Origin IGS: attttatttgttgtattgcgattttaattgaacaattgttattatttgatttaaaaaaacgcagactgtccctgtcgaacagtcagtcgggttatttccgaacaagcagagacacccctgatttggttcttattttcttctctatatcatacgcctccctcctatctttaaaggtttatatatttgttaatctgtttgaacatca .........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 tgatgttcaaacagattaacaaatatataaacctttaaagataggagggaggcgtatgatatagagaagaaaataagaaccaaatcaggggtgtctctgcttgttcggaaataacccgactgactgttcgacagggacagtctgcgtttttttaaatcaaataataacaattgttcaattaaaatcgcaatacaacaaataaaat Mask Tandem Repeat Region ================================================ attttatttgttgtattgcgattttaattgaacaattgttattatttgatttaaaaaaacgcagactgtccctgtcgaacagtcagtcgggttatttccgaacaagcagagacacccctgatttggttcttattttcttctctatatcatacgcctccctcctatctttaaaggtttatatatttgttaatctgtttgaacatca Find is-nt database================================================ Query_seq: TF0588:TF0589|TF0588:TF0589:outer membrane protein:anti-sigma factor:->->:623481..623685 205 attttatttgttgtattgcgattttaattgaacaattgttattatttgatttaaaaaaacgcagactgtccctgtcgaacagtcagtcgggttatttccgaacaagcagagacacccctgatttggttcttattttcttctctatatcatacgcctccctcctatctttaaaggtttatatatttgttaatctgtttgaacatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0588:TF0589|TF0588:TF0589:outer membrane protein:anti-sigma factor:->->:623481..623685 205 attttatttgttgtattgcgattttaattgaacaattgttattatttgatttaaaaaaacgcagactgtccctgtcgaacagtcagtcgggttatttccgaacaagcagagacacccctgatttggttcttattttcttctctatatcatacgcctccctcctatctttaaaggtttatatatttgttaatctgtttgaacatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0588:TF0589|TF0588:TF0589:outer membrane protein:anti-sigma factor:->->:623481..623685 205 attttatttgttgtattgcgattttaattgaacaattgttattatttgatttaaaaaaacgcagactgtccctgtcgaacagtcagtcgggttatttccgaacaagcagagacacccctgatttggttcttattttcttctctatatcatacgcctccctcctatctttaaaggtttatatatttgttaatctgtttgaacatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attttatttgttgtattgcgattttaattgaacaattgttattatttgatttaaaaaaacgcagactgtccctgtcgaacagtcagtcgggttatttccgaacaagcagagacacccctgatttggttcttattttcttctctatatcatacgcctccctcctatctttaaaggtttatatatttgttaatctgtttgaacatca Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 6 End: 203 ..... M C C I A I L I E Q L L L F D L K K R R L S L S N S Q S G Y F R T S R D T P D L V L I F F S I S Y A S L L S L K V Y I F .. Protein_Len: 33 Strand: - Start: 7 End: 105 ...... K N Y Q S K L Q V I T I I Q N L F V C V T G T S C D T P N N G F M .................................................................................................... attttatttgttgtattgcgattttaattgaacaattgttattatttgatttaaaaaaacgcagactgtccctgtcgaacagtcagtcgggttatttccgaacaagcagagacacccctgatttggttcttattttcttctctatatcatacgcctccctcctatctttaaaggtttatatatttgttaatctgtttgaacatca 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================================================ attttatttgttgtattgcgattttaattgaacaattgttattatttgatttaaaaaaacgcagactgtccctgtcgaacagtcagtcgggttatttccgaacaagcagagacacccctgatttggttcttattttcttctctatatcatacgcctccctcctatctttaaaggtttatatatttgttaatctgtttgaacatca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 