Origin IGS: atactcttgcagtattttggcagtgtgtgtagcccctgacgacataaagccatgcacgtaaacaagtttcttgttcaccattaagtcagggaaagtctttctgtattgattttccattgctgtgcagaaagtta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taactttctgcacagcaatggaaaatcaatacagaaagactttccctgacttaatggtgaacaagaaacttgtttacgtgcatggctttatgtcgtcaggggctacacacactgccaaaatactgcaagagtat Mask Tandem Repeat Region ================================================ atactcttgcagtattttggcagtgtgtgtagcccctgacgacataaagccatgcacgtaaacaagtttcttgttcaccattaagtcagggaaagtctttctgtattgattttccattgctgtgcagaaagtta Find is-nt database================================================ Query_seq: PI0203:PI0204|PI0203:PI0204:conserved hypothetical protein:dGTP triphosphohydrolase (deoxyguanosinetriphosphate triphosphohydrolase):->->:196125..196258 134 atactcttgcagtattttggcagtgtgtgtagcccctgacgacataaagccatgcacgtaaacaagtttcttgttcaccattaagtcagggaaagtctttctgtattgattttccattgctgtgcagaaagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0203:PI0204|PI0203:PI0204:conserved hypothetical protein:dGTP triphosphohydrolase (deoxyguanosinetriphosphate triphosphohydrolase):->->:196125..196258 134 atactcttgcagtattttggcagtgtgtgtagcccctgacgacataaagccatgcacgtaaacaagtttcttgttcaccattaagtcagggaaagtctttctgtattgattttccattgctgtgcagaaagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0203:PI0204|PI0203:PI0204:conserved hypothetical protein:dGTP triphosphohydrolase (deoxyguanosinetriphosphate triphosphohydrolase):->->:196125..196258 134 atactcttgcagtattttggcagtgtgtgtagcccctgacgacataaagccatgcacgtaaacaagtttcttgttcaccattaagtcagggaaagtctttctgtattgattttccattgctgtgcagaaagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atactcttgcagtattttggcagtgtgtgtagcccctgacgacataaagccatgcacgtaaacaagtttcttgttcaccattaagtcagggaaagtctttctgtattgattttccattgctgtgcagaaagtta Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: - Start: 1 End: 117 Y E Q L I K A T H T A G S S M F G H V Y V L K K N V M L D P F T K R Y Q N E M ................. atactcttgcagtattttggcagtgtgtgtagcccctgacgacataaagccatgcacgtaaacaagtttcttgttcaccattaagtcagggaaagtctttctgtattgattttccattgctgtgcagaaagtta 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================================================ atactcttgcagtattttggcagtgtgtgtagcccctgacgacataaagccatgcacgtaaacaagtttcttgttcaccattaagtcagggaaagtctttctgtattgattttccattgctgtgcagaaagtta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0203:PI0204|PI0203:PI0204:conserved hypothetical protein:dGTP triphosphohydrolase (deoxyguanosinetriphosphate triphosphohydrolase):->->:196125..196258 134 atactcttgcagtattttggcagtgtgtgtagcccctgacgacataaagccatgcacgtaaacaagtttcttgttcaccattaagtcagggaaagtctttctgtattgattttccattgctgtgcagaaagtta Intra-Species Hit: Count: 1 Min: 1 Max: 134 Len: 134 Subject: pint_PI0203_PI0204|conserved hypothetical protein:dGTP triphosphohydrolase (deoxyguanosinetriphosphate triphosphohydrolase)|POSITIVE:POSITIVE|[196125, 196258]|134 HSP 1 e-value: 2.0E-70 bit: 266.0 Len: 134 Query Start:1 Query End:134 Subject Strand: POSITIVE Subject Start: 1 Subject End: 134 atactcttgcagtattttggcagtgtgtgtagcccctgacgacataaagccatgcacgtaaacaagtttcttgttcaccattaagtcagggaaagtctttctgtattgattttccattgctgtgcagaaagtta atactcttgcagtattttggcagtgtgtgtagcccctgacgacataaagccatgcacgtaaacaagtttcttgttcaccattaagtcagggaaagtctttctgtattgattttccattgctgtgcagaaagtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUACUCUUGCAGUAUUUUGGCAGUGUGUGUAGCCCCUGACGACAUAAAGCCAUGCACGUAAACAAGUUUCUUGUUCACCAUUAAGUCAGGGAAAGUCUUUCUGUAUUGAUUUUCCAUUGCUGUGCAGAAAGUUA ((((.