Origin IGS: gtttttctgtttttaaaaattgatacatgtttccgcgttccggatatttcttttacgctgcgcctccggtgcggtttgcgaggcgcatcgacttaccctggtggaatatcggttgttttttccatagttttatcttttttcgttatgtacgacaaaggtatgaatagtttttgattat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ataatcaaaaactattcatacctttgtcgtacataacgaaaaaagataaaactatggaaaaaacaaccgatattccaccagggtaagtcgatgcgcctcgcaaaccgcaccggaggcgcagcgtaaaagaaatatccggaacgcggaaacatgtatcaatttttaaaaacagaaaaac Mask Tandem Repeat Region ================================================ gtttttctgtttttaaaaattgatacatgtttccgcgttccggatatttcttttacgctgcgcctccggtgcggtttgcgaggcgcatcgacttaccctggtggaatatcggttgttttttccatagttttatcttttttcgttatgtacgacaaaggtatgaatagtttttgattat Find is-nt database================================================ Query_seq: TF0368:TF0369|TF0368:TF0369:hypothetical protein:hypothetical protein:->->:385895..386072 178 gtttttctgtttttaaaaattgatacatgtttccgcgttccggatatttcttttacgctgcgcctccggtgcggtttgcgaggcgcatcgacttaccctggtggaatatcggttgttttttccatagttttatcttttttcgttatgtacgacaaaggtatgaatagtttttgattat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0368:TF0369|TF0368:TF0369:hypothetical protein:hypothetical protein:->->:385895..386072 178 gtttttctgtttttaaaaattgatacatgtttccgcgttccggatatttcttttacgctgcgcctccggtgcggtttgcgaggcgcatcgacttaccctggtggaatatcggttgttttttccatagttttatcttttttcgttatgtacgacaaaggtatgaatagtttttgattat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0368:TF0369|TF0368:TF0369:hypothetical protein:hypothetical protein:->->:385895..386072 178 gtttttctgtttttaaaaattgatacatgtttccgcgttccggatatttcttttacgctgcgcctccggtgcggtttgcgaggcgcatcgacttaccctggtggaatatcggttgttttttccatagttttatcttttttcgttatgtacgacaaaggtatgaatagtttttgattat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gtttttctgtttttaaaaattgatacatgtttccgcgttccggatatttcttttacgctgcgcctccggtgcggtttgcgaggcgcatcgacttaccctggtggaatatcggttgttttttccatagttttatcttttttcgttatgtacgacaaaggtatgaatagtttttgattat Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 20 End: 124 ................... M I H V S A F R I F L L R C A S G A V C E A H R L T L V E Y R L F F P ...................................................... Protein_Len: 46 Strand: + Start: 27 End: 164 .......................... M F P R S G Y F F Y A A P P V R F A R R I D L P W W N I G C F F H S F I F F R Y V R Q R Y E .............. Protein_Len: 55 Strand: + Start: 7 End: 171 ...... M F L K I D T C F R V P D I S F T L R L R C G L R G A S T Y P G G I S V V F S I V L S F F V M Y D K G M N S F ....... gtttttctgtttttaaaaattgatacatgtttccgcgttccggatatttcttttacgctgcgcctccggtgcggtttgcgaggcgcatcgacttaccctggtggaatatcggttgttttttccatagttttatcttttttcgttatgtacgacaaaggtatgaatagtttttgattat 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================================================ gtttttctgtttttaaaaattgatacatgtttccgcgttccggatatttcttttacgctgcgcctccggtgcggtttgcgaggcgcatcgacttaccctggtggaatatcggttgttttttccatagttttatcttttttcgttatgtacgacaaaggtatgaatagtttttgattat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0368:TF0369|TF0368:TF0369:hypothetical protein:hypothetical protein:->->:385895..386072 178 gtttttctgtttttaaaaattgatacatgtttccgcgttccggatatttcttttacgctgcgcctccggtgcggtttgcgaggcgcatcgacttaccctggtggaatatcggttgttttttccatagttttatcttttttcgttatgtacgacaaaggtatgaatagtttttgattat Intra-Species Hit: Count: 1 Min: 1 Max: 178 Len: 178 Subject: tfor_TF0368_TF0369|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[385895,386072]|178 HSP 1 e-value: 5.0E-59 bit: 228.0 Len: 115 Query Start:1 Query End:115 Subject Strand: POSITIVE Subject Start: 1 Subject End: 115 gtttttctgtttttaaaaattgatacatgtttccgcgttccggatatttcttttacgctgcgcctccggtgcggtttgcgaggcgcatcgacttaccctggtggaatatcggttg............................................................... gtttttctgtttttaaaaattgatacatgtttccgcgttccggatatttcttttacgctgcgcctccggtgcggtttgcgaggcgcatcgacttaccctggtggaatatcggttg............................................................... HSP 2 e-value: 4.0E-13 bit: 75.8 Len: 38 Query Start:141 Query End:178 Subject Strand: POSITIVE Subject Start: 141 Subject End: 178 ............................................................................................................................................cgttatgtacgacaaaggtatgaatagtttttgattat ............................................................................................................................................cgttatgtacgacaaaggtatgaatagtttttgattat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUUUUCUGUUUUUAAAAAUUGAUACAUGUUUCCGCGUUCCGGAUAUUUCUUUUACGCUGCGCCUCCGGUGCGGUUUGCGAGGCGCAUCGACUUACCCUGGUGGAAUAUCGGUUGUUUUUUCCAUAGUUUUAUCUUUUUUCGUUAUGUACGACAAAGGUAUGAAUAGUUUUUGAUUAU ............