miRNA display CGI


Results 1 - 20 of 100 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
23117 3' -55.6 NC_005178.1 + 34723 0.76 0.14237
Target:  5'- aGGUCUAGGGCGUGCAGcACCcccuGGCgGg -3'
miRNA:   3'- -CCGGGUCCUGUACGUUuUGGu---CCGgC- -5'
23117 3' -55.6 NC_005178.1 + 14447 0.69 0.419249
Target:  5'- gGGCgCCGGGG--UGCcggagcuggucAGGGCCAGGCUGa -3'
miRNA:   3'- -CCG-GGUCCUguACG-----------UUUUGGUCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 26280 0.68 0.44802
Target:  5'- aGCUCGGGGCgguuggaGUGCAgguAAACCaccaggauuGGGCCGa -3'
miRNA:   3'- cCGGGUCCUG-------UACGU---UUUGG---------UCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 19679 0.66 0.600562
Target:  5'- gGGUCCAGGAgCAcGUccuGGACCucGCCGa -3'
miRNA:   3'- -CCGGGUCCU-GUaCGu--UUUGGucCGGC- -5'
23117 3' -55.6 NC_005178.1 + 16930 0.73 0.216396
Target:  5'- cGGCCCuccuGGAUA-GCGcuguuGAUCAGGCCGu -3'
miRNA:   3'- -CCGGGu---CCUGUaCGUu----UUGGUCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 6401 0.73 0.220552
Target:  5'- cGCCCAGGAgccuccagacgaucCGUGCAuuGACCacgggcGGGCCGu -3'
miRNA:   3'- cCGGGUCCU--------------GUACGUu-UUGG------UCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 17398 0.72 0.261082
Target:  5'- cGUCCGGGGCGUaGCugAAGACgGGGCUGa -3'
miRNA:   3'- cCGGGUCCUGUA-CG--UUUUGgUCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 21471 0.71 0.305128
Target:  5'- cGGCCguGGAguaGUGCuuGaacagguacgGCCAGGCCa -3'
miRNA:   3'- -CCGGguCCUg--UACGuuU----------UGGUCCGGc -5'
23117 3' -55.6 NC_005178.1 + 34543 0.7 0.329206
Target:  5'- uGGUCCAGGAa--GCGcu-CCAGGCUGc -3'
miRNA:   3'- -CCGGGUCCUguaCGUuuuGGUCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 24592 0.69 0.409591
Target:  5'- uGGCCU-GGAacUGgGucACCAGGCCGg -3'
miRNA:   3'- -CCGGGuCCUguACgUuuUGGUCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 30488 0.69 0.390696
Target:  5'- cGCCCAGGGCcgggcacucaAUGCGGcucagcgcGGCCAGGacaCGa -3'
miRNA:   3'- cCGGGUCCUG----------UACGUU--------UUGGUCCg--GC- -5'
23117 3' -55.6 NC_005178.1 + 5333 0.7 0.329206
Target:  5'- cGGCCCAGGGCG-GCGucgau-GGCCa -3'
miRNA:   3'- -CCGGGUCCUGUaCGUuuugguCCGGc -5'
23117 3' -55.6 NC_005178.1 + 26470 0.76 0.14237
Target:  5'- cGGCCgAGGugGaUGCGGGAUCAGGCa- -3'
miRNA:   3'- -CCGGgUCCugU-ACGUUUUGGUCCGgc -5'
23117 3' -55.6 NC_005178.1 + 1529 0.69 0.400072
Target:  5'- cGGCCCcGGugAaaaUGUAAGugucgcccucgGCCuGGCCGg -3'
miRNA:   3'- -CCGGGuCCugU---ACGUUU-----------UGGuCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 26401 0.75 0.164038
Target:  5'- aGCCCAGGGCG-GCG--GCCAGGgCGc -3'
miRNA:   3'- cCGGGUCCUGUaCGUuuUGGUCCgGC- -5'
23117 3' -55.6 NC_005178.1 + 4530 0.71 0.321027
Target:  5'- cGCCCAGGAUGUa-AAGAUCGGGuCCGg -3'
miRNA:   3'- cCGGGUCCUGUAcgUUUUGGUCC-GGC- -5'
23117 3' -55.6 NC_005178.1 + 16522 0.69 0.400072
Target:  5'- cGGCCCAGGu------AggUCAGGCCGg -3'
miRNA:   3'- -CCGGGUCCuguacguUuuGGUCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 17170 0.68 0.438973
Target:  5'- cGUCCAGGGCcgGCuucAGGGCggucaGGGCCGc -3'
miRNA:   3'- cCGGGUCCUGuaCG---UUUUGg----UCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 5949 0.75 0.168713
Target:  5'- uGGCCU-GGACGggGCGGAccagguCCAGGCCGg -3'
miRNA:   3'- -CCGGGuCCUGUa-CGUUUu-----GGUCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 6752 0.73 0.24107
Target:  5'- cGGCCCAGGuCGaggccGCGAccgcuGCCAGGCgGa -3'
miRNA:   3'- -CCGGGUCCuGUa----CGUUu----UGGUCCGgC- -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.