Origin IGS: tgacctattgataaattacagttactacttactacaagagatactaatccagtgaaagaaaaaagattgagcgtgtagtatggttttataatctgtcttacaacagagttactactcgcaccgatgatactactacaagaaaacaggttacgactctttttcttttcactgtgaaggagttatccatccatattcatgtagtaaggaaaatctccaaaacttagaaaaac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gtttttctaagttttggagattttccttactacatgaatatggatggataactccttcacagtgaaaagaaaaagagtcgtaacctgttttcttgtagtagtatcatcggtgcgagtagtaactctgttgtaagacagattataaaaccatactacacgctcaatcttttttctttcactggattagtatctcttgtagtaagtagtaactgtaatttatcaataggtca Mask Tandem Repeat Region ================================================ tgacctattgataaattacagttactacttactacaagagatactaatccagtgaaagaaaaaagattgagcgtgtagtatggttttataatctgtcttacaacagagttactactcgcaccgatgatactactacaagaaaacaggttacgactctttttcttttcactgtgaaggagttatccatccatattcatgtagtaaggaaaatctccaaaacttagaaaaac Find is-nt database================================================ Query_seq: TF1696:TF1697|TF1696:TF1697:conserved hypothetical protein:mobilizable transposon, excision protein:->->:1818236..1818465 230 tgacctattgataaattacagttactacttactacaagagatactaatccagtgaaagaaaaaagattgagcgtgtagtatggttttataatctgtcttacaacagagttactactcgcaccgatgatactactacaagaaaacaggttacgactctttttcttttcactgtgaaggagttatccatccatattcatgtagtaaggaaaatctccaaaacttagaaaaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1696:TF1697|TF1696:TF1697:conserved hypothetical protein:mobilizable transposon, excision protein:->->:1818236..1818465 230 tgacctattgataaattacagttactacttactacaagagatactaatccagtgaaagaaaaaagattgagcgtgtagtatggttttataatctgtcttacaacagagttactactcgcaccgatgatactactacaagaaaacaggttacgactctttttcttttcactgtgaaggagttatccatccatattcatgtagtaaggaaaatctccaaaacttagaaaaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1696:TF1697|TF1696:TF1697:conserved hypothetical protein:mobilizable transposon, excision protein:->->:1818236..1818465 230 tgacctattgataaattacagttactacttactacaagagatactaatccagtgaaagaaaaaagattgagcgtgtagtatggttttataatctgtcttacaacagagttactactcgcaccgatgatactactacaagaaaacaggttacgactctttttcttttcactgtgaaggagttatccatccatattcatgtagtaaggaaaatctccaaaacttagaaaaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgacctattgataaattacagttactacttactacaagagatactaatccagtgaaagaaaaaagattgagcgtgtagtatggttttataatctgtcttacaacagagttactactcgcaccgatgatactactacaagaaaacaggttacgactctttttcttttcactgtgaaggagttatccatccatattcatgtagtaaggaaaatctccaaaacttagaaaaac Predict ORF larger than 30AA ================================================ Protein_Len: 52 Strand: + Start: 66 End: 221 ................................................................. M E R V V W F Y N L S Y N R V T T R T D D T T T R K Q V T T L F L F T V K E L S I H I H V V R K I S K T ......... Protein_Len: 31 Strand: - Start: 101 End: 193 .................................................................................................... L L T V V R V S S V V V L F C T V V R K R K V T F S N D M W M ..................................... Protein_Len: 48 Strand: - Start: 3 End: 146 .. G I S L N C N S S V V L S V L G T F S F L N L T Y Y P K I I Q R V V S N S S A G I I S S C S F M .................................................................................... tgacctattgataaattacagttactacttactacaagagatactaatccagtgaaagaaaaaagattgagcgtgtagtatggttttataatctgtcttacaacagagttactactcgcaccgatgatactactacaagaaaacaggttacgactctttttcttttcactgtgaaggagttatccatccatattcatgtagtaaggaaaatctccaaaacttagaaaaac 