83 HP_score: -5.0 Tail_Score: -5.47218 Start: 60 End: 89 Full_Region: tgttcggaaataacc cgactgactgttc gacag ggacagtctgcg tttttttaaatcaaa ...........................................................cgactgactgttcgacagggacagtctgcg.................................................................................................................... Find igs database================================================ Query_seq: TF0588:TF0589|TF0588:TF0589:outer membrane protein:anti-sigma factor:->->:623481..623685 205 attttatttgttgtattgcgattttaattgaacaattgttattatttgatttaaaaaaacgcagactgtccctgtcgaacagtcagtcgggttatttccgaacaagcagagacacccctgatttggttcttattttcttctctatatcatacgcctccctcctatctttaaaggtttatatatttgttaatctgtttgaacatca Intra-Species Hit: Count: 1 Min: 1 Max: 205 Len: 205 Subject: tfor_TF0588_TF0589|outer membrane protein:anti-sigma factor|POSITIVE:POSITIVE|[623481,623685]|205 HSP 1 e-value: 1.0E-100 bit: 365.0 Len: 205 Query Start:1 Query End:205 Subject Strand: POSITIVE Subject Start: 1 Subject End: 205 attttatttgttgtattgcgattttaattgaacaattgttattatttgatttnnnnnnncgcagactgtccctgtcgaacagtcagtcgggttatttccgaacaagcagagacacccctgatttggttcttattttcttctctatatcatacgcctccctcctatctttaaaggtttatatatttgttaatctgtttgaacatca attttatttgttgtattgcgattttaattgaacaattgttattatttgatttaaaaaaacgcagactgtccctgtcgaacagtcagtcgggttatttccgaacaagcagagacacccctgatttggttcttattttcttctctatatcatacgcctccctcctatctttaaaggtttatatatttgttaatctgtttgaacatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUUAUUUGUUGUAUUGCGAUUUUAAUUGAACAAUUGUUAUUAUUUGAUUUAAAAAAACGCAGACUGUCCCUGUCGAACAGUCAGUCGGGUUAUUUCCGAACAAGCAGAGACACCCCUGAUUUGGUUCUUAUUUUCUUCUCUAUAUCAUACGCCUCCCUCCUAUCUUUAAAGGUUUAUAUAUUUGUUAAUCUGUUUGAACAUCA ................((((.(((((((..((.(((....))).))..)))...)))).))))((((((.(.....).))))))..(((((.....))))).((((((((((((..((......)).................((((.(((.((((...............)))).))))))).))))..))))))))....... (-33.36) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUGUUCAAACAGAUUAACAAAUAUAUAAACCUUUAAAGAUAGGAGGGAGGCGUAUGAUAUAGAGAAGAAAAUAAGAACCAAAUCAGGGGUGUCUCUGCUUGUUCGGAAAUAACCCGACUGACUGUUCGACAGGGACAGUCUGCGUUUUUUUAAAUCAAAUAAUAACAAUUGUUCAAUUAAAAUCGCAAUACAACAAAUAAAAU ...((((........................(((((........)))))..(((..((((.((((((((..................(((.(((.((((......)))).))).)))....((((((((.....))))))))....)))))))).))))..(((((((....)))..))))....))).....))))........ (-35.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 380 102 61 78 26 tfor:TF2672|5end_lipoic_acid_synthetase_2846086..2846316_POSITIVE 367 129 82 169 123 tfor:TF0013|5end_conserved_hypothetical_protein;_possible_TPR-repeat-containing_protein_6414..6644_POSITIVE 361 93 60 223 192 tfor:TF2317|5end_3-oxoacyl-[acyl-carrier-protein]_synthase_II_2474418..2474648_POSITIVE 350 116 74 187 148 tfor:TF2670|5end_hypothetical_protein_2842779..2843009_POSITIVE 337 108 61 129 88 tfor:TF0289|5end_conserved_hypothetical_protein_318015..318245_POSITIVE 333 107 62 170 120 tfor:TF1333|5end_probable_acylaminoacyl_peptidase;_alanyl_dipeptidyl_peptidase_1413397..1413627_POSITIVE 330 108 61 210 165 