miRNA display CGI


Results 1 - 20 of 28 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
23419 3' -53.3 NC_005259.1 + 42778 0.76 0.322184
Target:  5'- --gGuCUCGGGGCCGCCAcCGAUCaCUGu -3'
miRNA:   3'- guaC-GAGUUCCGGUGGUuGCUAG-GAC- -5'
23419 3' -53.3 NC_005259.1 + 17846 0.74 0.418445
Target:  5'- --gGC-CGAGGCCACCccguggucAGCGAUCCUu -3'
miRNA:   3'- guaCGaGUUCCGGUGG--------UUGCUAGGAc -5'
23419 3' -53.3 NC_005259.1 + 65413 0.73 0.428027
Target:  5'- uCAUGCUCAcGGUgGCCAaGCGAUggCCUGa -3'
miRNA:   3'- -GUACGAGUuCCGgUGGU-UGCUA--GGAC- -5'
23419 3' -53.3 NC_005259.1 + 63550 0.73 0.468619
Target:  5'- gGUGCUCGGcGGCCACCGacgcgACGAgcgggauauacgccgCCUGg -3'
miRNA:   3'- gUACGAGUU-CCGGUGGU-----UGCUa--------------GGAC- -5'
23419 3' -53.3 NC_005259.1 + 23348 0.72 0.477792
Target:  5'- --gGCUCGAGGCUGCCuGCGAggCCg- -3'
miRNA:   3'- guaCGAGUUCCGGUGGuUGCUa-GGac -5'
23419 3' -53.3 NC_005259.1 + 57966 0.72 0.508984
Target:  5'- cCAUGgUCGAGGUCGCCGG-GAUCgUGa -3'
miRNA:   3'- -GUACgAGUUCCGGUGGUUgCUAGgAC- -5'
23419 3' -53.3 NC_005259.1 + 50207 0.71 0.551826
Target:  5'- --cGCUCAAGcGCCGCCucgucaaucuCGAUCCg- -3'
miRNA:   3'- guaCGAGUUC-CGGUGGuu--------GCUAGGac -5'
23419 3' -53.3 NC_005259.1 + 67608 0.71 0.562716
Target:  5'- aCGUGUUCGA-GCCACCGACGAaaaCCa- -3'
miRNA:   3'- -GUACGAGUUcCGGUGGUUGCUa--GGac -5'
23419 3' -53.3 NC_005259.1 + 56092 0.7 0.595696
Target:  5'- gGUGCUCGucgGGGCCACC-GCGuggCCa- -3'
miRNA:   3'- gUACGAGU---UCCGGUGGuUGCua-GGac -5'
23419 3' -53.3 NC_005259.1 + 61949 0.69 0.650051
Target:  5'- gGUGC-CGGGGCCACCGcagccucACGcgCCg- -3'
miRNA:   3'- gUACGaGUUCCGGUGGU-------UGCuaGGac -5'
23419 3' -53.3 NC_005259.1 + 38038 0.69 0.706165
Target:  5'- gGUGUaCccGGCCACCAcaccCGAUCCUGc -3'
miRNA:   3'- gUACGaGuuCCGGUGGUu---GCUAGGAC- -5'
23419 3' -53.3 NC_005259.1 + 4471 0.68 0.748908
Target:  5'- --gGC-CAAGGCCAUCGGCGGUggaCCa- -3'
miRNA:   3'- guaCGaGUUCCGGUGGUUGCUA---GGac -5'
23419 3' -53.3 NC_005259.1 + 40687 0.68 0.753089
Target:  5'- gGUGCUCAccggcccgaugaucgGGGugcCCGCCAccACGGUCCa- -3'
miRNA:   3'- gUACGAGU---------------UCC---GGUGGU--UGCUAGGac -5'
23419 3' -53.3 NC_005259.1 + 60252 0.68 0.759322
Target:  5'- gCGUGCgggugCAAggcuGGCCACCAGCGcugCCg- -3'
miRNA:   3'- -GUACGa----GUU----CCGGUGGUUGCua-GGac -5'
23419 3' -53.3 NC_005259.1 + 45315 0.67 0.768581
Target:  5'- --cGC-CGAGGCCGCCGccgaacuGCGuggCCUGc -3'
miRNA:   3'- guaCGaGUUCCGGUGGU-------UGCua-GGAC- -5'
23419 3' -53.3 NC_005259.1 + 15094 0.67 0.769603
Target:  5'- uCAUGCgccgCAGGGCCAUCgaGugGAcCUUGg -3'
miRNA:   3'- -GUACGa---GUUCCGGUGG--UugCUaGGAC- -5'
23419 3' -53.3 NC_005259.1 + 36036 0.67 0.769603
Target:  5'- aCAUGaucagCGAGGCCACCcgcGCGAgcaccaCCUGc -3'
miRNA:   3'- -GUACga---GUUCCGGUGGu--UGCUa-----GGAC- -5'
23419 3' -53.3 NC_005259.1 + 40035 0.67 0.799534
Target:  5'- gAUGCUuUGAGGUCGCCggUGAUCg-- -3'
miRNA:   3'- gUACGA-GUUCCGGUGGuuGCUAGgac -5'
23419 3' -53.3 NC_005259.1 + 66840 0.67 0.809169
Target:  5'- --gGCUCAugccgcccgcacGGGCCACCGAuCGG-CCUu -3'
miRNA:   3'- guaCGAGU------------UCCGGUGGUU-GCUaGGAc -5'
23419 3' -53.3 NC_005259.1 + 16814 0.67 0.809169
Target:  5'- --cGCUCGGGGCCGgggUCA-UGAUCCg- -3'
miRNA:   3'- guaCGAGUUCCGGU---GGUuGCUAGGac -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.