miRNA display CGI


Results 1 - 20 of 88 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
15970 3' -55.7 NC_004065.1 + 122531 0.66 0.968874
Target:  5'- --gCGAGCGGUCG-AGCg--ACAGCAg -3'
miRNA:   3'- ccgGCUCGCUAGCaUCGgcaUGUCGU- -5'
15970 3' -55.7 NC_004065.1 + 210498 0.66 0.968874
Target:  5'- uGCCGuuCGGaaUCGUAucGCCGUucgGCAGCGg -3'
miRNA:   3'- cCGGCucGCU--AGCAU--CGGCA---UGUCGU- -5'
15970 3' -55.7 NC_004065.1 + 164014 0.66 0.968874
Target:  5'- cGCCGAGgugcaggaccaCGuugCGgaucacGCCGUACAGCAc -3'
miRNA:   3'- cCGGCUC-----------GCua-GCau----CGGCAUGUCGU- -5'
15970 3' -55.7 NC_004065.1 + 97046 0.66 0.965854
Target:  5'- cGGCaCGGGCcuGAUCGUGuGCCuGUACGcCAu -3'
miRNA:   3'- -CCG-GCUCG--CUAGCAU-CGG-CAUGUcGU- -5'
15970 3' -55.7 NC_004065.1 + 194439 0.66 0.965854
Target:  5'- -cCCGGGCGccucgGUCGaAGCgGUugGGCAc -3'
miRNA:   3'- ccGGCUCGC-----UAGCaUCGgCAugUCGU- -5'
15970 3' -55.7 NC_004065.1 + 35384 0.66 0.962633
Target:  5'- uGGCCGAGg---CGUGGaCCGUcauCGGCGc -3'
miRNA:   3'- -CCGGCUCgcuaGCAUC-GGCAu--GUCGU- -5'
15970 3' -55.7 NC_004065.1 + 227486 0.66 0.962633
Target:  5'- cGGCCGucgacCGAUCGgaccAGCCG-ACGGUu -3'
miRNA:   3'- -CCGGCuc---GCUAGCa---UCGGCaUGUCGu -5'
15970 3' -55.7 NC_004065.1 + 153983 0.66 0.9623
Target:  5'- cGGUCGucGUGAUCGUuGUCGUcucugucguguucGCGGCGg -3'
miRNA:   3'- -CCGGCu-CGCUAGCAuCGGCA-------------UGUCGU- -5'
15970 3' -55.7 NC_004065.1 + 118461 0.66 0.961288
Target:  5'- cGGCCGGGCGGUUggcucucggugauaGUuGCCGcuguugcUGCGGUg -3'
miRNA:   3'- -CCGGCUCGCUAG--------------CAuCGGC-------AUGUCGu -5'
15970 3' -55.7 NC_004065.1 + 191163 0.66 0.959208
Target:  5'- --aCGGGuCGAUCuUGGCCGU-CAGCGc -3'
miRNA:   3'- ccgGCUC-GCUAGcAUCGGCAuGUCGU- -5'
15970 3' -55.7 NC_004065.1 + 68655 0.66 0.955572
Target:  5'- cGGCCGAgGCGuacgcgcaGUCGgcguacgAGUCGUGCcaGGCGa -3'
miRNA:   3'- -CCGGCU-CGC--------UAGCa------UCGGCAUG--UCGU- -5'
15970 3' -55.7 NC_004065.1 + 59969 0.66 0.955572
Target:  5'- aGGuuG-GCGGcuUCGUcGGCCGaGCAGCc -3'
miRNA:   3'- -CCggCuCGCU--AGCA-UCGGCaUGUCGu -5'
15970 3' -55.7 NC_004065.1 + 56714 0.66 0.955572
Target:  5'- cGCCGcAGCGG-CGgcGgCGgcgGCAGCAg -3'
miRNA:   3'- cCGGC-UCGCUaGCauCgGCa--UGUCGU- -5'
15970 3' -55.7 NC_004065.1 + 85576 0.66 0.951722
Target:  5'- uGGUCGccuucGCGAUCGUGG-CGUGCGuGUAc -3'
miRNA:   3'- -CCGGCu----CGCUAGCAUCgGCAUGU-CGU- -5'
15970 3' -55.7 NC_004065.1 + 94718 0.67 0.947655
Target:  5'- cGGCuCGAGCGGgcCGaAGUCG-GCGGCGg -3'
miRNA:   3'- -CCG-GCUCGCUa-GCaUCGGCaUGUCGU- -5'
15970 3' -55.7 NC_004065.1 + 136334 0.67 0.947655
Target:  5'- aGCCGAG-GAggGUAGCCGggaAGCu -3'
miRNA:   3'- cCGGCUCgCUagCAUCGGCaugUCGu -5'
15970 3' -55.7 NC_004065.1 + 91126 0.67 0.947655
Target:  5'- aGGCCGAGUagucggugauggGGUCGUAGaagaCGgGgGGCAg -3'
miRNA:   3'- -CCGGCUCG------------CUAGCAUCg---GCaUgUCGU- -5'
15970 3' -55.7 NC_004065.1 + 122871 0.67 0.947655
Target:  5'- cGGCaGAGCGAgUUGgAGCUGUuCGGCGa -3'
miRNA:   3'- -CCGgCUCGCU-AGCaUCGGCAuGUCGU- -5'
15970 3' -55.7 NC_004065.1 + 218730 0.67 0.947655
Target:  5'- uGCCGA-C-AUCGUAGCCGUACGu-- -3'
miRNA:   3'- cCGGCUcGcUAGCAUCGGCAUGUcgu -5'
15970 3' -55.7 NC_004065.1 + 118922 0.67 0.947655
Target:  5'- uGCCG-GUGAUCGUGaacgacagguuGCUGUuCGGCAu -3'
miRNA:   3'- cCGGCuCGCUAGCAU-----------CGGCAuGUCGU- -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.