Origin IGS: cgttgttttaccgtggtctacgtgcgcaattactgcgatgttcctaatatcttgcatttattatgtcttaagtccacactcaattgtggctgcaaaatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taattttgcagccacaattgagtgtggacttaagacataataaatgcaagatattaggaacatcgcagtaattgcgcacgtagaccacggtaaaacaacg Mask Tandem Repeat Region ================================================ cgttgttttaccgtggtctacgtgcgcaattactgcgatgttcctaatatcttgcatttattatgtcttaagtccacactcaattgtggctgcaaaatta Find is-nt database================================================ Query_seq: PI1501:PI1502|PI1501:PI1502:GTP-binding elongation factor family protein TypA/BipA:hypothetical protein:->->:1423307..1423406 100 cgttgttttaccgtggtctacgtgcgcaattactgcgatgttcctaatatcttgcatttattatgtcttaagtccacactcaattgtggctgcaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1501:PI1502|PI1501:PI1502:GTP-binding elongation factor family protein TypA/BipA:hypothetical protein:->->:1423307..1423406 100 cgttgttttaccgtggtctacgtgcgcaattactgcgatgttcctaatatcttgcatttattatgtcttaagtccacactcaattgtggctgcaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1501:PI1502|PI1501:PI1502:GTP-binding elongation factor family protein TypA/BipA:hypothetical protein:->->:1423307..1423406 100 cgttgttttaccgtggtctacgtgcgcaattactgcgatgttcctaatatcttgcatttattatgtcttaagtccacactcaattgtggctgcaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cgttgttttaccgtggtctacgtgcgcaattactgcgatgttcctaatatcttgcatttattatgtcttaagtccacactcaattgtggctgcaaaatta Predict ORF larger than 30AA ================================================ cgttgttttaccgtggtctacgtgcgcaattactgcgatgttcctaatatcttgcatttattatgtcttaagtccacactcaattgtggctgcaaaatta 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================================================ cgttgttttaccgtggtctacgtgcgcaattactgcgatgttcctaatatcttgcatttattatgtcttaagtccacactcaattgtggctgcaaaatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1501:PI1502|PI1501:PI1502:GTP-binding elongation factor family protein TypA/BipA:hypothetical protein:->->:1423307..1423406 100 cgttgttttaccgtggtctacgtgcgcaattactgcgatgttcctaatatcttgcatttattatgtcttaagtccacactcaattgtggctgcaaaatta Intra-Species Hit: Count: 1 Min: 1 Max: 100 Len: 100 Subject: pint_PI1501_PI1502|GTP-binding elongation factor family protein TypA/BipA:hypothetical protein|POSITIVE:POSITIVE|[1423307,1423406]|100 HSP 1 e-value: 2.0E-50 bit: 198.0 Len: 100 Query Start:1 Query End:100 Subject Strand: POSITIVE Subject Start: 1 Subject End: 100 cgttgttttaccgtggtctacgtgcgcaattactgcgatgttcctaatatcttgcatttattatgtcttaagtccacactcaattgtggctgcaaaatta cgttgttttaccgtggtctacgtgcgcaattactgcgatgttcctaatatcttgcatttattatgtcttaagtccacactcaattgtggctgcaaaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGUUGUUUUACCGUGGUCUACGUGCGCAAUUACUGCGAUGUUCCUAAUAUCUUGCAUUUAUUAUGUCUUAAGUCCACACUCAAUUGUGGCUGCAAAAUUA ..............((...((((.((((.....)))))))).)).......(((((....(((.....)))..(((((......))))).)))))..... (-16.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUUGCAGCCACAAUUGAGUGUGGACUUAAGACAUAAUAAAUGCAAGAUAUUAGGAACAUCGCAGUAAUUGCGCACGUAGACCACGGUAAAACAACG ..((((((((.(((((......))))).................))))))))....((.((..(((((...)))))...))