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================================================ tgacctattgataaattacagttactacttactacaagagatactaatccagtgaaagaaaaaagattgagcgtgtagtatggttttataatctgtcttacaacagagttactactcgcaccgatgatactactacaagaaaacaggttacgactctttttcttttcactgtgaaggagttatccatccatattcatgtagtaaggaaaatctccaaaacttagaaaaac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1696:TF1697|TF1696:TF1697:conserved hypothetical protein:mobilizable transposon, excision protein:->->:1818236..1818465 230 tgacctattgataaattacagttactacttactacaagagatactaatccagtgaaagaaaaaagattgagcgtgtagtatggttttataatctgtcttacaacagagttactactcgcaccgatgatactactacaagaaaacaggttacgactctttttcttttcactgtgaaggagttatccatccatattcatgtagtaaggaaaatctccaaaacttagaaaaac Intra-Species Hit: Count: 1 Min: 1 Max: 230 Len: 230 Subject: tfor_TF1696_TF1697|conserved hypothetical protein:mobilizable transposon, excision protein|POSITIVE:POSITIVE|[1818236,1818465]|230 HSP 1 e-value: 1.0E-127 bit: 456.0 Len: 230 Query Start:1 Query End:230 Subject Strand: POSITIVE Subject Start: 1 Subject End: 230 tgacctattgataaattacagttactacttactacaagagatactaatccagtgaaagaaaaaagattgagcgtgtagtatggttttataatctgtcttacaacagagttactactcgcaccgatgatactactacaagaaaacaggttacgactctttttcttttcactgtgaaggagttatccatccatattcatgtagtaaggaaaatctccaaaacttagaaaaac tgacctattgataaattacagttactacttactacaagagatactaatccagtgaaagaaaaaagattgagcgtgtagtatggttttataatctgtcttacaacagagttactactcgcaccgatgatactactacaagaaaacaggttacgactctttttcttttcactgtgaaggagttatccatccatattcatgtagtaaggaaaatctccaaaacttagaaaaac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACCUAUUGAUAAAUUACAGUUACUACUUACUACAAGAGAUACUAAUCCAGUGAAAGAAAAAAGAUUGAGCGUGUAGUAUGGUUUUAUAAUCUGUCUUACAACAGAGUUACUACUCGCACCGAUGAUACUACUACAAGAAAACAGGUUACGACUCUUUUUCUUUUCACUGUGAAGGAGUUAUCCAUCCAUAUUCAUGUAGUAAGGAAAAUCUCCAAAACUUAGAAAAAC ...........................(((((((((.(((.......((((((((((..((((((((((.(((.((((((...........(((((......)))))..)))))).))).((.......((......))......))...))).)))))))..)))))))).)).(((....))).......))).)))))))))......................... (-50.24) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUUUUCUAAGUUUUGGAGAUUUUCCUUACUACAUGAAUAUGGAUGGAUAACUCCUUCACAGUGAAAAGAAAAAGAGUCGUAACCUGUUUUCUUGUAGUAGUAUCAUCGGUGCGAGUAGUAACUCUGUUGUAAGACAGAUUAUAAAACCAUACUACACGCUCAAUCUUUUUUCUUUCACUGGAUUAGUAUCUCUUGUAGUAAGUAGUAACUGUAAUUUAUCAAUAGGUCA ...((((((.....)))))).....(((((((((.((((((.((.(((....))).)).((((((((..(((((((......(((.((...((......))....)).)))(((.((((((..((((((....))))))...........)))))).)))....)))))))..)))))))).....)))).)).)))))))))......((((.........)))).... (-51.92) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 298 180 133 204 158 tfor:TF1703|5end_conserved_hypothetical_protein_1822065..1822295_POSITIVE 283 209 167 222 172 tfor:TF3000|5end_hypothetical_protein_3216412..3216642_POSITIVE 283 209 167 222 172 tfor:TF2825|5end_transposase_3016390..3016620_POSITIVE 283 209 167 222 172 tfor:TF2591|5end_transposase_2757641..2757871_POSITIVE 283 209 167 222 172 tfor:TF2110|5end_transposase_2279217..2279447_POSITIVE 283 209 167 222 172 