Origin IGS: attctcttaccattaagattaaaactccgagccgtatttccgagtcattgcccaaagccggtctttgtttatcgttagcaggatatgcgatttccagatgtccatgagatgattggctgttttgtagagccccggtta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaccggggctctacaaaacagccaatcatctcatggacatctggaaatcgcatatcctgctaacgataaacaaagaccggctttgggcaatgactcggaaatacggctcggagttttaatcttaatggtaagagaat Mask Tandem Repeat Region ================================================ attctcttaccattaagattaaaactccgagccgtatttccgagtcattgcccaaagccggtctttgtttatcgttagcaggatatgcgatttccagatgtccatgagatgattggctgttttgtagagccccggtta Find is-nt database================================================ Query_seq: TF2918:TF2919|TF2918:TF2919:hypothetical protein:5'-nucleotidase family protein:->->:3114443..3114580 138 attctcttaccattaagattaaaactccgagccgtatttccgagtcattgcccaaagccggtctttgtttatcgttagcaggatatgcgatttccagatgtccatgagatgattggctgttttgtagagccccggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2918:TF2919|TF2918:TF2919:hypothetical protein:5'-nucleotidase family protein:->->:3114443..3114580 138 attctcttaccattaagattaaaactccgagccgtatttccgagtcattgcccaaagccggtctttgtttatcgttagcaggatatgcgatttccagatgtccatgagatgattggctgttttgtagagccccggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2918:TF2919|TF2918:TF2919:hypothetical protein:5'-nucleotidase family protein:->->:3114443..3114580 138 attctcttaccattaagattaaaactccgagccgtatttccgagtcattgcccaaagccggtctttgtttatcgttagcaggatatgcgatttccagatgtccatgagatgattggctgttttgtagagccccggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attctcttaccattaagattaaaactccgagccgtatttccgagtcattgcccaaagccggtctttgtttatcgttagcaggatatgcgatttccagatgtccatgagatgattggctgttttgtagagccccggtta Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 12 End: 104 ........... M K I K T P S R I S E S L P K A G L C L S L A G Y A I S R C P .................................. Protein_Len: 32 Strand: - Start: 2 End: 97 . E R V M L I L V G L R I E S D N G L A P R Q K D N A P Y A I E M ......................................... attctcttaccattaagattaaaactccgagccgtatttccgagtcattgcccaaagccggtctttgtttatcgttagcaggatatgcgatttccagatgtccatgagatgattggctgttttgtagagccccggtta 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================================================ attctcttaccattaagattaaaactccgagccgtatttccgagtcattgcccaaagccggtctttgtttatcgttagcaggatatgcgatttccagatgtccatgagatgattggctgttttgtagagccccggtta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 59 HP_score: -4.3 Tail_Score: -4.05446 Start: 53 End: 67 Full_Region: TTCCGAGTCATTGCC CAAAG CCGGT CTTTG TTTATCGTTAGCAGG ....................................................CAAAGCCGGTCTTTG....................................................................... Find igs database================================================ Query_seq: TF2918:TF2919|TF2918:TF2919:hypothetical protein:5'-nucleotidase family protein:->->:3114443..3114580 138 attctcttaccattaagattaaaactccgagccgtatttccgagtcattgcccaaagccggtctttgtttatcgttagcaggatatgcgatttccagatgtccatgagatgattggctgttttgtagagccccggtta Intra-Species Hit: Count: 1 Min: 1 Max: 138 Len: 138 Subject: tfor_TF2918_TF2919|hypothetical protein:5'-nucleotidase family protein|POSITIVE:POSITIVE|[3114443,3114580]|138 HSP 1 e-value: 7.0E-73 bit: 274.0 Len: 138 Query Start:1 Query End:138 Subject Strand: POSITIVE Subject Start: 1 Subject End: 138 attctcttaccattaagattaaaactccgagccgtatttccgagtcattgcccaaagccggtctttgtttatcgttagcaggatatgcgatttccagatgtccatgagatgattggctgttttgtagagccccggtta attctcttaccattaagattaaaactccgagccgtatttccgagtcattgcccaaagccggtctttgtttatcgttagcaggatatgcgatttccagatgtccatgagatgattggctgttttgtagagccccggtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUCUCUUACCAUUAAGAUUAAAACUCCGAGCCGUAUUUCCGAGUCAUUGCCCAAAGCCGGUCUUUGUUUAUCGUUAGCAGGAUAUGCGAUUUCCAGAUGUCCAUGAGAUGAUUGGCUGUUUUGUAGAGCCCCGGUUA ....(((((....))))).....((((.(((......))).))))..........((((((.........((((((..((((((((.(........))))))).)).)))))).((((.(.....).)))))))))). (-28.