miRNA display CGI


Results 1 - 17 of 17 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
31744 3' -54.8 NC_006938.1 + 45277 0.66 0.760945
Target:  5'- --aGGGUGUcccacuuGCGGaGGCGGCCCa-- -3'
miRNA:   3'- guaCCCGCAu------CGCUaCCGUUGGGaag -5'
31744 3' -54.8 NC_006938.1 + 17898 0.66 0.740117
Target:  5'- uGUGGGCGUcuacGGCGA-GGaCGacugcGCCCUg- -3'
miRNA:   3'- gUACCCGCA----UCGCUaCC-GU-----UGGGAag -5'
31744 3' -54.8 NC_006938.1 + 12983 0.67 0.697232
Target:  5'- --cGGGCGgucucGUGAccccaagaacUGGCcACCCUUCu -3'
miRNA:   3'- guaCCCGCau---CGCU----------ACCGuUGGGAAG- -5'
31744 3' -54.8 NC_006938.1 + 27644 0.67 0.697232
Target:  5'- aGUGGGaGcAGUGGUGGCgGACCCg-- -3'
miRNA:   3'- gUACCCgCaUCGCUACCG-UUGGGaag -5'
31744 3' -54.8 NC_006938.1 + 55901 0.67 0.697232
Target:  5'- uGUGuauUGUGGUGGccgGGCAGCCCUUCu -3'
miRNA:   3'- gUACcc-GCAUCGCUa--CCGUUGGGAAG- -5'
31744 3' -54.8 NC_006938.1 + 29340 0.67 0.693965
Target:  5'- gGUGGuGCGcgacacccacggacUGGCGAUGuGCAACCUg-- -3'
miRNA:   3'- gUACC-CGC--------------AUCGCUAC-CGUUGGGaag -5'
31744 3' -54.8 NC_006938.1 + 3774 0.67 0.686322
Target:  5'- --cGGGCGcggUGGCaagGGUGGCAucGCCCggCa -3'
miRNA:   3'- guaCCCGC---AUCG---CUACCGU--UGGGaaG- -5'
31744 3' -54.8 NC_006938.1 + 41574 0.67 0.686322
Target:  5'- aGUGGuuguCGUucAGCGAUGGCAGCgCCg-- -3'
miRNA:   3'- gUACCc---GCA--UCGCUACCGUUG-GGaag -5'
31744 3' -54.8 NC_006938.1 + 61155 0.67 0.67536
Target:  5'- -cUGGGCGUAcauCGAcGGCAGCaCCgUCa -3'
miRNA:   3'- guACCCGCAUc--GCUaCCGUUG-GGaAG- -5'
31744 3' -54.8 NC_006938.1 + 13637 0.67 0.67536
Target:  5'- --aGGGCGgccuuucgAGCGAUcucgGGUccguucaccucGACCCUUCg -3'
miRNA:   3'- guaCCCGCa-------UCGCUA----CCG-----------UUGGGAAG- -5'
31744 3' -54.8 NC_006938.1 + 22443 0.68 0.609095
Target:  5'- gAUGGuCGUuGCGAUGGCAgagGCCCc-- -3'
miRNA:   3'- gUACCcGCAuCGCUACCGU---UGGGaag -5'
31744 3' -54.8 NC_006938.1 + 25976 0.68 0.607991
Target:  5'- --gGGGCcgucuggGUGGCGAUGGU-GCCCUg- -3'
miRNA:   3'- guaCCCG-------CAUCGCUACCGuUGGGAag -5'
31744 3' -54.8 NC_006938.1 + 52412 0.69 0.564093
Target:  5'- --gGGGCcagGGCGGUGGCAacaaccgGCCCg-- -3'
miRNA:   3'- guaCCCGca-UCGCUACCGU-------UGGGaag -5'
31744 3' -54.8 NC_006938.1 + 18127 0.69 0.554319
Target:  5'- gCGUGaccGGUGUGGCGGUGG-GACCCg-- -3'
miRNA:   3'- -GUAC---CCGCAUCGCUACCgUUGGGaag -5'
31744 3' -54.8 NC_006938.1 + 23234 0.69 0.554319
Target:  5'- uCAUGGGCGgacccuucgAGUGGUcGGCGACCg--- -3'
miRNA:   3'- -GUACCCGCa--------UCGCUA-CCGUUGGgaag -5'
31744 3' -54.8 NC_006938.1 + 12379 0.69 0.543519
Target:  5'- --aGGGUugGcGGCGAUGGCAGCCg-UCa -3'
miRNA:   3'- guaCCCG--CaUCGCUACCGUUGGgaAG- -5'
31744 3' -54.8 NC_006938.1 + 37249 1.1 0.000902
Target:  5'- aCAUGGGCGUAGCGAUGGCAACCCUUCg -3'
miRNA:   3'- -GUACCCGCAUCGCUACCGUUGGGAAG- -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.