tfor:TF0942|5end_transposase_982998..983228_POSITIVE 283 209 167 222 172 tfor:TF0716|5end_transposase_766297..766527_POSITIVE 272 79 31 178 133 tfor:TF1649|5end_hypothetical_protein_1759638..1759868_POSITIVE 271 200 151 63 10 tfor:TF2642|5end_acetylornithine_deacetylase_2810677..2810907_POSITIVE 269 159 111 132 72 tfor:TF2223|5end_CTn_excision__protein_2394247..2394477_POSITIVE 262 168 122 113 63 tfor:TF1469|5end_2-methylthioadenine_synthetase_1561293..1561523_POSITIVE 260 80 32 188 144 tfor:TF0645|5end_hypothetical_protein_688673..688903_POSITIVE 258 180 133 216 168 tfor:TF3096|5end_conserved_hypothetical_protein_3327963..3328193_POSITIVE 255 190 143 155 99 tfor:TF2785|5end_RNA_polymerase_sigma_factor,_ECF_subfamily_(sigma-70)_2969277..2969507_POSITIVE 253 133 92 208 163 tfor:TF0100|5end_conserved_hypothetical_protein_111135..111365_POSITIVE 252 197 168 144 109 tfor:TF2434|5end_conserved_hypothetical_protein_2613969..2614199_POSITIVE 250 199 151 113 63 tfor:TF2848|5end_cobalamin_biosynthesis_protein_3036368..3036598_POSITIVE 249 108 67 130 83 tfor:TF1659|5end_hypothetical_protein_1774854..1775084_POSITIVE 248 75 37 107 70 tfor:TF1562|5end_possible_capsular_polysaccharide_biosynthesis_protein_1668984..1669214_POSITIVE 247 123 84 41 8 tfor:TF0211|5end_DNA_polymerase_III,_epsilon_subunit_236905..237135_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 298 180 133 134 88 tfor:TF1702|3end_conserved_hypothetical_protein_1822075..1822225_POSITIVE 283 209 167 67 17 tfor:TF2590|3end_transposase_2757566..2757716_POSITIVE 283 215 173 75 33 tfor:TF2515|3end_outer_membrane_protein,_TonB_dependent_receptor_2694865..2695015_POSITIVE 272 79 31 66 21 tfor:TF1648|3end_hypothetical_protein_1759606..1759756_POSITIVE 255 190 143 95 39 tfor:TF2783|3end_aminotransferase,_PatB_family_2969297..2969447_POSITIVE 253 133 92 117 72 tfor:TF0099|3end_glycosyltransferase_of_PMT_family_111124..111274_POSITIVE 252 197 168 138 103 tfor:TF2433|3end_possible_UDP-2,3-diacylglucosamine_hydrolase_2614043..2614193_POSITIVE 250 199 151 134 84 tfor:TF2846|3end_cobyric_acid_synthase_3036469..3036619_POSITIVE 248 75 37 120 83 tfor:TF1561|3end_possible_LPS_biosynthesis_protein_1669077..1669227_POSITIVE 243 168 121 82 40 tfor:TF0276|3end_hypothetical_protein_300982..301132_POSITIVE 238 189 141 67 14 tfor:TF2511|3end_RNA_binding_protein_2690232..2690382_POSITIVE 235 189 144 97 57 tfor:TF1729|3end_aspartokinase_1854718..1854868_POSITIVE 230 170 130 49 12 tfor:TF0790|3end_conserved_hypothetical_protein_844794..844944_POSITIVE 230 160 111 48 8 tfor:TF0305|3end_peptidyl-prolyl_cis-trans_isomerase_331112..331262_POSITIVE 229 78 34 138 94 tfor:TF2543|3end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_2728266..2728416_POSITIVE 228 109 64 71 27 tfor:TF0731|3end_conserved_hypothetical_protein_784796..784946_POSITIVE 225 179 142 122 75 tfor:TF2924|3end_DNA-binding_response_regulator/sensor_histidine_kinase_3125618..3125768_POSITIVE 225 189 144 41 2 tfor:TF1488|3end_conserved_hypothetical_protein_1588975..1589125_POSITIVE 224 170 139 142 109 tfor:TF1902|3end_two-component_system_sensor_histidine_kinase_2059055..2059205_POSITIVE 223 209 162 86 30 tfor:TF1961|3end_isoprenoid_biosynthesis_related_protein_2112480..2112630_POSITIVE