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
19155 5' -55.3 NC_004684.1 + 959 0.67 0.689536
Target:  5'- gGGCcugcggGUCAUUGGCGAc-UCCGGGGCGu -3'
miRNA:   3'- gCUG------UAGUGGCCGUUcaAGGUCCCGU- -5'
19155 5' -55.3 NC_004684.1 + 1061 0.68 0.635315
Target:  5'- cCGGCGUCACCGGgAcGUUCgAGcGCu -3'
miRNA:   3'- -GCUGUAGUGGCCgUuCAAGgUCcCGu -5'
19155 5' -55.3 NC_004684.1 + 4511 0.82 0.100826
Target:  5'- aCGGCAUgGCCGGgAuccuGUUCCGGGGCGa -3'
miRNA:   3'- -GCUGUAgUGGCCgUu---CAAGGUCCCGU- -5'
19155 5' -55.3 NC_004684.1 + 4777 0.66 0.772893
Target:  5'- -cGCGUCGCCaGCAAGcgCCucGGCGc -3'
miRNA:   3'- gcUGUAGUGGcCGUUCaaGGucCCGU- -5'
19155 5' -55.3 NC_004684.1 + 6604 0.66 0.762855
Target:  5'- uCGACAcuucgcUCACCGGaaccGGccuggCCAGGGCc -3'
miRNA:   3'- -GCUGU------AGUGGCCgu--UCaa---GGUCCCGu -5'
19155 5' -55.3 NC_004684.1 + 6825 0.72 0.408947
Target:  5'- aGACAUaccaGCUGGuCGAGUUCgAGGGUg -3'
miRNA:   3'- gCUGUAg---UGGCC-GUUCAAGgUCCCGu -5'
19155 5' -55.3 NC_004684.1 + 6951 0.73 0.381929
Target:  5'- cCGAgGUCGaacCCGGCGAGUcguUCCAGGuGUAc -3'
miRNA:   3'- -GCUgUAGU---GGCCGUUCA---AGGUCC-CGU- -5'
19155 5' -55.3 NC_004684.1 + 8949 0.66 0.772893
Target:  5'- gGGCAgUCGgguCCGGCAcGGggCCGGaGGCAa -3'
miRNA:   3'- gCUGU-AGU---GGCCGU-UCaaGGUC-CCGU- -5'
19155 5' -55.3 NC_004684.1 + 9046 0.66 0.752687
Target:  5'- gCGGCAaCGCCaGCAGGgccaCCGGGcGCGc -3'
miRNA:   3'- -GCUGUaGUGGcCGUUCaa--GGUCC-CGU- -5'
19155 5' -55.3 NC_004684.1 + 9083 0.67 0.689536
Target:  5'- cCGGCGUCGCCGGUGAGcugucaucaCCAGGu-- -3'
miRNA:   3'- -GCUGUAGUGGCCGUUCaa-------GGUCCcgu -5'
19155 5' -55.3 NC_004684.1 + 10079 0.68 0.657082
Target:  5'- aCGGCcaGUCgACCgGGCAGGgcuggCCGGGGUg -3'
miRNA:   3'- -GCUG--UAG-UGG-CCGUUCaa---GGUCCCGu -5'
19155 5' -55.3 NC_004684.1 + 11091 0.67 0.710919
Target:  5'- -cACGUC-CCGGCGcg--CCAGGGCc -3'
miRNA:   3'- gcUGUAGuGGCCGUucaaGGUCCCGu -5'
19155 5' -55.3 NC_004684.1 + 14484 0.66 0.781805
Target:  5'- gGugGUUGCCGGUAccacgccGGUcgCCGGuGGCAc -3'
miRNA:   3'- gCugUAGUGGCCGU-------UCAa-GGUC-CCGU- -5'
19155 5' -55.3 NC_004684.1 + 14553 0.67 0.710919
Target:  5'- aCGGCGUacCGCUGGaCAccuGGUgcgCCGGGGCc -3'
miRNA:   3'- -GCUGUA--GUGGCC-GU---UCAa--GGUCCCGu -5'
19155 5' -55.3 NC_004684.1 + 15980 0.66 0.766887
Target:  5'- cCGugA-CACCGGCAgaggccgaaacguccGGcUCCGGGGaCGg -3'
miRNA:   3'- -GCugUaGUGGCCGU---------------UCaAGGUCCC-GU- -5'
19155 5' -55.3 NC_004684.1 + 18017 0.68 0.633137
Target:  5'- gCGGCAaCAUCGGCAAGgccauggacagCCuGGGCc -3'
miRNA:   3'- -GCUGUaGUGGCCGUUCaa---------GGuCCCGu -5'
19155 5' -55.3 NC_004684.1 + 18375 1.08 0.001408
Target:  5'- uCGACAUCACCGGCAAGUUCCAGGGCAc -3'
miRNA:   3'- -GCUGUAGUGGCCGUUCAAGGUCCCGU- -5'
19155 5' -55.3 NC_004684.1 + 18654 0.69 0.574543
Target:  5'- gGACAUggccugccacaucgcCACCGGCAAGcgCuggCAGGGCc -3'
miRNA:   3'- gCUGUA---------------GUGGCCGUUCaaG---GUCCCGu -5'
19155 5' -55.3 NC_004684.1 + 20608 0.66 0.782788
Target:  5'- cCGAgCGUCuaccugggcACCGGCGAGcgCCAGcGCGu -3'
miRNA:   3'- -GCU-GUAG---------UGGCCGUUCaaGGUCcCGU- -5'
19155 5' -55.3 NC_004684.1 + 22157 0.66 0.782788
Target:  5'- uGGCAUCACCGaggaGCAccgcAGggCCAcGGCGg -3'
miRNA:   3'- gCUGUAGUGGC----CGU----UCaaGGUcCCGU- -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.