miRNA display CGI


Results 1 - 20 of 54 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
23356 5' -57.1 NC_005259.1 + 4683 0.68 0.624248
Target:  5'- uGGCUCGGGC-CGacagCUCG-GCcCCGugGu -3'
miRNA:   3'- -CCGAGCUUGuGCa---GAGCgCG-GGCugC- -5'
23356 5' -57.1 NC_005259.1 + 8176 0.66 0.728274
Target:  5'- aGGCUaccccCGuggccuGC-CGUUUaCGCGCCCGAUGu -3'
miRNA:   3'- -CCGA-----GCu-----UGuGCAGA-GCGCGGGCUGC- -5'
23356 5' -57.1 NC_005259.1 + 8791 0.66 0.737352
Target:  5'- aGCUCGGcccGCuugGCGaggaucuUCUCGCGCCgGGCc -3'
miRNA:   3'- cCGAGCU---UG---UGC-------AGAGCGCGGgCUGc -5'
23356 5' -57.1 NC_005259.1 + 9133 0.72 0.380464
Target:  5'- cGGUaCGGGCAgcCGUgCUCGUGCCCGuCGa -3'
miRNA:   3'- -CCGaGCUUGU--GCA-GAGCGCGGGCuGC- -5'
23356 5' -57.1 NC_005259.1 + 9865 0.66 0.742362
Target:  5'- cGCggGAACGCGacgauguugucgcuuUcCUCGCGCgCGACGa -3'
miRNA:   3'- cCGagCUUGUGC---------------A-GAGCGCGgGCUGC- -5'
23356 5' -57.1 NC_005259.1 + 11240 0.68 0.603231
Target:  5'- gGGCUCGGGCA--UCgCGCGCaccaCGugGg -3'
miRNA:   3'- -CCGAGCUUGUgcAGaGCGCGg---GCugC- -5'
23356 5' -57.1 NC_005259.1 + 11923 0.74 0.299951
Target:  5'- aGCUCGAACAccgccgccuuuuccCGUUcgCGCaGCCCGGCGa -3'
miRNA:   3'- cCGAGCUUGU--------------GCAGa-GCG-CGGGCUGC- -5'
23356 5' -57.1 NC_005259.1 + 13146 0.66 0.728274
Target:  5'- cGGCUCGAuCAUGgccaccaUCcCGCCCGAg- -3'
miRNA:   3'- -CCGAGCUuGUGCag-----AGcGCGGGCUgc -5'
23356 5' -57.1 NC_005259.1 + 13459 0.66 0.728274
Target:  5'- cGGCgCGGcGCugGUgCUcaccgCGCuGCCCGACGa -3'
miRNA:   3'- -CCGaGCU-UGugCA-GA-----GCG-CGGGCUGC- -5'
23356 5' -57.1 NC_005259.1 + 16520 0.68 0.613732
Target:  5'- aGGCgcugCGAGCGuCG-CUCaaggguGCGCCCGAgCGa -3'
miRNA:   3'- -CCGa---GCUUGU-GCaGAG------CGCGGGCU-GC- -5'
23356 5' -57.1 NC_005259.1 + 16789 0.66 0.74834
Target:  5'- uGGgUCGAcgcgguCGCGUacaUCGCGCUCGGgGc -3'
miRNA:   3'- -CCgAGCUu-----GUGCAg--AGCGCGGGCUgC- -5'
23356 5' -57.1 NC_005259.1 + 16933 0.67 0.676749
Target:  5'- gGGCUCGAAaugacccgcUACG-CUCGCcauUCCGACa -3'
miRNA:   3'- -CCGAGCUU---------GUGCaGAGCGc--GGGCUGc -5'
23356 5' -57.1 NC_005259.1 + 17100 0.74 0.274426
Target:  5'- gGGCugUCGAuCAUGUUcaUCGCGCCCGAUu -3'
miRNA:   3'- -CCG--AGCUuGUGCAG--AGCGCGGGCUGc -5'
23356 5' -57.1 NC_005259.1 + 17538 0.67 0.633718
Target:  5'- aGCgacggCGGGCAUuUCUacuucacCGUGCCCGACGa -3'
miRNA:   3'- cCGa----GCUUGUGcAGA-------GCGCGGGCUGC- -5'
23356 5' -57.1 NC_005259.1 + 18267 0.66 0.697543
Target:  5'- cGCcUGAACcugagACGacCUCGaCGCCCGACGa -3'
miRNA:   3'- cCGaGCUUG-----UGCa-GAGC-GCGGGCUGC- -5'
23356 5' -57.1 NC_005259.1 + 18696 0.69 0.53077
Target:  5'- uGCUUGAGCACGgcggucugacCUCGaucaucgggcCGCCCGGCa -3'
miRNA:   3'- cCGAGCUUGUGCa---------GAGC----------GCGGGCUGc -5'
23356 5' -57.1 NC_005259.1 + 19853 0.77 0.203549
Target:  5'- cGCUCGguGugGCG-CUCGCGCCCGcCGg -3'
miRNA:   3'- cCGAGC--UugUGCaGAGCGCGGGCuGC- -5'
23356 5' -57.1 NC_005259.1 + 20465 0.68 0.624248
Target:  5'- uGGCUCGGAUGaccgcCGUCgaccUCGacacCGCCCGGCa -3'
miRNA:   3'- -CCGAGCUUGU-----GCAG----AGC----GCGGGCUGc -5'
23356 5' -57.1 NC_005259.1 + 23689 0.67 0.634771
Target:  5'- aGGCgcacgcaGAcuacCGCGUCgugaUCGCGCCgGACGg -3'
miRNA:   3'- -CCGag-----CUu---GUGCAG----AGCGCGGgCUGC- -5'
23356 5' -57.1 NC_005259.1 + 26491 0.69 0.561529
Target:  5'- cGCg-GAACGCcgcgagCUCGcCGCCCGGCGa -3'
miRNA:   3'- cCGagCUUGUGca----GAGC-GCGGGCUGC- -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.