Origin IGS: tgagtcgtttataaatcctcctttgtgtgtggctgttgtatgcccccgggtctggatgctttctggaatggccttccgtgtaatcctgacaaggaagggcatagggcgccaccataacctacaatatcctgttttttaattatctgaaaggaattttaccggactggcccgagaagacaaaacaacggcaaagtgaaaataaaaaaaaatccatacctttgcaagttacaatagcagggataaaaacgataataaaatatgcgcgattgtaataaaaacaaaaaaacact .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 agtgtttttttgtttttattacaatcgcgcatattttattatcgtttttatccctgctattgtaacttgcaaaggtatggatttttttttattttcactttgccgttgttttgtcttctcgggccagtccggtaaaattcctttcagataattaaaaaacaggatattgtaggttatggtggcgccctatgcccttccttgtcaggattacacggaaggccattccagaaagcatccagacccgggggcatacaacagccacacacaaaggaggatttataaacgactca Mask Tandem Repeat Region ================================================ tgagtcgtttataaatcctcctttgtgtgtggctgttgtatgcccccgggtctggatgctttctggaatggccttccgtgtaatcctgacaaggaagggcatagggcgccaccataacctacaatatcctgttttttaattatctgaaaggaattttaccggactggcccgagaagacaaaacaacggcaaagtgaaaataaaaaaaaatccatacctttgcaagttacaatagcagggataaaaacgataataaaatatgcgcgattgtaataaaaacaaaaaaacact Find is-nt database================================================ Query_seq: TF1755:TF1756|TF1755:TF1756:periplasmic protease:chromosome partitioning ATPase, ParA family:->->:1892928..1893217 290 tgagtcgtttataaatcctcctttgtgtgtggctgttgtatgcccccgggtctggatgctttctggaatggccttccgtgtaatcctgacaaggaagggcatagggcgccaccataacctacaatatcctgttttttaattatctgaaaggaattttaccggactggcccgagaagacaaaacaacggcaaagtgaaaataaaaaaaaatccatacctttgcaagttacaatagcagggataaaaacgataataaaatatgcgcgattgtaataaaaacaaaaaaacact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1755:TF1756|TF1755:TF1756:periplasmic protease:chromosome partitioning ATPase, ParA family:->->:1892928..1893217 290 tgagtcgtttataaatcctcctttgtgtgtggctgttgtatgcccccgggtctggatgctttctggaatggccttccgtgtaatcctgacaaggaagggcatagggcgccaccataacctacaatatcctgttttttaattatctgaaaggaattttaccggactggcccgagaagacaaaacaacggcaaagtgaaaataaaaaaaaatccatacctttgcaagttacaatagcagggataaaaacgataataaaatatgcgcgattgtaataaaaacaaaaaaacact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1755:TF1756|TF1755:TF1756:periplasmic protease:chromosome partitioning ATPase, ParA family:->->:1892928..1893217 290 tgagtcgtttataaatcctcctttgtgtgtggctgttgtatgcccccgggtctggatgctttctggaatggccttccgtgtaatcctgacaaggaagggcatagggcgccaccataacctacaatatcctgttttttaattatctgaaaggaattttaccggactggcccgagaagacaaaacaacggcaaagtgaaaataaaaaaaaatccatacctttgcaagttacaatagcagggataaaaacgataataaaatatgcgcgattgtaataaaaacaaaaaaacact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgagtcgtttataaatcctcctttgtgtgtggctgttgtatgcccccgggtctggatgctttctggaatggccttccgtgtaatcctgacaaggaagggcatagggcgccaccataacctacaatatcctgttttttaattatctgaaaggaattttaccggactggcccgagaagacaaaacaacggcaaagtgaaaataaaaaaaaatccatacctttgcaagttacaatagcagggataaaaacgataataaaatatgcgcgattgtaataaaaacaaaaaaacact Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 25 End: 114 ........................ M C G C C M P P G L D A F W N G L P C N P D K E G H R A P P ................................................................................................................................................................................ Protein_Len: 42 Strand: + Start: 11 End: 136 .......... M N P P L C V A V V C P R V W M L S G M A F R V I L T R K G I G R H H N L Q Y P V F .......................................................................................................................................................... Protein_Len: 52 Strand: + Start: 114 End: 269 ................................................................................................................. M T Y N I L F F N Y L K G I L P D W P E K T K Q R Q S E N K K K S I P L Q V T I A G I K T I I K Y A R L ..................... Protein_Len: 41 Strand: - Start: 159 End: 281 .............................................................................................................................................................. R V P G L L C F L P L T F I F F F G Y R Q L N C Y C P Y F R Y Y F I R S Q L L F M ......... Protein_Len: 49 Strand: - Start: 143 End: 289 .............................................................................................................................................. R F P I K G S Q G S F V F C R C L S F L F F D M G K C T V I A P I F V I I F Y A R N Y Y F C F F M . Protein_Len: 44 Strand: - Start: 12 End: 143 ........... L D E K T H P Q Q I G G P R S A K Q F P R G H L G S L S P C L A G G Y G V I D Q K K I M ................................................................................................................................................... Protein_Len: 38 Strand: - Start: 2 End: 115 . L R K Y I R R Q T H S N Y A G P D P H K R S H G E T Y D Q C P L A Y P A V M ............................................................................................................................................................................... Protein_Len: 34 Strand: - Start: 1 End: 102 S D N I F G G K H T A T T H G R T Q I S E P I A K R T I R V L F P M ............................................................................................................................................................................................ tgagtcgtttataaatcctcctttgtgtgtggctgttgtatgcccccgggtctggatgctttctggaatggccttccgtgtaatcctgacaaggaagggcatagggcgccaccataacctacaatatcctgttttttaattatctgaaaggaattttaccggactggcccgagaagacaaaacaacggcaaagtgaaaataaaaaaaaatccatacctttgcaagttacaatagcagggataaaaacgataataaaatatgcgcgattgtaataaaaacaaaaaaacact Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 196 End: 225 ...................................................................................................................................................................................................CTTGCAAAGGTATGGATTTTTTTTTATTTT................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tgagtcgtttataaatcctcctttgtgtgtggctgttgtatgcccccgggtctggatgctttctggaatggccttccgtgtaatcctgacaaggaagggcatagggcgccaccataacctacaatatcctgttttttaattatctgaaaggaattttaccggactggcccgagaagacaaaacaacggcaaagtgaaaataaaaaaaaatccatacctttgcaagttacaatagcagggataaaaacgataataaaatatgcgcgattgtaataaaaacaaaaaaacact Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 41 HP_score: -2.1 Tail_Score: -2.82516 Start: 64 End: 78 Full_Region: GGTCTGGATGCTTTC TGGAA TGGCC TTCCG TGTAATCCTGACAAG ...............................................................TGGAATGGCCTTCCG.................................................................................................................................................................................................................... Find igs database================================================ Query_seq: TF1755:TF1756|TF1755:TF1756:periplasmic protease:chromosome partitioning ATPase, ParA family:->->:1892928..1893217 290 tgagtcgtttataaatcctcctttgtgtgtggctgttgtatgcccccgggtctggatgctttctggaatggccttccgtgtaatcctgacaaggaagggcatagggcgccaccataacctacaatatcctgttttttaattatctgaaaggaattttaccggactggcccgagaagacaaaacaacggcaaagtgaaaataaaaaaaaatccatacctttgcaagttacaatagcagggataaaaacgataataaaatatgcgcgattgtaataaaaacaaaaaaacact Intra-Species Hit: Count: 1 Min: 1 Max: 273 Len: 273 Subject: tfor_TF1755_TF1756|periplasmic protease:chromosome partitioning ATPase, ParA family|POSITIVE:POSITIVE|[1892928,1893217]|290 HSP 1 e-value: 1.0E-137 bit: 488.0 Len: 273 Query Start:1 Query End:273 Subject Strand: POSITIVE Subject Start: 1 Subject End: 273 tgagtcgtttataaatcctcctttgtgtgtggctgttgtatgcccccgggtctggatgctttctggaatggccttccgtgtaatcctgacaaggaagggcatagggcgccaccataacctacaatatcctgttttttaattatctgaaaggaattttaccggactggcccgagaagacaaaacaacggcaaagtgaaaatnnnnnnnnntccatacctttgcaagttacaatagcagggataaaaacgataataaaatatgcgcgattgtaat................. tgagtcgtttataaatcctcctttgtgtgtggctgttgtatgcccccgggtctggatgctttctggaatggccttccgtgtaatcctgacaaggaagggcatagggcgccaccataacctacaatatcctgttttttaattatctgaaaggaattttaccggactggcccgagaagacaaaacaacggcaaagtgaaaataaaaaaaaatccatacctttgcaagttacaatagcagggataaaaacgataataaaatatgcgcgattgtaat................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAGUCGUUUAUAAAUCCUCCUUUGUGUGUGGCUGUUGUAUGCCCCCGGGUCUGGAUGCUUUCUGGAAUGGCCUUCCGUGUAAUCCUGACAAGGAAGGGCAUAGGGCGCCACCAUAACCUACAAUAUCCUGUUUUUUAAUUAUCUGAAAGGAAUUUUACCGGACUGGCCCGAGAAGACAAAACAACGGCAAAGUGAAAAUAAAAAAAAAUCCAUACCUUUGCAAGUUACAAUAGCAGGGAUAAAAACGAUAAUAAAAUAUGCGCGAUUGUAAU ..((((((.((((.........(((((.(((((.(((.(((((((((..(((.((((((....(((((.....))))).)).)))).)))..))..))))))).))))))))))))).......(((((((((((((.....(((....))).......(((......)))))))))).....(((.((((((.......................))))))..))).........))))))...............)))).))))))..... (-71.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUACAAUCGCGCAUAUUUUAUUAUCGUUUUUAUCCCUGCUAUUGUAACUUGCAAAGGUAUGGAUUUUUUUUUAUUUUCACUUUGCCGUUGUUUUGUCUUCUCGGGCCAGUCCGGUAAAAUUCCUUUCAGAUAAUUAAAAAACAGGAUAUUGUAGGUUAUGGUGGCGCCCUAUGCCCUUCCUUGUCAGGAUUACACGGAAGGCCAUUCCAGAAAGCAUCCAGACCCGGGGGCAUACAACAGCCACACACAAAGGAGGAUUUAUAAACGACUCA ........................((((((.((..(((.((...(((((((((((.....((..(((((..((((((....(((((((....((.((((....)))).))..))))))).........))))))..))))).)).....))))))))))).(((((....(((((((..((..(((.((((.....((((.....)))).......)))).)))..))))))))).....)))))......)).)))