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACCGGGGCUCUACAAAACAGCCAAUCAUCUCAUGGACAUCUGGAAAUCGCAUAUCCUGCUAACGAUAAACAAAGACCGGCUUUGGGCAAUGACUCGGAAAUACGGCUCGGAGUUUUAAUCUUAAUGGUAAGAGAAU .......((((.........)))).....((((.((..(((..(((....((.((((........))))..(((((.....))))).))...(((((.((........)).)))))....)))..))).)).)))).. (-25.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 364 80 31 125 77 tfor:TF0265|5end_conserved_hypothetical_protein,_Rhs_family_293279..293509_POSITIVE 361 98 56 208 174 tfor:TF2224|5end_CTn_excision_protein_2394592..2394822_POSITIVE 353 68 27 69 17 tfor:TF2449|5end_undecaprenyl_diphosphate_synthase_2625718..2625948_POSITIVE 349 100 57 61 17 tfor:TF1067|5end_conserved_hypothetical_protein_1136867..1137097_POSITIVE 343 61 27 140 106 tfor:TF1623|5end_5-formyltetrahydrofolate_cyclo-ligase_1736698..1736928_POSITIVE 342 62 21 195 145 tfor:TF1224|5end_hypothetical_protein_1311203..1311433_POSITIVE 341 89 41 210 166 tfor:TF1179|5end_two-component_sensor_histidine_kinase_1266057..1266287_POSITIVE 340 80 31 66 21 tfor:TF2450|5end_outer_membrane_protein_2626471..2626701_POSITIVE 338 79 33 99 44 tfor:TF0580|5end_A/G-specific_adenine_glycosylase_610162..610392_POSITIVE 337 62 25 74 40 tfor:TF2114|5end_1-hydroxy-2-methyl-2-(E)-butenyl_4-diphosphate_synthase,_GcpE_2283006..2283236_POSITIVE 336 120 71 124 80 tfor:TF1181|5end_methylated-DNA--[protein]-cysteine_S-methyltransferase_1267522..1267752_POSITIVE 333 100 51 208 149 tfor:TF0971|5end_conserved_hypothetical_protein_1021355..1021585_POSITIVE 329 89 44 65 24 tfor:TF1513|5end_hypothetical_protein_1624894..1625124_POSITIVE 324 80 32 153 87 tfor:TF0595|5end_hypothetical_protein_627820..628050_POSITIVE 323 128 84 146 93 tfor:TF2392|5end_alpha-galactosidase_2563384..2563614_POSITIVE 323 79 31 54 6 tfor:TF2240|5end__tetracycline_resistance_element_mobilization_regulatory_protein_2414723..2414953_POSITIVE 323 61 28 230 195 tfor:TF0037|5end_sialic_acid-specific_9-O-acetylesterase_37836..38066_POSITIVE 321 97 53 155 116 tfor:TF1088|5end_transposase_fragment_1158060..1158290_POSITIVE 320 62 24 50 13 tfor:TF2196|5end_hypothetical_protein_2371678..2371908_POSITIVE 320 90 41 190 138 tfor:TF1406|5end_transposase_1481758..1481988_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 344 66 27 54 16 tfor:TF1109|3end_lipoprotein_1179997..1180147_POSITIVE 343 61 27 125 91 tfor:TF1622|3end_conserved_hypothetical_protein_1736763..1736913_POSITIVE 340 80 31 56 11 tfor:TF2449|3end_undecaprenyl_diphosphate_synthase_2626541..2626691_POSITIVE 337 62 25 74 40 tfor:TF2113|3end_phosphoribosylaminoimidazole_carboxylase_2283086..2283236_POSITIVE 323 128 84 146 93 tfor:TF2391|3end_conserved_hypothetical_protein_2563464..2563614_POSITIVE 319 80 33 150 113 tfor:TF1405|3end_conserved_hypothetical_protein_1481819..1481969_POSITIVE 319 60 14 135 95 tfor:TF1162|3end_Na+/H+_antiporter_1242843..1242993_POSITIVE 316 76 31 59 1 tfor:TF2448|3end_conserved_hypothetical_protein_2625779..2625929_POSITIVE 311 79 31 41 2 tfor:TF2239|3end_hypothetical_protein_2414790..2414940_POSITIVE 310 100 52 144 97 tfor:TF1532|3end_potassium_uptake_system_protein_1639415..1639565_POSITIVE 307 65 24 71 24 tfor:TF1367|3end_hypothetical_protein_1447272..1447422_POSITIVE 307 65 24 67 20 tfor:TF1368|3end_hypothetical_protein_1447268..1447418_POSITIVE 306 118 73 149 102 tfor:TF2036|3end_possible_pyruvate_formate-lyase_activating_enzyme_2196837..2196987_POSITIVE 304 80 33 86 32 tfor:TF3039|3end_ABC_transporter,_ATP-binding_protein_3267697..3267847_POSITIVE 304 63 29 49 13 tfor:TF2275|3end_conserved_hypothetical_protein_2438300..2438450_POSITIVE 299 90 54 68 36 tfor:TF1903|3end_hypothetical_protein_2057627..2057777_POSITIVE 299 119 72 84 28 tfor:TF0788|3end_protein-export_membrane_protein_841370..841520_POSITIVE 299 63 26 43 4 tfor:TF0037|3end_sialic_acid-specific_9-O-acetylesterase_39991..40141_POSITIVE 296 119 73 64 23 tfor:TF0599|3end_hypothetical_protein_630130..630280_POSITIVE 295 68 24 146 85 tfor:TF2314|3end_conserved_hypothetical_protein_2474044..2474194_POSITIVE