Origin IGS: agttcttagtgcatatattggtcagatattcatattattttttgtacccaaccatctttcttttgtctgtgttttttttgaggcgcaaagataaaaaatcacaggttacaaatcaatccctatttttggggatattgaaaagtgggtttttcgattaggagccatgagaaagataaggatggatcaaagattcgtgataaaaaacagatcctgtaccggttgttcatccgaaaaaaaactatacctttgccagacaaagt .........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 actttgtctggcaaaggtatagttttttttcggatgaacaaccggtacaggatctgttttttatcacgaatctttgatccatccttatctttctcatggctcctaatcgaaaaacccacttttcaatatccccaaaaatagggattgatttgtaacctgtgattttttatctttgcgcctcaaaaaaaacacagacaaaagaaagatggttgggtacaaaaaataatatgaatatctgaccaatatatgcactaagaact Mask Tandem Repeat Region ================================================ agttcttagtgcatatattggtcagatattcatattattttttgtacccaaccatctttcttttgtctgtgttttttttgaggcgcaaagataaaaaatcacaggttacaaatcaatccctatttttggggatattgaaaagtgggtttttcgattaggagccatgagaaagataaggatggatcaaagattcgtgataaaaaacagatcctgtaccggttgttcatccgaaaaaaaactatacctttgccagacaaagt Find is-nt database================================================ Query_seq: TF2597:TF2598|TF2597:TF2598:outer membrane receptor protein; possible TonB dependent receptor:conserved hypothetical protein:->->:2770912..2771171 260 agttcttagtgcatatattggtcagatattcatattattttttgtacccaaccatctttcttttgtctgtgttttttttgaggcgcaaagataaaaaatcacaggttacaaatcaatccctatttttggggatattgaaaagtgggtttttcgattaggagccatgagaaagataaggatggatcaaagattcgtgataaaaaacagatcctgtaccggttgttcatccgaaaaaaaactatacctttgccagacaaagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2597:TF2598|TF2597:TF2598:outer membrane receptor protein; possible TonB dependent receptor:conserved hypothetical protein:->->:2770912..2771171 260 agttcttagtgcatatattggtcagatattcatattattttttgtacccaaccatctttcttttgtctgtgttttttttgaggcgcaaagataaaaaatcacaggttacaaatcaatccctatttttggggatattgaaaagtgggtttttcgattaggagccatgagaaagataaggatggatcaaagattcgtgataaaaaacagatcctgtaccggttgttcatccgaaaaaaaactatacctttgccagacaaagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2597:TF2598|TF2597:TF2598:outer membrane receptor protein; possible TonB dependent receptor:conserved hypothetical protein:->->:2770912..2771171 260 agttcttagtgcatatattggtcagatattcatattattttttgtacccaaccatctttcttttgtctgtgttttttttgaggcgcaaagataaaaaatcacaggttacaaatcaatccctatttttggggatattgaaaagtgggtttttcgattaggagccatgagaaagataaggatggatcaaagattcgtgataaaaaacagatcctgtaccggttgttcatccgaaaaaaaactatacctttgccagacaaagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agttcttagtgcatatattggtcagatattcatattattttttgtacccaaccatctttcttttgtctgtgttttttttgaggcgcaaagataaaaaatcacaggttacaaatcaatccctatttttggggatattgaaaagtgggtttttcgattaggagccatgagaaagataaggatggatcaaagattcgtgataaaaaacagatcctgtaccggttgttcatccgaaaaaaaactatacctttgccagacaaagt Predict ORF larger than 30AA ================================================ Protein_Len: 49 Strand: + Start: 9 End: 155 ........ M H I L V R Y S Y Y F L Y P T I F L L S V F F L R R K D K K S Q V T N Q S L F L G I L K S G F F D ......................................................................................................... Protein_Len: 39 Strand: + Start: 142 End: 258 ............................................................................................................................................. M G F S I R S H E K D K D G S K I R D K K Q I L Y R L F I R K K T I P L P D K .. Protein_Len: 54 Strand: + Start: 98 End: 259 ................................................................................................. M T G Y K S I P I F G D I E K W V F R L G A M R K I R M D Q R F V I K N R S C T G C S S E K K L Y L C Q T K . Protein_Len: 45 Strand: - Start: 123 End: 257 .......................................................................................................................... K Q P Y Q F T P K E I L L W S F S L S P D F I R S L F C I R Y R N N M R F F V I G K G S M ... agttcttagtgcatatattggtcagatattcatattattttttgtacccaaccatctttcttttgtctgtgttttttttgaggcgcaaagataaaaaatcacaggttacaaatcaatccctatttttggggatattgaaaagtgggtttttcgattaggagccatgagaaagataaggatggatcaaagattcgtgataaaaaacagatcctgtaccggttgttcatccgaaaaaaaactatacctttgccagacaaagt 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================================================ agttcttagtgcatatattggtcagatattcatattattttttgtacccaaccatctttcttttgtctgtgttttttttgaggcgcaaagataaaaaatcacaggttacaaatcaatccctatttttggggatattgaaaagtgggtttttcgattaggagccatgagaaagataaggatggatcaaagattcgtgataaaaaacagatcctgtaccggttgttcatccgaaaaaaaactatacctttgccagacaaagt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2597:TF2598|TF2597:TF2598:outer membrane receptor protein; possible TonB dependent receptor:conserved hypothetical protein:->->:2770912..2771171 260 agttcttagtgcatatattggtcagatattcatattattttttgtacccaaccatctttcttttgtctgtgttttttttgaggcgcaaagataaaaaatcacaggttacaaatcaatccctatttttggggatattgaaaagtgggtttttcgattaggagccatgagaaagataaggatggatcaaagattcgtgataaaaaacagatcctgtaccggttgttcatccgaaaaaaaactatacctttgccagacaaagt Intra-Species Hit: Count: 1 Min: 1 Max: 260 Len: 260 Subject: tfor_TF2597_TF2598|outer membrane receptor protein; possible TonB dependent receptor:conserved hypothetical protein|POSITIVE:POSITIVE|[2770912,2771171]|260 HSP 1 e-value: 1.0E-116 bit: 420.0 Len: 260 Query Start:1 Query End:260 Subject Strand: POSITIVE Subject Start: 1 Subject End: 260 agttcttagtgcatatattggtcagatattcatattattttttgtacccaaccatctttcttttgtctgtgnnnnnnnngaggcgcaaagataaaaaatcacaggttacaaatcaatccctatttttggggatattgaaaagtgggtttttcgattaggagccatgagaaagataaggatggatcaaagattcgtgataaaaaacagatcctgtaccggttgttcatccgnnnnnnnnctatacctttgccagacaaagt agttcttagtgcatatattggtcagatattcatattattttttgtacccaaccatctttcttttgtctgtgttttttttgaggcgcaaagataaaaaatcacaggttacaaatcaatccctatttttggggatattgaaaagtgggtttttcgattaggagccatgagaaagataaggatggatcaaagattcgtgataaaaaacagatcctgtaccggttgttcatccgaaaaaaaactatacctttgccagacaaagt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUUCUUAGUGCAUAUAUUGGUCAGAUAUUCAUAUUAUUUUUUGUACCCAACCAUCUUUCUUUUGUCUGUGUUUUUUUUGAGGCGCAAAGAUAAAAAAUCACAGGUUACAAAUCAAUCCCUAUUUUUGGGGAUAUUGAAAAGUGGGUUUUUCGAUUAGGAGCCAUGAGAAAGAUAAGGAUGGAUCAAAGAUUCGUGAUAAAAAACAGAUCCUGUACCGGUUGUUCAUCCGAAAAAAAACUAUACCUUUGCCAGACAAAGU ..(((...(((.(((.(((((((((.............((((((...(((.((((((((((((((((((((((((....)))))))..)))))).........((((.(.((((.(((((((....)))))))...((((((....)))))))))).).))))..)))))))))..)).)))..))))))...((........)).....))).))))))))).)))..)))............(((((.....))))). (-56.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUUUGUCUGGCAAAGGUAUAGUUUUUUUUCGGAUGAACAACCGGUACAGGAUCUGUUUUUUAUCACGAAUCUUUGAUCCAUCCUUAUCUUUCUCAUGGCUCCUAAUCGAAAAACCCACUUUUCAAUAUCCCCAAAAAUAGGGAUUGAUUUGUAACCUGUGAUUUUUUAUCUUUGCGCCUCAAAAAAAACACAGACAAAAGAAAGAUGGUUGGGUACAAAAAAUAAUAUGAAUAUCUGACCAAUAUAUGCACUAAGAACU ........(((...((((((........((((((((((.(((.(((.....))).))).)))))).))))..(((((((((.((..((((((((..((...................((...(((..(((((........))))))))...))...(((((.((((((..............)))))).))))).))..)))))))))).))))).))))...........))))))