcAGCACUGGUacccucuCCAGUACCAg -3'
miRNA:   3'- gcCACGuUCGUGGUCAc------GGUCAUGGU- -5'
16649 3' -55.8 NC_004156.1 + 114763 0.68 0.891425
Target:  5'- cCGGUGCAcGGCACCuuUGCCuuGU-CCGc -3'
miRNA:   3'- -GCCACGU-UCGUGGucACGGu-CAuGGU- -5'
16649 3' -55.8 NC_004156.1 + 70047 0.68 0.87776
Target:  5'- aCGGUGCAcgaccacuaucAGUACCAGUGgUguGGUGCa- -3'
miRNA:   3'- -GCCACGU-----------UCGUGGUCACgG--UCAUGgu -5'
16649 3' -55.8 NC_004156.1 + 103752 0.68 0.870606
Target:  5'- --aUGCAcccGCACCauaccaaaagAGUGCCAGUGCUAa -3'
miRNA:   3'- gccACGUu--CGUGG----------UCACGGUCAUGGU- -5'
16649 3' -55.8 NC_004156.1 + 213659 0.68 0.870606
Target:  5'- -aGUGCGAGUACCGGUGUCGuucagaguGUGCa- -3'
miRNA:   3'- gcCACGUUCGUGGUCACGGU--------CAUGgu -5'
16649 3' -55.8 NC_004156.1 + 60341 0.69 0.831829
Target:  5'- gGGUGCcuguaguuGUACCAguGUGCCAGUAUUg -3'
miRNA:   3'- gCCACGuu------CGUGGU--CACGGUCAUGGu -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.