miRNA display CGI


Results 1 - 20 of 46 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
28138 5' -55.9 NC_005887.1 + 14620 0.66 0.631409
Target:  5'- cGGCGccGUCGAgGGCGcgcucacggcAGCCgGCGCGGu- -3'
miRNA:   3'- -UCGC--UAGCU-CCGC----------UUGGaCGCGCUuc -5'
28138 5' -55.9 NC_005887.1 + 14736 0.66 0.631409
Target:  5'- aGGCGAcgaUCGAGaaaGCGAuUCUGCGCa--- -3'
miRNA:   3'- -UCGCU---AGCUC---CGCUuGGACGCGcuuc -5'
28138 5' -55.9 NC_005887.1 + 34929 0.66 0.620242
Target:  5'- aGGCGAUCGAGGCcgcGAUCaagucgguUGcCGuCGAAGg -3'
miRNA:   3'- -UCGCUAGCUCCGc--UUGG--------AC-GC-GCUUC- -5'
28138 5' -55.9 NC_005887.1 + 36113 0.66 0.620242
Target:  5'- gAGCGcGUCGAGGCcuugcGCCUcgccgGCGcCGAGGu -3'
miRNA:   3'- -UCGC-UAGCUCCGcu---UGGA-----CGC-GCUUC- -5'
28138 5' -55.9 NC_005887.1 + 28422 0.66 0.609086
Target:  5'- gAGCGcgCGcAGGCGcuCgUGCucGCGAAGc -3'
miRNA:   3'- -UCGCuaGC-UCCGCuuGgACG--CGCUUC- -5'
28138 5' -55.9 NC_005887.1 + 2501 0.66 0.609086
Target:  5'- uAGCGcgCGAGGUGucauUCgucgGCGCGGGc -3'
miRNA:   3'- -UCGCuaGCUCCGCuu--GGa---CGCGCUUc -5'
28138 5' -55.9 NC_005887.1 + 37805 0.66 0.59795
Target:  5'- gGGCGGgcUCGuGGaacuucuCCUGCGCGAAu -3'
miRNA:   3'- -UCGCU--AGCuCCgcuu---GGACGCGCUUc -5'
28138 5' -55.9 NC_005887.1 + 32450 0.66 0.59795
Target:  5'- gAGU-AUCGAGGaUGucaaccugauGACCUGCGCGGAu -3'
miRNA:   3'- -UCGcUAGCUCC-GC----------UUGGACGCGCUUc -5'
28138 5' -55.9 NC_005887.1 + 2632 0.66 0.59795
Target:  5'- cGUGGcCGAGGCGAgucaguACCUGCuggugggcgcggGCGAGc -3'
miRNA:   3'- uCGCUaGCUCCGCU------UGGACG------------CGCUUc -5'
28138 5' -55.9 NC_005887.1 + 33717 0.66 0.596839
Target:  5'- cGGCGGUCGAucugcucgaucgcGGCGAggAUCaGCGCGccGg -3'
miRNA:   3'- -UCGCUAGCU-------------CCGCU--UGGaCGCGCuuC- -5'
28138 5' -55.9 NC_005887.1 + 29772 0.66 0.586845
Target:  5'- uGCGAcgCGAcGGCGAguGgCUGCGCGu-- -3'
miRNA:   3'- uCGCUa-GCU-CCGCU--UgGACGCGCuuc -5'
28138 5' -55.9 NC_005887.1 + 18034 0.66 0.575778
Target:  5'- uGCGGcCGAugccGGCGAGCCcGCGCa--- -3'
miRNA:   3'- uCGCUaGCU----CCGCUUGGaCGCGcuuc -5'
28138 5' -55.9 NC_005887.1 + 35480 0.66 0.575778
Target:  5'- -cUGAUCGAcucgugGGCGAagGCCgUGCGCGGGc -3'
miRNA:   3'- ucGCUAGCU------CCGCU--UGG-ACGCGCUUc -5'
28138 5' -55.9 NC_005887.1 + 18447 0.67 0.56476
Target:  5'- cGCGAUCucgacgcAGGCGAagaACCUGCucGCGGGc -3'
miRNA:   3'- uCGCUAGc------UCCGCU---UGGACG--CGCUUc -5'
28138 5' -55.9 NC_005887.1 + 33840 0.67 0.56476
Target:  5'- cGGCGAUCGAacgcaugcagGGCGuacgAGCCUGCgGCa--- -3'
miRNA:   3'- -UCGCUAGCU----------CCGC----UUGGACG-CGcuuc -5'
28138 5' -55.9 NC_005887.1 + 2413 0.67 0.553797
Target:  5'- uGGCu-UCGAGGCGAaGCCcGCGcCGAc- -3'
miRNA:   3'- -UCGcuAGCUCCGCU-UGGaCGC-GCUuc -5'
28138 5' -55.9 NC_005887.1 + 8458 0.67 0.553797
Target:  5'- cGCGAUCGAgcgcccGGCGcAACCgcucgGCGaCGAc- -3'
miRNA:   3'- uCGCUAGCU------CCGC-UUGGa----CGC-GCUuc -5'
28138 5' -55.9 NC_005887.1 + 1197 0.67 0.542898
Target:  5'- uGGCGAucuaaacaaaacUCGGaucaccuuaucuGGCGGGCgCUGCGCGGc- -3'
miRNA:   3'- -UCGCU------------AGCU------------CCGCUUG-GACGCGCUuc -5'
28138 5' -55.9 NC_005887.1 + 4888 0.67 0.532071
Target:  5'- cGCGA-CGAuGGUcgccgaGGGCCgGCGCGAGGu -3'
miRNA:   3'- uCGCUaGCU-CCG------CUUGGaCGCGCUUC- -5'
28138 5' -55.9 NC_005887.1 + 41674 0.67 0.532071
Target:  5'- uGGCGAgccggaCGAagguaGCGAG-CUGCGCGAGGg -3'
miRNA:   3'- -UCGCUa-----GCUc----CGCUUgGACGCGCUUC- -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.