...)).)))))).... (-65.12) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 406 78 35 123 71 tfor:TF1891|5end_hypothetical_protein_2043389..2043619_POSITIVE 400 80 31 170 115 tfor:TF3088|5end_conserved_hypothetical_protein_3322512..3322742_POSITIVE 395 90 41 188 132 tfor:TF0955|5end_conserved_hypothetical_protein_999215..999445_POSITIVE 394 58 16 65 15 tfor:TF1461|5end_DNA-damage-inducible_protein_F_1550845..1551075_POSITIVE 380 88 41 208 158 tfor:TF2259|5end_transfer_region-related_protein,_TraK_2429577..2429807_POSITIVE 375 90 45 60 9 tfor:TF1908|5end_possible_phosphoglycerate_mutase_2062695..2062925_POSITIVE 371 80 31 62 20 tfor:TF2523|5end_NAD(P)H-flavin_oxidoreductase_2702114..2702344_POSITIVE 370 80 31 199 133 tfor:TF0992|5end_hypothetical_protein_1048251..1048481_POSITIVE 369 65 21 190 138 tfor:TF0960|5end_beta-galactosidase_1008618..1008848_POSITIVE 368 79 32 219 160 tfor:TF1831|5end_conserved_hypothetical_protein_1980365..1980595_POSITIVE 367 82 41 52 1 tfor:TF0419|5end_conserved_hypothetical_protein_435250..435480_POSITIVE 365 78 31 72 11 tfor:TF2654|5end_arginyl-tRNA_synthetase_2822692..2822922_POSITIVE 365 80 31 182 136 tfor:TF1067|5end_conserved_hypothetical_protein_1136867..1137097_POSITIVE 364 72 32 40 7 tfor:TF1970|5end_oxaloacetate_decarboxylase,_beta_subunit_2116804..2117034_POSITIVE 364 60 20 163 115 tfor:TF0310|5end_conserved_hypothetical_protein_334685..334915_POSITIVE 360 58 17 206 162 tfor:TF1767|5end_3-dehydroquinate_synthase_1905492..1905722_POSITIVE 360 59 17 56 12 tfor:TF1586|5end_hypothetical_protein_1690971..1691201_POSITIVE 360 73 32 100 46 tfor:TF1240|5end_conserved_hypothetical_protein_1324304..1324534_POSITIVE 359 77 33 210 152 tfor:TF2683|5end_translation_initiation_factor_IF-2_2857722..2857952_POSITIVE 359 78 31 64 4 tfor:TF2296|5end_hypothetical_protein_2448892..2449122_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 375 89 42 98 38 tfor:TF2143|3end_S-adenosylmethionine:tRNA_ribosyltransferase-isomerase_2319704..2319854_POSITIVE 367 78 31 148 105 tfor:TF3087|3end_conserved_hypothetical_protein_3322582..3322732_POSITIVE 365 80 31 93 47 tfor:TF1066|3end_hypothetical_protein_1136858..1137008_POSITIVE 365 110 62 58 1 tfor:TF0141|3end_exodeoxyribonuclease_VII,_large_subunit_149830..149980_POSITIVE 355 68 21 85 43 tfor:TF2745|3end_hypothetical_protein_2927947..2928097_POSITIVE 353 80 31 71 2 tfor:TF1173|3end_ABC_transporter,_permease_component_1256651..1256801_POSITIVE 353 109 64 136 92 tfor:TF0071|3end_conserved_hypothetical_protein_80871..81021_POSITIVE 350 100 51 72 17 tfor:TF2462|3end_hypothetical_protein_2642076..2642226_POSITIVE 348 88 44 49 11 tfor:TF2703|3end_conserved_hypothetical_protein_2876317..2876467_POSITIVE 347 59 11 141 98 tfor:TF1548|3end_thiophene_and_furan_oxidation_protein_1653987..1654137_POSITIVE 346 78 40 63 23 tfor:TF2911|3end_hypothetical_protein_3106640..3106790_POSITIVE 339 90 41 78 20 tfor:TF2003|3end_dihydrofolate_reductase_2156427..2156577_POSITIVE 337 79 31 73 18 tfor:TF1917|3end_hypothetical_protein_2070244..2070394_POSITIVE 335 110 61 77 6 tfor:TF1720|3end_conserved_hypothetical_protein_1844376..1844526_POSITIVE 334 80 31 130 76 tfor:TF2347|3end_outer_membrane_protein,_TonB_dependent_receptor_2511092..2511242_POSITIVE 333 95 51 145 102 tfor:TF2386|3end_beta-galactosidase_2554449..2554599_POSITIVE 333 80 31 41 2 tfor:TF2000|3end_conserved_hypothetical_protein_2155483..2155633_POSITIVE 333 132 91 83 37 tfor:TF1838|3end_tRNA/rRNA_methyltransferase_1988745..1988895_POSITIVE 332 66 21 124 65 tfor:TF1744|3end_phenylacetate-CoA_ligase_1879218..1879368_POSITIVE 332 78 31 142 96 tfor:TF1443|3end_hypothetical_protein_1528203..1528353_POSITIVE