((((((((((............(((..(((.(((((((.....((.(((((((((((......))).)))))))).))....((....)))))))))))).)))............((((((((((.((((.....)))).))))).))))))))))))))).... (-40.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAAUCAAAAACUAUUCAUACCUUUGUCGUACAUAACGAAAAAAGAUAAAACUAUGGAAAAAACAACCGAUAUUCCACCAGGGUAAGUCGAUGCGCCUCGCAAACCGCACCGGAGGCGCAGCGUAAAAGAAAUAUCCGGAACGCGGAAACAUGUAUCAAUUUUUAAAAACAGAAAAAC ....((........((((((..((((((................))))))..))))))..........(((((....((.(((((..((..(((((..(((...(((...)))..)))..)))))...))..))))))).....(....)..)))))..............))..... (-35.69) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1022 90 41 181 132 tfor:TF1714|5end_hypothetical_protein_1834125..1834355_POSITIVE 452 90 41 194 142 tfor:TF0971|5end_conserved_hypothetical_protein_1021355..1021585_POSITIVE 452 104 61 66 19 tfor:TF0307|5end_conserved_hypothetical_protein_332783..333013_POSITIVE 448 100 56 54 7 tfor:TF0538|5end_hypothetical_protein_566891..567121_POSITIVE 447 90 41 231 178 tfor:TF0063|5end_conserved_hypothetical_protein_66110..66340_POSITIVE 442 100 55 192 138 tfor:TF2357|5end_collagenase_2522561..2522791_POSITIVE 442 100 54 71 9 tfor:TF1023|5end_ABC_transporter,_permease_component_1079197..1079427_POSITIVE 440 99 51 63 10 tfor:TF0469|5end_hypothetical_protein_486960..487190_POSITIVE 430 91 57 215 175 tfor:TF2224|5end_CTn_excision_protein_2394592..2394822_POSITIVE 427 90 48 205 141 tfor:TF2855|5end_ATPase,_AAA_family_3040657..3040887_POSITIVE 423 86 41 222 184 tfor:TF0433|5end_60_kDa_inner_membrane_protein_453357..453587_POSITIVE 420 68 26 231 189 tfor:TF2259|5end_transfer_region-related_protein,_TraK_2429577..2429807_POSITIVE 416 89 41 156 96 tfor:TF1234|5end_rhamnulose-1-phosphate_aldolase_1318875..1319105_POSITIVE 414 100 57 47 1 tfor:TF0539|5end_hypothetical_protein_566884..567114_POSITIVE 413 104 61 228 180 tfor:TF2196|5end_hypothetical_protein_2371678..2371908_POSITIVE 412 105 61 64 4 tfor:TF1741|5end_conserved_hypothetical_protein_1869304..1869534_POSITIVE 412 93 53 72 28 tfor:TF0996|5end_ribonuclease_D_1050882..1051112_POSITIVE 410 90 41 226 161 tfor:TF2377|5end_orotidine_5'_phosphate_decarboxylase_2541799..2542029_POSITIVE 409 103 66 45 1 tfor:TF1313|5end_conserved_hypothetical_protein_1388880..1389110_POSITIVE 409 90 41 135 69 tfor:TF1182|5end_hypothetical_protein_1268565..1268795_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 423 86 41 151 113 tfor:TF0432|3end_3-deoxy-manno-octulosonate_cytidylyltransferase_453366..453516_POSITIVE 412 93 53 72 28 tfor:TF0995|3end_conserved_hypothetical_protein_1050962..1051112_POSITIVE 409 90 41 135 69 tfor:TF1186|3end_hypothetical_protein_1269815..1269965_POSITIVE 406 78 33 72 12 tfor:TF1930|3end_two-component_response_regulator_2078203..2078353_POSITIVE 405 90 56 35 1 tfor:TF0348|3end_hypothetical_protein_370447..370597_POSITIVE 403 100 56 78 21 tfor:TF1917|3end_hypothetical_protein_2070244..2070394_POSITIVE 397 104 61 50 1 tfor:TF0960|3end_beta-galactosidase_1010506..1010656_POSITIVE 392 99 55 51 4 tfor:TF1908|3end_possible_phosphoglycerate_mutase_2063299..2063449_POSITIVE 391 90 41 69 12 tfor:TF1173|3end_ABC_transporter,_permease_component_1256651..1256801_POSITIVE 389 86 41 52 8 tfor:TF2874|3end_conserved_hypothetical_protein_3065224..3065374_POSITIVE 388 75 38 57 19 tfor:TF2494|3end_NAD-dependent_4-hydroxybutyrate_dehydrogenase_2669520..2669670_POSITIVE 387 85 41 63 23 tfor:TF0686|3end_hypothetical_protein_732950..733100_POSITIVE 386 80 31 76 12 tfor:TF0885|3end_conjugative_transposon_protein_fragment_938055..938205_POSITIVE 379 89 50 56 1 tfor:TF1233|3end_dihydrodipicolinate_synthase_1318855..1319005_POSITIVE 378 80 32 129 65 tfor:TF1066|3end_hypothetical_protein_1136858..1137008_POSITIVE 378 110 61 145 85 tfor:TF0405|3end_conserved_hypothetical_protein_424308..424458_POSITIVE 375 100 55 59 12 tfor:TF2322|3end_conserved_hypothetical_protein;_possible_lipoprotein_2483785..2483935_POSITIVE 374 80 34 68 2 tfor:TF0460|3end_hypothetical_protein_477070..477220_POSITIVE 373 99 51 145 86 tfor:TF3102|3end_hypothetical_protein_3332969..3333119_POSITIVE 369 80 31 118 55 tfor:TF2490|3end_4-hydroxyphenylacetate-3-hydroxylase/4-hydroxybut_yryl_dehydratase_2666755..2666905_POSITIVE