Origin IGS: gtaaagctccgattgcataggggaaagttcgaaaggttttcccttttttcattataacggtaattaggcgtataggtcaagaattatagtccttcttcctctacactcttccttatcgattcggccctaccctacttgttaggaatgtggtggctttgcttggcctgatataca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgtatatcaggccaagcaaagccaccacattcctaacaagtagggtagggccgaatcgataaggaagagtgtagaggaagaaggactataattcttgacctatacgcctaattaccgttataatgaaaaaagggaaaacctttcgaactttcccctatgcaatcggagctttac Mask Tandem Repeat Region ================================================ gtaaagctccgattgcataggggaaagttcgaaaggttttcccttttttcattataacggtaattaggcgtataggtcaagaattatagtccttcttcctctacactcttccttatcgattcggccctaccctacttgttaggaatgtggtggctttgcttggcctgatataca Find is-nt database================================================ Query_seq: PG1135:PG1136|PG1135:PG1136:bacterial sugar transferase:hypothetical protein:-><-:1216615..1216788 174 gtaaagctccgattgcataggggaaagttcgaaaggttttcccttttttcattataacggtaattaggcgtataggtcaagaattatagtccttcttcctctacactcttccttatcgattcggccctaccctacttgttaggaatgtggtggctttgcttggcctgatataca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1135:PG1136|PG1135:PG1136:bacterial sugar transferase:hypothetical protein:-><-:1216615..1216788 174 gtaaagctccgattgcataggggaaagttcgaaaggttttcccttttttcattataacggtaattaggcgtataggtcaagaattatagtccttcttcctctacactcttccttatcgattcggccctaccctacttgttaggaatgtggtggctttgcttggcctgatataca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1135:PG1136|PG1135:PG1136:bacterial sugar transferase:hypothetical protein:-><-:1216615..1216788 174 gtaaagctccgattgcataggggaaagttcgaaaggttttcccttttttcattataacggtaattaggcgtataggtcaagaattatagtccttcttcctctacactcttccttatcgattcggccctaccctacttgttaggaatgtggtggctttgcttggcctgatataca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gtaaagctccgattgcataggggaaagttcgaaaggttttcccttttttcattataacggtaattaggcgtataggtcaagaattatagtccttcttcctctacactcttccttatcgattcggccctaccctacttgttaggaatgtggtggctttgcttggcctgatataca Predict ORF larger than 30AA ================================================ gtaaagctccgattgcataggggaaagttcgaaaggttttcccttttttcattataacggtaattaggcgtataggtcaagaattatagtccttcttcctctacactcttccttatcgattcggccctaccctacttgttaggaatgtggtggctttgcttggcctgatataca 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================================================ gtaaagctccgattgcataggggaaagttcgaaaggttttcccttttttcattataacggtaattaggcgtataggtcaagaattatagtccttcttcctctacactcttccttatcgattcggccctaccctacttgttaggaatgtggtggctttgcttggcctgatataca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1135:PG1136|PG1135:PG1136:bacterial sugar transferase:hypothetical protein:-><-:1216615..1216788 174 gtaaagctccgattgcataggggaaagttcgaaaggttttcccttttttcattataacggtaattaggcgtataggtcaagaattatagtccttcttcctctacactcttccttatcgattcggccctaccctacttgttaggaatgtggtggctttgcttggcctgatataca Intra-Species Hit: Count: 1 Min: 1 Max: 174 Len: 174 Subject: NC_002950_PG1135_PG1136|bacterial sugar transferase:hypothetical protein|POSITIVE:NEGATIVE|[1216615,1216788]|174 HSP 1 e-value: 3.0E-94 bit: 345.0 Len: 174 Query Start:1 Query End:174 Subject Strand: POSITIVE Subject Start: 1 Subject End: 174 gtaaagctccgattgcataggggaaagttcgaaaggttttcccttttttcattataacggtaattaggcgtataggtcaagaattatagtccttcttcctctacactcttccttatcgattcggccctaccctacttgttaggaatgtggtggctttgcttggcctgatataca gtaaagctccgattgcataggggaaagttcgaaaggttttcccttttttcattataacggtaattaggcgtataggtcaagaattatagtccttcttcctctacactcttccttatcgattcggccctaccctacttgttaggaatgtggtggctttgcttggcctgatataca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUAAAGCUCCGAUUGCAUAGGGGAAAGUUCGAAAGGUUUUCCCUUUUUUCAUUAUAACGGUAAUUAGGCGUAUAGGUCAAGAAUUAUAGUCCUUCUUCCUCUACACUCUUCCUUAUCGAUUCGGCCCUACCCUACUUGUUAGGAAUGUGGUGGCUUUGCUUGGCCUGAUAUACA (((..((.(..(((((..(((((((...((....))..)))))))..............)))))..)))...(((((((((......((((.........(((((...(((((...(((...((......))...)))..)))))))))).))))...)))))))))...))). (-41.69) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUAUAUCAGGCCAAGCAAAGCCACCACAUUCCUAACAAGUAGGGUAGGGCCGAAUCGAUAAGGAAGAGUGUAGAGGAAGAAGGACUAUAAUUCUUGACCUAUACGCCUAAUUACCGUUAUAAUGAAAAAAGGGAAAACCUUUCGAACUUUCCCCUAUGCAAUCGGAGCUUUAC .........