Origin IGS: attatataaaaaagacaagaatttgatattatctagttgacaaaaatacgagctctcatctattataataatatagatgtaaaccaatagtagtacaaggggttgttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaacaaccccttgtactactattggtttacatctatattattataatagatgagagctcgtatttttgtcaactagataatatcaaattcttgtcttttttatataat Mask Tandem Repeat Region ================================================ attatataaaaaagacaagaatttgatattatctagttgacaaaaatacgagctctcatctattataataatatagatgtaaaccaatagtagtacaaggggttgttt Find is-nt database================================================ Query_seq: TDE2070:TDE2071|TDE2070:TDE2071:hypothetical protein:hypothetical protein:->->:2098273..2098380 108 attatataaaaaagacaagaatttgatattatctagttgacaaaaatacgagctctcatctattataataatatagatgtaaaccaatagtagtacaaggggttgttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE2070:TDE2071|TDE2070:TDE2071:hypothetical protein:hypothetical protein:->->:2098273..2098380 108 attatataaaaaagacaagaatttgatattatctagttgacaaaaatacgagctctcatctattataataatatagatgtaaaccaatagtagtacaaggggttgttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE2070:TDE2071|TDE2070:TDE2071:hypothetical protein:hypothetical protein:->->:2098273..2098380 108 attatataaaaaagacaagaatttgatattatctagttgacaaaaatacgagctctcatctattataataatatagatgtaaaccaatagtagtacaaggggttgttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attatataaaaaagacaagaatttgatattatctagttgacaaaaatacgagctctcatctattataataatatagatgtaaaccaatagtagtacaaggggttgttt Predict ORF larger than 30AA ================================================ attatataaaaaagacaagaatttgatattatctagttgacaaaaatacgagctctcatctattataataatatagatgtaaaccaatagtagtacaaggggttgttt Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ attatataaaaaagacaagaatttgatattatctagttgacaaaaatacgagctctcatctattataataatatagatgtaaaccaatagtagtacaaggggttgttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE2070:TDE2071|TDE2070:TDE2071:hypothetical protein:hypothetical protein:->->:2098273..2098380 108 attatataaaaaagacaagaatttgatattatctagttgacaaaaatacgagctctcatctattataataatatagatgtaaaccaatagtagtacaaggggttgttt Intra-Species Hit: Count: 1 Min: 1 Max: 108 Len: 108 Subject: NC_002967_TDE2070_TDE2071|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2098273,2098380]|108 HSP 1 e-value: 4.0E-55 bit: 214.0 Len: 108 Query Start:1 Query End:108 Subject Strand: POSITIVE Subject Start: 1 Subject End: 108 attatataaaaaagacaagaatttgatattatctagttgacaaaaatacgagctctcatctattataataatatagatgtaaaccaatagtagtacaaggggttgttt attatataaaaaagacaagaatttgatattatctagttgacaaaaatacgagctctcatctattataataatatagatgtaaaccaatagtagtacaaggggttgttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUAUAUAAAAAAGACAAGAAUUUGAUAUUAUCUAGUUGACAAAAAUACGAGCUCUCAUCUAUUAUAAUAAUAUAGAUGUAAACCAAUAGUAGUACAAGGGGUUGUUU ............((((((...((((.(((((.(((.(((..........(....).(((((((.........))))))).....)))))))))))))))...)))))) (-13.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAACAACCCCUUGUACUACUAUUGGUUUACAUCUAUAUUAUUAUAAUAGAUGAGAGCUCGUAUUUUUGUCAACUAGAUAAUAUCAAAUUCUUGUCUUUUUUAUAUAAU ..((((.............(((.(((((.(((((((.........))))))).))))).)))...(((((.....)))))..........)))).............. (-13.