...)).............. (-15.97) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 414 42 5 52 15 pint:PI0438|5end_elongation_factor_Tu_409037..409267_POSITIVE 346 38 5 64 25 pint:PI0715|5end_hypothetical_protein_652311..652541_POSITIVE 310 55 12 88 42 pint:PI0800|5end_alanyl-tRNA_synthetase_(alanine--tRNA_ligase)_738868..739098_POSITIVE 290 56 11 174 130 pint:PI2121|5end_glucose_inhibited_division_protein_A_2069889..2070119_POSITIVE 286 67 22 73 31 pint:PI0260|5end_conjugative_transposon_protein,_TraJ_253023..253253_POSITIVE 284 40 1 55 14 pint:PI1003|5end_conserved_hypothetical_protein_924694..924924_POSITIVE 284 67 21 79 26 pint:PI0945|5end_sodium:solute_symporter_family_protein_876249..876479_POSITIVE 271 58 13 174 125 pint:PI1638|5end_conserved_hypothetical_protein_1555337..1555567_POSITIVE 271 55 21 71 31 pint:PI1637|5end_hypothetical_protein_1554500..1554730_POSITIVE 263 57 11 91 29 pint:PI2160|5end_hypothetical_protein_2107270..2107500_POSITIVE 260 68 22 57 21 pint:PI0617|5end_electron_transfer_flavoprotein,_alpha_subunit_566367..566597_POSITIVE 258 46 1 138 89 pint:PI0414|5end_hypothetical_protein_384327..384557_POSITIVE 253 60 13 198 141 pint:PI0235|5end_hypothetical_protein_234938..235168_POSITIVE 251 54 11 229 170 pint:PI2177|5end_phosphoribosylaminoimidazole_carboxylase_2117127..2117357_POSITIVE 251 56 11 193 150 pint:PI1767|5end_fructokinase,_pfkB_family_1694285..1694515_POSITIVE 249 45 3 42 1 pint:PI0267|5end_conjugative_transposon_protein,_TraQ_258786..259016_POSITIVE 248 43 14 89 63 pint:PI0548|5end_possible_acetylxylan_esterase_499532..499762_POSITIVE 247 46 2 177 144 pint:PI0264|5end_transfer_region-related_protein,_TraN_256494..256724_POSITIVE 247 43 1 72 23 pint:PI0038|5end_transcriptional_regulator,_LysR_family_39578..39808_POSITIVE 245 59 11 222 164 pint:PI1531|5end_biotin--acetyl-CoA-carboxylase_ligase_1450839..1451069_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 330 43 1 117 72 pint:PI0692|3end_iron_compound_ABC_transporter,_permease_protein_628269..628419_POSITIVE 303 40 1 61 10 pint:PI1943|3end_hypothetical_protein_1902206..1902356_POSITIVE 299 55 12 136 96 pint:PI1493|3end_conserved_hypothetical_protein_1412818..1412968_POSITIVE 292 44 1 120 70 pint:PI1807|3end_hypothetical_protein_1742481..1742631_POSITIVE 288 55 11 137 81 pint:PI0674|3end_conserved_hypothetical_protein_616154..616304_POSITIVE 287 45 1 142 89 pint:PI0584|3end_hypothetical_protein_527656..527806_POSITIVE 263 57 11 112 50 pint:PI2159|3end_immunoreactive_84_kDa_antigen_PG93_2107371..2107521_POSITIVE 260 68 22 50 14 pint:PI0616|3end_electron_transfer_flavoprotein,_beta-subunit_566440..566590_POSITIVE 254 56 13 149 103 pint:PI0780|3end_DNA_gyrase,_subunit_A_(DNA_topoisomerase_(ATP-hydrolyzing))_718513..718663_POSITIVE 249 50 2 92 46 pint:PI1466|3end_GTP-binding_protein,_possible_GTP1/OBG_family_1393133..1393283_POSITIVE 248 44 1 80 22 pint:PI0365|3end_hypothetical_protein_336118..336268_POSITIVE 245 55 11 55 2 pint:PI0624|3end_hypothetical_protein_574471..574621_POSITIVE 244 36 2 40 4 pint:PI0739|3end_conserved_hypothetical_protein_672161..672311_POSITIVE 244 55 11 88 40 pint:PI0539|3end_hypothetical_protein_493728..493878_POSITIVE 242 55 12 101 60 pint:PI1547|3end_hypothetical_protein_1466226..1466376_POSITIVE 236 44 1 51 13 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 236 69 21 140 99 pint:PI0798|3end_malonyl_CoA-acyl_carrier_protein_transacylase_736975..737125_POSITIVE 236 59 11 77 36 pint:PI0338|3end_hypothetical_protein_315713..315863_POSITIVE 236 46 20 134 103 pint:PI0184|3end_possible_fibronectin_type_III_domain_protein_176516..176666_POSITIVE 235 63 25 46 15 pint:PI0984|3end_hypothetical_protein_910144..910294_POSITIVE