tfor:TF2770|5end_conserved_hypothetical_protein_2956308..2956538_POSITIVE 330 120 72 153 98 tfor:TF0789|5end_preprotein_translocase,_secDF_family_841293..841523_POSITIVE 330 109 61 46 6 tfor:TF0610|5end_conserved_hypothetical_protein;_possible_phosphatidylglycerophosphate_synthase_643460..643690_POSITIVE 327 110 61 91 35 tfor:TF2665|5end_hypothetical_protein_2841973..2842203_POSITIVE 327 103 69 139 104 tfor:TF2237|5end_two-component_system_response_regulator_involved_in_CTn_2412494..2412724_POSITIVE 326 130 81 151 98 tfor:TF2831|5end_ABC_transporter,_permease_component_3021317..3021547_POSITIVE 326 126 86 141 101 tfor:TF0961|5end_translation_initiation_inhibitor,_endoribonuclease_activity_1010445..1010675_POSITIVE 323 126 88 48 17 tfor:TF1682|5end_hydrolase_1796409..1796639_POSITIVE 322 130 85 210 172 tfor:TF2666|5end_hypothetical_protein_2841818..2842048_POSITIVE 322 108 61 187 141 tfor:TF2487|5end_transposase_2663010..2663240_POSITIVE 321 120 72 65 6 tfor:TF1534|5end_conserved_hypothetical_protein_1639485..1639715_POSITIVE 320 140 95 222 176 tfor:TF2653|5end_hypothetical_protein_2822093..2822323_POSITIVE 319 117 74 62 15 tfor:TF2021|5end_hypothetical_protein_2177702..2177932_POSITIVE 315 109 61 172 120 tfor:TF0595|5end_hypothetical_protein_627820..628050_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 380 102 61 75 23 tfor:TF2671|3end_dipeptidyl_peptidase_IV_(DPP_IV)_N-terminal_region_2846163..2846313_POSITIVE 350 116 74 61 22 tfor:TF2668|3end_hypothetical_protein_2842733..2842883_POSITIVE 337 108 61 133 92 tfor:TF0288|3end_conserved_hypothetical_protein_318099..318249_POSITIVE 330 120 72 150 95 tfor:TF0788|3end_protein-export_membrane_protein_841370..841520_POSITIVE 327 103 69 143 108 tfor:TF2236|3end_two-component_system_histidine_kinase_involved_in_CTn_2412578..2412728_POSITIVE 326 126 86 122 82 tfor:TF0960|3end_beta-galactosidase_1010506..1010656_POSITIVE 323 126 88 70 39 tfor:TF1683|3end_conserved_hypothetical_protein_1796511..1796661_POSITIVE 322 130 85 42 4 tfor:TF2667|3end_hypothetical_protein_2842705..2842855_POSITIVE 322 130 85 42 4 tfor:TF2664|3end_hypothetical_protein_2841730..2841880_POSITIVE 320 140 95 63 17 tfor:TF2651|3end_hypothetical_protein_2822014..2822164_POSITIVE 314 107 68 121 67 tfor:TF1262|3end_PDZ_domain_protein_1348831..1348981_POSITIVE 298 130 85 42 4 tfor:TF2665|3end_hypothetical_protein_2842235..2842385_POSITIVE 298 130 85 70 32 tfor:TF2666|3end_hypothetical_protein_2842263..2842413_POSITIVE 297 109 63 42 3 tfor:TF2442|3end_heat_shock_protein_60_2620271..2620421_POSITIVE 292 100 60 130 93 tfor:TF3021|3end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_3246194..3246344_POSITIVE 292 98 59 75 30 tfor:TF0235|3end_hypothetical_protein_261849..261999_POSITIVE 290 129 86 68 18 tfor:TF2996|3end_hypothetical_protein_3211121..3211271_POSITIVE 289 100 65 139 100 tfor:TF2607|3end_conserved_hypothetical_protein_2784645..2784795_POSITIVE 286 93 59 67 30 tfor:TF1129|3end_possible_lantibiotic_biosynthesis_protein_1205477..1205627_POSITIVE 285 115 71 79 36 tfor:TF1880|3end_transposase_2033405..2033555_POSITIVE