miRNA display CGI


Results 1 - 20 of 57 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
23508 3' -56.3 NC_005259.1 + 17759 0.75 0.245951
Target:  5'- uGAGGCCGCCGcGCGcCGGGCcgagCGCAc -3'
miRNA:   3'- gCUCUGGUGGC-CGUuGCUCGua--GCGU- -5'
23508 3' -56.3 NC_005259.1 + 54151 0.74 0.271896
Target:  5'- uCGAGGCC--CGGCGAUGGGCAUacCGCAa -3'
miRNA:   3'- -GCUCUGGugGCCGUUGCUCGUA--GCGU- -5'
23508 3' -56.3 NC_005259.1 + 25745 0.74 0.276657
Target:  5'- aGGGACCGCCGcGCAcacuauaccgcuauGCGGGCAgcucUCGCc -3'
miRNA:   3'- gCUCUGGUGGC-CGU--------------UGCUCGU----AGCGu -5'
23508 3' -56.3 NC_005259.1 + 6117 0.73 0.330287
Target:  5'- cCGAGGCCGCC-GCuacGCGGGCAcUGCAa -3'
miRNA:   3'- -GCUCUGGUGGcCGu--UGCUCGUaGCGU- -5'
23508 3' -56.3 NC_005259.1 + 16511 0.73 0.354448
Target:  5'- cCGAGAgCGa-GGCGcuGCGAGCGUCGCu -3'
miRNA:   3'- -GCUCUgGUggCCGU--UGCUCGUAGCGu -5'
23508 3' -56.3 NC_005259.1 + 67984 0.72 0.37983
Target:  5'- gCGuGGCCACC-GCcGCGAGCGUCGa- -3'
miRNA:   3'- -GCuCUGGUGGcCGuUGCUCGUAGCgu -5'
23508 3' -56.3 NC_005259.1 + 27159 0.71 0.415512
Target:  5'- uGGGGCCAacgaugccgUCGGCGAUGAGCAggcUGCGa -3'
miRNA:   3'- gCUCUGGU---------GGCCGUUGCUCGUa--GCGU- -5'
23508 3' -56.3 NC_005259.1 + 37273 0.71 0.415512
Target:  5'- uGAGGCCGcCCGGCAggACuuGCAUgGCGg -3'
miRNA:   3'- gCUCUGGU-GGCCGU--UGcuCGUAgCGU- -5'
23508 3' -56.3 NC_005259.1 + 40042 0.71 0.434106
Target:  5'- uGAGGUCGCCGGUGAuCGGGUcgGUCGCGa -3'
miRNA:   3'- gCUCUGGUGGCCGUU-GCUCG--UAGCGU- -5'
23508 3' -56.3 NC_005259.1 + 13172 0.7 0.462878
Target:  5'- cCGAGACCGcCCGGCAGCucGCcaUGCu -3'
miRNA:   3'- -GCUCUGGU-GGCCGUUGcuCGuaGCGu -5'
23508 3' -56.3 NC_005259.1 + 16601 0.7 0.482604
Target:  5'- gCGAGGCCAUCGGacuguuCAACGGGcCGagGCAg -3'
miRNA:   3'- -GCUCUGGUGGCC------GUUGCUC-GUagCGU- -5'
23508 3' -56.3 NC_005259.1 + 63555 0.7 0.482604
Target:  5'- uCGGcGGCCACCGacGCGACGAGCGggauauaCGCc -3'
miRNA:   3'- -GCU-CUGGUGGC--CGUUGCUCGUa------GCGu -5'
23508 3' -56.3 NC_005259.1 + 36045 0.7 0.486599
Target:  5'- gCGAGGCCACCcGCG-CGAGCAccaccugcugugugcUCGUc -3'
miRNA:   3'- -GCUCUGGUGGcCGUuGCUCGU---------------AGCGu -5'
23508 3' -56.3 NC_005259.1 + 23363 0.7 0.492619
Target:  5'- gCGAGGCCGCCgaGGCAugGAuCGUCa-- -3'
miRNA:   3'- -GCUCUGGUGG--CCGUugCUcGUAGcgu -5'
23508 3' -56.3 NC_005259.1 + 32361 0.7 0.492619
Target:  5'- uGAuGACCGCCGuGUAggGCGGGCAcugcccgccgUCGCGa -3'
miRNA:   3'- gCU-CUGGUGGC-CGU--UGCUCGU----------AGCGU- -5'
23508 3' -56.3 NC_005259.1 + 46295 0.7 0.499686
Target:  5'- gCGGGGCCGCCGuggcugcguuguucGCGGCcccGAGgGUCGCGu -3'
miRNA:   3'- -GCUCUGGUGGC--------------CGUUG---CUCgUAGCGU- -5'
23508 3' -56.3 NC_005259.1 + 53667 0.7 0.502728
Target:  5'- cCGAGGCC-CCac--GCGGGCAUCGCGa -3'
miRNA:   3'- -GCUCUGGuGGccguUGCUCGUAGCGU- -5'
23508 3' -56.3 NC_005259.1 + 45740 0.69 0.512927
Target:  5'- cCGAGGCCGCgcaccgccuCGGgGAUGAGCA-CGCc -3'
miRNA:   3'- -GCUCUGGUG---------GCCgUUGCUCGUaGCGu -5'
23508 3' -56.3 NC_005259.1 + 52575 0.69 0.523209
Target:  5'- --cGACCggACCGGCc-UGAGCGUCGCc -3'
miRNA:   3'- gcuCUGG--UGGCCGuuGCUCGUAGCGu -5'
23508 3' -56.3 NC_005259.1 + 56656 0.69 0.53357
Target:  5'- uCGAGGgCACCGcGCGucACGGGCucGUUGCGc -3'
miRNA:   3'- -GCUCUgGUGGC-CGU--UGCUCG--UAGCGU- -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.