miRNA display CGI


Results 1 - 20 of 31 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
23215 3' -50.8 NC_005259.1 + 44868 0.66 0.942762
Target:  5'- --aGACCGGCGGCGAGAuccgacGCGccccacGAGUAu -3'
miRNA:   3'- gugCUGGUCGUUGUUCU------UGCa-----CUCGU- -5'
23215 3' -50.8 NC_005259.1 + 62741 0.66 0.947632
Target:  5'- --gGACCGGCGGCAguacgcgguGGuacuCGUGGGCc -3'
miRNA:   3'- gugCUGGUCGUUGU---------UCuu--GCACUCGu -5'
23215 3' -50.8 NC_005259.1 + 5631 0.66 0.932163
Target:  5'- -cCGACCGGaucgugccCGGCGAGGACGgcGGGCGc -3'
miRNA:   3'- guGCUGGUC--------GUUGUUCUUGCa-CUCGU- -5'
23215 3' -50.8 NC_005259.1 + 17505 0.66 0.937607
Target:  5'- gGCGACCuuGCcgaucCGAGcuCGUGGGCAc -3'
miRNA:   3'- gUGCUGGu-CGuu---GUUCuuGCACUCGU- -5'
23215 3' -50.8 NC_005259.1 + 3307 0.66 0.932163
Target:  5'- -uCGGCgAGCGcuGCGucGACGUGAGCGc -3'
miRNA:   3'- guGCUGgUCGU--UGUucUUGCACUCGU- -5'
23215 3' -50.8 NC_005259.1 + 50140 0.66 0.926431
Target:  5'- aCGCGAUUgguuGGCGAUccGGcGCGUGAGCGa -3'
miRNA:   3'- -GUGCUGG----UCGUUGuuCU-UGCACUCGU- -5'
23215 3' -50.8 NC_005259.1 + 36392 0.66 0.926431
Target:  5'- -uUGGCCAGC-GCGAGcGACuUGAGCGc -3'
miRNA:   3'- guGCUGGUCGuUGUUC-UUGcACUCGU- -5'
23215 3' -50.8 NC_005259.1 + 51573 0.67 0.901317
Target:  5'- aACGAuCCGGCAGCcGGugccgacacagccgcACGUGAGCc -3'
miRNA:   3'- gUGCU-GGUCGUUGuUCu--------------UGCACUCGu -5'
23215 3' -50.8 NC_005259.1 + 64810 0.67 0.914097
Target:  5'- -uCGGCCucGGCGGCAAuGAGCGUGuGGUg -3'
miRNA:   3'- guGCUGG--UCGUUGUU-CUUGCAC-UCGu -5'
23215 3' -50.8 NC_005259.1 + 42563 0.67 0.893451
Target:  5'- -uCGGCgAGCAGCcGGucgucaucgauaGGCGUGAGCGa -3'
miRNA:   3'- guGCUGgUCGUUGuUC------------UUGCACUCGU- -5'
23215 3' -50.8 NC_005259.1 + 44051 0.67 0.89272
Target:  5'- gACGACCGGCu-CGAGuGCGcugucguUGAGCu -3'
miRNA:   3'- gUGCUGGUCGuuGUUCuUGC-------ACUCGu -5'
23215 3' -50.8 NC_005259.1 + 67834 0.67 0.914097
Target:  5'- -uCGACCGGCAGCccg---GUGAGCGg -3'
miRNA:   3'- guGCUGGUCGUUGuucuugCACUCGU- -5'
23215 3' -50.8 NC_005259.1 + 29041 0.67 0.914097
Target:  5'- -cUGACCAaCGACGAGAGcCGcGAGCGc -3'
miRNA:   3'- guGCUGGUcGUUGUUCUU-GCaCUCGU- -5'
23215 3' -50.8 NC_005259.1 + 63852 0.67 0.920408
Target:  5'- gCGCGuACCGGCGAgGuGGccggcuggccuuGCGUGGGCGu -3'
miRNA:   3'- -GUGC-UGGUCGUUgUuCU------------UGCACUCGU- -5'
23215 3' -50.8 NC_005259.1 + 57468 0.67 0.920408
Target:  5'- gGCaGGCCGGUGGCAccGGAcACGUcGAGCGu -3'
miRNA:   3'- gUG-CUGGUCGUUGU--UCU-UGCA-CUCGU- -5'
23215 3' -50.8 NC_005259.1 + 30901 0.68 0.878296
Target:  5'- aCGCGagguguGCCGGUu----GAGCGUGAGCAg -3'
miRNA:   3'- -GUGC------UGGUCGuuguuCUUGCACUCGU- -5'
23215 3' -50.8 NC_005259.1 + 60961 0.68 0.878296
Target:  5'- gCGCGuCCGGCGGCAGaucGAACcauuccucuucgGUGAGCu -3'
miRNA:   3'- -GUGCuGGUCGUUGUU---CUUG------------CACUCGu -5'
23215 3' -50.8 NC_005259.1 + 68311 0.68 0.878296
Target:  5'- gCGCGuCCGGCGACGGGAucuCGaugaugGGGCu -3'
miRNA:   3'- -GUGCuGGUCGUUGUUCUu--GCa-----CUCGu -5'
23215 3' -50.8 NC_005259.1 + 10204 0.68 0.87751
Target:  5'- gACGACCgGGCAgcucgaccaccACGAGAugGcgcucacUGAGCAc -3'
miRNA:   3'- gUGCUGG-UCGU-----------UGUUCUugC-------ACUCGU- -5'
23215 3' -50.8 NC_005259.1 + 3111 0.68 0.86208
Target:  5'- gGCGGCCAuugcGCGGCAc---CGUGGGCAg -3'
miRNA:   3'- gUGCUGGU----CGUUGUucuuGCACUCGU- -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.