miRNA display CGI


Results 1 - 20 of 24 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
21892 5' -54.4 NC_004902.1 + 24781 0.66 0.644205
Target:  5'- aGGCACU-CCGCCccacuGAACAGCAgcuucuaggAGaGCAc -3'
miRNA:   3'- aCUGUGAcGGCGG-----UUUGUCGU---------UC-CGU- -5'
21892 5' -54.4 NC_004902.1 + 33789 0.66 0.621277
Target:  5'- cGcCACUGCCaaugaGCCAGcGCGGCugguuGGCAu -3'
miRNA:   3'- aCuGUGACGG-----CGGUU-UGUCGuu---CCGU- -5'
21892 5' -54.4 NC_004902.1 + 23826 0.66 0.621277
Target:  5'- gGAUucCUGCCGCCGAcauCGG-AAGGCc -3'
miRNA:   3'- aCUGu-GACGGCGGUUu--GUCgUUCCGu -5'
21892 5' -54.4 NC_004902.1 + 18684 0.67 0.574494
Target:  5'- aGACACUGUaucaacuCGCCGuGCcaguGCAAGGUc -3'
miRNA:   3'- aCUGUGACG-------GCGGUuUGu---CGUUCCGu -5'
21892 5' -54.4 NC_004902.1 + 2415 0.67 0.564317
Target:  5'- aGGCAUgGCUugaAGACGGCAGGGCAa -3'
miRNA:   3'- aCUGUGaCGGcggUUUGUCGUUCCGU- -5'
21892 5' -54.4 NC_004902.1 + 40498 0.67 0.564317
Target:  5'- cGACACUuuugaggaaGCCaucgcagcgcGCgAAGCAGCAAGgGCAg -3'
miRNA:   3'- aCUGUGA---------CGG----------CGgUUUGUCGUUC-CGU- -5'
21892 5' -54.4 NC_004902.1 + 24456 0.68 0.553066
Target:  5'- cGAUACcgGCUauGCCGAGCGGCAAGa-- -3'
miRNA:   3'- aCUGUGa-CGG--CGGUUUGUCGUUCcgu -5'
21892 5' -54.4 NC_004902.1 + 28939 0.68 0.553066
Target:  5'- gGGCACUGCCacaucugccuccGUCAAcACcuuGGCAAGGCc -3'
miRNA:   3'- aCUGUGACGG------------CGGUU-UG---UCGUUCCGu -5'
21892 5' -54.4 NC_004902.1 + 19358 0.68 0.509911
Target:  5'- uUGACagACUGCCGCgGAuccuugGCAGCuuuguugcugccucuGGGCAg -3'
miRNA:   3'- -ACUG--UGACGGCGgUU------UGUCGu--------------UCCGU- -5'
21892 5' -54.4 NC_004902.1 + 10728 0.69 0.487259
Target:  5'- gGugGCUGCUGCCAcguuuACGG--AGGCGg -3'
miRNA:   3'- aCugUGACGGCGGUu----UGUCguUCCGU- -5'
21892 5' -54.4 NC_004902.1 + 35705 0.69 0.487259
Target:  5'- cGGCAgaGCUGCCAGAguGCAccaGCAc -3'
miRNA:   3'- aCUGUgaCGGCGGUUUguCGUuc-CGU- -5'
21892 5' -54.4 NC_004902.1 + 7731 0.69 0.445501
Target:  5'- gGACAUUGCCa--AAGCGGCGGGcGCAa -3'
miRNA:   3'- aCUGUGACGGcggUUUGUCGUUC-CGU- -5'
21892 5' -54.4 NC_004902.1 + 25340 0.7 0.435375
Target:  5'- gGuACACUGCUGCCAcGCgaccacacuGGCAAGGg- -3'
miRNA:   3'- aC-UGUGACGGCGGUuUG---------UCGUUCCgu -5'
21892 5' -54.4 NC_004902.1 + 12350 0.7 0.43437
Target:  5'- aGGCAgacGCCGCCGAgaagcguGCAGCuGGGCu -3'
miRNA:   3'- aCUGUga-CGGCGGUU-------UGUCGuUCCGu -5'
21892 5' -54.4 NC_004902.1 + 9706 0.7 0.415531
Target:  5'- gUGGCACUaGCCGaCAuGAUGGUggGGCAg -3'
miRNA:   3'- -ACUGUGA-CGGCgGU-UUGUCGuuCCGU- -5'
21892 5' -54.4 NC_004902.1 + 37258 0.71 0.377557
Target:  5'- cGAaauccCUGCCGCCAccAACGGCGuGGUAu -3'
miRNA:   3'- aCUgu---GACGGCGGU--UUGUCGUuCCGU- -5'
21892 5' -54.4 NC_004902.1 + 214 0.71 0.359465
Target:  5'- gGGCGCUG-CGUCAGGggccuUAGCAGGGCGc -3'
miRNA:   3'- aCUGUGACgGCGGUUU-----GUCGUUCCGU- -5'
21892 5' -54.4 NC_004902.1 + 36551 0.71 0.350649
Target:  5'- gGGCAgUGCCGCC-AGCAGCc-GGUu -3'
miRNA:   3'- aCUGUgACGGCGGuUUGUCGuuCCGu -5'
21892 5' -54.4 NC_004902.1 + 36103 0.72 0.325133
Target:  5'- cGACACUGaCCGCCuguacacacGGGCAGUcacuGGCAu -3'
miRNA:   3'- aCUGUGAC-GGCGG---------UUUGUCGuu--CCGU- -5'
21892 5' -54.4 NC_004902.1 + 24336 0.72 0.31694
Target:  5'- aGGCGCagcgUGCCGCCAAGgccgacagcgcuCAGCGcGGCGg -3'
miRNA:   3'- aCUGUG----ACGGCGGUUU------------GUCGUuCCGU- -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.