..))).................. (-51.44) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 344 150 101 104 50 tfor:TF0370|5end_hypothetical_protein_386028..386258_POSITIVE 338 170 122 183 136 tfor:TF0477|5end_dipeptide/tripeptide_permease,_POT_family_(proton-dependent_oligopeptide_transport_family)_495449..495679_POSITIVE 311 90 43 119 72 tfor:TF0595|5end_hypothetical_protein_627820..628050_POSITIVE 310 230 181 72 13 tfor:TF1730|5end_diaminopimelate_decarboxylase_1854670..1854900_POSITIVE 310 96 52 124 88 tfor:TF0801|5end_transport_permease_858586..858816_POSITIVE 304 99 52 114 55 tfor:TF0676|5end_methyltransferase_719027..719257_POSITIVE 291 183 141 166 129 tfor:TF0658|5end_2-amino-3-ketobutyrate_coenzyme_A_ligase_703912..704142_POSITIVE 287 250 209 175 135 tfor:TF1286|5end_hypothetical_protein_1369199..1369429_POSITIVE 285 190 141 76 24 tfor:TF0552|5end_Bacteroides_aerotolerance_protein,_BatE_583698..583928_POSITIVE 284 135 98 172 131 tfor:TF0385|5end_conserved_hypothetical_protein_406211..406441_POSITIVE 283 153 118 220 169 tfor:TF0193|5end_conserved_hypothetical_protein;_possible_internalin-like_protein_(LPXTG_motif)_207955..208185_POSITIVE 282 231 191 50 12 tfor:TF1200|5end_conserved_hypothetical_protein_1282717..1282947_POSITIVE 281 150 102 125 72 tfor:TF1866|5end_conserved_hypothetical_protein;_possible_transposase_2022272..2022502_POSITIVE 280 231 194 127 91 tfor:TF1742|5end_TPR_repeat-containing_protein_1873129..1873359_POSITIVE 278 250 201 225 179 tfor:TF2992|5end_hexapeptide_transferase_family_protein_3209042..3209272_POSITIVE 276 190 141 75 22 tfor:TF0772|5end_conserved_hypothetical_protein_818568..818798_POSITIVE 274 184 141 107 52 tfor:TF1480|5end_ABC_transporter,_permease_component_1573512..1573742_POSITIVE 271 179 137 196 145 tfor:TF0435|5end_DNA_mismatch_repair_protein_457182..457412_POSITIVE 270 230 188 116 66 tfor:TF1161|5end_large_conductance_mechanosensitive_channel_protein_1240931..1241161_POSITIVE 268 231 204 217 175 tfor:TF1297|5end_hypothetical_protein_1379024..1379254_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 311 90 43 145 98 tfor:TF0594|3end_conserved_hypothetical_protein;_possible_PAP2_superfamily_protein_627926..628076_POSITIVE 291 183 141 55 18 tfor:TF0657|3end_conserved_hypothetical_protein_703881..704031_POSITIVE 287 250 209 141 101 tfor:TF1285|3end_hypothetical_protein_1369245..1369395_POSITIVE 286 167 134 66 29 tfor:TF0303|3end_conserved_hypothetical_protein_328758..328908_POSITIVE 285 190 141 66 14 tfor:TF0551|3end_possible_membrane-associated_phospholipid_phosphatase_583768..583918_POSITIVE 282 231 191 50 12 tfor:TF1199|3end_dephospho-CoA_kinase_1282797..1282947_POSITIVE 274 184 141 107 52 tfor:TF1479|3end_ABC_transporter,_permease_component_1573592..1573742_POSITIVE 270 230 188 113 63 tfor:TF1160|3end_MutT/nudix_family_protein_1241008..1241158_POSITIVE 268 231 204 95 53 tfor:TF1296|3end_possible_DNA-binding_protein,_histone-like_family_1378982..1379132_POSITIVE 266 243 204 92 50 tfor:TF2683|3end_translation_initiation_factor_IF-2_2860756..2860906_POSITIVE 266 83 41 128 81 tfor:TF1914|3end_conserved_hypothetical_protein_2067656..2067806_POSITIVE 265 91 55 57 19 tfor:TF2613|3end_conserved_hypothetical_protein_2789798..2789948_POSITIVE 265 186 141 102 43 tfor:TF0065|3end_conserved_hypothetical_protein_70800..70950_POSITIVE 262 198 152 95 46 tfor:TF1567|3end_V-type_ATP_synthase,_subunit_I_1676421..1676571_POSITIVE 261 185 141 97 42 tfor:TF0062|3end_conserved_hypothetical_protein_66180..66330_POSITIVE 260 230 205 35 11 tfor:TF1220|3end_conserved_hypothetical_protein_1307797..1307947_POSITIVE 259 199 158 39 3 tfor:TF1743|3end_conserved_hypothetical_protein_1877909..1878059_POSITIVE 257 88 51 71 26 tfor:TF2153|3end_6-phosphofructokinase_2329172..2329322_POSITIVE 255 249 209 54 16 tfor:TF1729|3end_aspartokinase_1854718..1854868_POSITIVE 255 230 182 143 94 tfor:TF0535|3end_surface_antigen_BspA_561701..561851_POSITIVE