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 214 98 52 116 69 NC_002967:TDE2314|5end_hypothetical_protein_2352054..2352284_POSITIVE 189 72 31 225 187 NC_002967:TDE0272|5end_hypothetical_protein_302870..303100_NEGATIVE 179 56 13 174 133 NC_002967:TDE0714|5end_capsular_polysaccharide_biosynthesis_protein_747633..747863_POSITIVE 176 98 52 74 33 NC_002967:TDE1911|5end_hypothetical_protein_1929098..1929328_NEGATIVE 176 94 51 144 92 NC_002967:TDE1389|5end_hypothetical_protein_1428238..1428468_POSITIVE 176 57 13 159 116 NC_002967:TDE0778|5end_ribosomal_protein_L24_811487..811717_POSITIVE 170 56 22 107 64 NC_002967:TDE2323|5end_mechanosensitive_ion_channel_family_protein_2359084..2359314_NEGATIVE 169 67 32 35 2 NC_002967:TDE0399|5end_zinc_carboxypeptidase_family_protein_449428..449658_POSITIVE 168 86 54 126 100 NC_002967:TDE0817|5end_histidine_kinase-related_ATPase,_putative_838800..839030_POSITIVE 164 27 11 206 190 NC_002967:TDE0243|5end_ABC_transporter,_ATP-binding_protein_277501..277731_NEGATIVE 163 93 54 144 97 NC_002967:TDE1036|5end_hypothetical_protein_1063805..1064035_POSITIVE 163 89 42 55 12 NC_002967:TDE0716|5end_CAAX_amino_terminal_protease_family_protein_750828..751058_POSITIVE 163 99 56 85 46 NC_002967:TDE0278|5end_hypothetical_protein_308782..309012_NEGATIVE 160 100 53 102 52 NC_002967:TDE2780|5end_hypothetical_protein_2830621..2830851_NEGATIVE 160 59 13 199 145 NC_002967:TDE0053|5end_flagellar_biosynthetic_protein_FliR_61593..61823_POSITIVE 158 60 12 106 62 NC_002967:TDE1519|5end_hypothetical_protein_1565601..1565831_POSITIVE 157 100 59 97 47 NC_002967:TDE2127|5end_vapC_protein,_putative_2159763..2159993_POSITIVE 157 61 32 104 80 NC_002967:TDE1823|5end_hypothetical_protein_1856990..1857220_NEGATIVE 156 59 17 91 56 NC_002967:TDE1899|5end_hypothetical_protein_1921088..1921318_NEGATIVE 155 82 49 93 66 NC_002967:TDE2466|5end_hypothetical_protein_2489860..2490090_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 176 94 51 138 86 NC_002967:TDE1388|3end_hypothetical_protein_1428312..1428462_POSITIVE 176 57 13 149 106 NC_002967:TDE0777|3end_50S_ribosomal_protein_L14_811557..811707_POSITIVE 172 60 14 123 78 NC_002967:TDE2494|3end_hypothetical_protein_2518714..2518864_POSITIVE 169 34 5 99 69 NC_002967:TDE1358|3end_hypothetical_protein_1397910..1398060_POSITIVE 163 93 54 119 72 NC_002967:TDE1035|3end_transcriptional_regulator,_PadR_family_1063860..1064010_POSITIVE 163 99 56 59 20 NC_002967:TDE0279|3end_hypothetical_protein_308808..308958_NEGATIVE 161 61 37 150 125 NC_002967:TDE0103|3end_aminotransferase,_class-V_122544..122694_NEGATIVE 160 100 53 84 34 NC_002967:TDE2781|3end_ABC_transporter,_ATP-binding/permease_protein_2830639..2830789_NEGATIVE 159 59 12 116 72 NC_002967:TDE1614|3end_hypothetical_protein_1662295..1662445_NEGATIVE 157 100 59 97 47 NC_002967:TDE2126|3end_hypothetical_protein_2159843..2159993_POSITIVE 157 61 35 80 56 NC_002967:TDE0887|3end_PIN_domain_protein_904333..904483_NEGATIVE 156 47 14 62 33 NC_002967:TDE2783|3end_methyl-accepting_chemotaxis_protein_2836607..2836757_POSITIVE 155 82 49 72 45 NC_002967:TDE2467|3end_hypothetical_protein_2489881..2490031_NEGATIVE 153 100 68 122 98 NC_002967:TDE1751|3end_ribosomal_protein_L21_1803831..1803981_NEGATIVE 152 63 26 130 93 NC_002967:TDE1400|3end_NAD(+)_synthetase_1442434..1442584_POSITIVE 151 35 12 122 98 NC_002967:TDE1257|3end_hypothetical_protein_1291770..1291920_POSITIVE 150 95 69 64 37 NC_002967:TDE1325|3end_hypothetical_protein_1361620..1361770_NEGATIVE 150 56 14 65 25 NC_002967:TDE0427|3end_hypothetical_protein_484479..484629_POSITIVE 149 77 35 75 34 NC_002967:TDE1134|3end_hypothetical_protein_1165062..1165212_NEGATIVE 149 60 46 24 9 NC_002967:TDE0482|3end_hypothetical_protein_538548..538698_NEGATIVE