(((........)))......((((......((((((.(((..(((...(((.(((....((((((.(.(((((.........)))))..))))))).))).)))................((((.....)))))))..)))..))))))......))))...... (-36.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 362 50 7 120 83 NC_002950:PG1831|5end_ATP-dependent_DNA_helicase_RecQ_1925422..1925652_NEGATIVE 354 132 92 55 10 NC_002950:PG0348|5end_ATP-dependent_DNA_helicase_RecG_382345..382575_POSITIVE 331 148 101 231 176 NC_002950:PG0399|5end_lipoprotein,_putative_436237..436467_NEGATIVE 322 167 125 223 173 NC_002950:PG1690|5end_Sua5/YciO/YrdC/YwlC_family_protein_1775773..1776003_NEGATIVE 319 158 117 136 99 NC_002950:PG1363|5end_hypothetical_protein_1443804..1444034_POSITIVE 318 153 112 152 109 NC_002950:PG0328|5end_imidazolonepropionase_363426..363656_NEGATIVE 316 167 121 54 3 NC_002950:PG2227|5end_hypothetical_protein_2342008..2342238_POSITIVE 315 36 8 47 15 NC_002950:PG1886|5end_GTP-binding_protein_HflX_1984536..1984766_NEGATIVE 314 62 26 48 12 NC_002950:PG0334|5end_glycosyl_transferase,_group_2_family_protein_369751..369981_NEGATIVE 313 44 5 213 164 NC_002950:PG0671|5end_iron_compound_ABC_transporter,_permease_protein_721888..722118_POSITIVE 310 166 123 212 165 NC_002950:PG0652|5end_hypothetical_protein_704201..704431_NEGATIVE 310 158 113 143 97 NC_002950:PG0607|5end_hypothetical_protein_662552..662782_POSITIVE 309 37 1 80 49 NC_002950:PG2073|5end_hypothetical_protein_2174374..2174604_NEGATIVE 309 37 1 80 49 NC_002950:PG1669|5end_hypothetical_protein_1755566..1755796_NEGATIVE 309 37 1 80 49 NC_002950:PG1264|5end_hypothetical_protein_1344895..1345125_NEGATIVE 309 37 1 80 49 NC_002950:PG0103|5end_hypothetical_protein_121290..121520_POSITIVE 302 166 121 169 122 NC_002950:PG1850|5end_hypothetical_protein_1949957..1950187_NEGATIVE 302 165 121 157 114 NC_002950:PG1718|5end_hypothetical_protein_1806807..1807037_NEGATIVE 302 47 4 57 23 NC_002950:PG0785|5end_tonB_protein,_putative_837592..837822_NEGATIVE 295 160 120 174 135 NC_002950:PG0166|5end_peptidyl-tRNA_hydrolase_188370..188600_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 361 147 102 85 39 NC_002950:PG0626|3end_hypothetical_protein_680346..680496_POSITIVE 343 124 90 114 79 NC_002950:PG0686|3end_hypothetical_protein_741131..741281_NEGATIVE 333 163 123 117 76 NC_002950:PG0280|3end_ABC_transporter,_permease_protein,_putative_313297..313447_NEGATIVE 319 163 123 64 29 NC_002950:PG0933|3end_translation_elongation_factor_G,_putative_992236..992386_POSITIVE 318 153 112 51 8 NC_002950:PG0329|3end_formiminotransferase-cyclodeaminase-related_protein_363527..363677_NEGATIVE 316 167 121 57 6 NC_002950:PG2226|3end_hypothetical_protein_2342091..2342241_POSITIVE 312 170 121 130 80 NC_002950:PG0669|3end_heme-binding_protein_FetB_720714..720864_POSITIVE 308 138 91 144 95 NC_002950:PG2076|3end_hypothetical_protein_2177073..2177223_POSITIVE 306 47 5 66 20 NC_002950:PG1755|3end_fructose-bisphosphate_aldolase_1842397..1842547_NEGATIVE 302 47 4 79 45 NC_002950:PG0786|3end_hypothetical_protein_837570..837720_NEGATIVE 299 164 123 61 7 NC_002950:PG2036|3end_ion_transporter_2137552..2137702_POSITIVE 297 168 124 49 2 NC_002950:PG1875|3end_hemolysin_1969647..1969797_NEGATIVE 291 164 131 116 83 NC_002950:PG0934|3end_hypothetical_protein_992414..992564_NEGATIVE 290 132 92 133 97 NC_002950:PG0242|3end_conserved_hypothetical_protein_TIGR00096_278259..278409_NEGATIVE 289 167 124 58 6 NC_002950:PG1133|3end_hypothetical_protein_1214103..1214253_POSITIVE 289 120 74 132 95 NC_002950:PG0215|3end_hypothetical_protein_252028..252178_POSITIVE 285 166 123 48 5 NC_002950:PG0707|3end_TonB-dependent_receptor,_putative_761086..761236_NEGATIVE 284 138 91 72 18 NC_002950:PG0479|3end_hypothetical_protein_520545..520695_POSITIVE 283 166 122 67 5 NC_002950:PG2110|3end_thiamine_biosynthesis_protein_ThiC_2219449..2219599_NEGATIVE 282 140 94 149 98 NC_002950:PG0157|3end_regulatory_protein_RecX_180271..180421_POSITIVE