(((((.........)))).).))))...(((((((........((...))..((.((((((...)))))).))......))))))).....((((((((((...............))))))))))... (-32.26) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACUUUCUGCACAGCAAUGGAAAAUCAAUACAGAAAGACUUUCCCUGACUUAAUGGUGAACAAGAAACUUGUUUACGUGCAUGGCUUUAUGUCGUCAGGGGCUACACACACUGCCAAAAUACUGCAAGAGUAU ..(((((.((((......(((....((......)).......((((((((......(((((((((...)))))))))..(((((....))))).))))))))............)))......))))))))).. (-32.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 329 60 16 166 117 pint:PI1219|5end_UDP-N-acetylglucosamine_acyltransferase_1138529..1138759_POSITIVE 313 118 74 128 87 pint:PI0220|5end_conserved_hypothetical_protein_211980..212210_POSITIVE 308 52 17 99 62 pint:PI2057|5end_conserved_hypothetical_protein;_possible_metal-dependent_membrane_protease_2014939..2015169_POSITIVE 306 50 6 190 126 pint:PI0723|5end_conserved_hypothetical_protein_656043..656273_POSITIVE 306 57 15 124 81 pint:PI0108|5end_L-lactate_permease_104892..105122_POSITIVE 299 57 11 109 60 pint:PI2130|5end_DNA_polymerase_I_2077980..2078210_POSITIVE 288 58 11 68 18 pint:PI1586|5end_possible_HesA/MoeB/ThiF_family_protein_1514372..1514602_POSITIVE 282 58 11 150 94 pint:PI2109|5end_surface_antigen_BspA_2060553..2060783_POSITIVE 282 72 31 159 115 pint:PI0279|5end_hypothetical_protein_265600..265830_POSITIVE 281 50 3 218 180 pint:PI1531|5end_biotin--acetyl-CoA-carboxylase_ligase_1450839..1451069_POSITIVE 279 56 19 90 47 pint:PI0259|5end_conserved_protein_found_in_conjugation,_TraI_252355..252585_POSITIVE 276 60 13 217 175 pint:PI0634|5end_conserved_hypothetical_protein_580082..580312_POSITIVE 274 60 19 218 168 pint:PI2034|5end_conserved_hypothetical_protein_1987573..1987803_POSITIVE 274 58 22 68 32 pint:PI1388|5end_transcriptional_regulator,_LuxR_family_1309354..1309584_POSITIVE 273 44 1 60 3 pint:PI1306|5end_dipeptidyl_peptidase_IV_1220264..1220494_POSITIVE 272 56 19 44 11 pint:PI1933|5end_hypothetical_protein_1879925..1880155_POSITIVE 271 57 11 161 112 pint:PI1467|5end_conserved_hypothetical_protein_1393503..1393733_POSITIVE 271 45 1 161 118 pint:PI0817|5end_glycosyl_transferase,_group_1_family_protein_756861..757091_POSITIVE 270 42 7 79 39 pint:PI0555|5end_conserved_hypothetical_protein_504577..504807_POSITIVE 268 57 14 102 53 pint:PI1710|5end_ABC-type_permease_component_1626644..1626874_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 346 41 4 115 68 pint:PI1794|3end_conserved_hypothetical_protein_1726696..1726846_POSITIVE 324 37 7 150 115 pint:PI0110|3end_ABC_transport_system,_ATP-binding_protein_107920..108070_POSITIVE 313 118 74 105 64 pint:PI0219|3end_conserved_hypothetical_protein_212037..212187_POSITIVE 309 56 16 148 105 pint:PI1218|3end_UDP-3-O-acyl-N-acetylglucosamine_deacetylase_1138597..1138747_POSITIVE 298 50 7 127 88 pint:PI1400|3end_hypothetical_protein_1321908..1322058_POSITIVE 282 58 11 142 86 pint:PI2108|3end_cell_surface_protein;_possible_cell_surface_antigen_BspA_2060625..2060775_POSITIVE 282 72 31 104 60 pint:PI0278|3end_hypothetical_protein_265625..265775_POSITIVE 276 60 13 135 93 pint:PI0633|3end_possible_preprotein_translocase,_YajC_subunit_580080..580230_POSITIVE 274 58 22 51 15 pint:PI1387|3end_cardiolipin_synthetase_1309417..1309567_POSITIVE 271 45 1 140 97 pint:PI0816|3end_glycogen_debranching_enzyme_756920..757070_POSITIVE 268 57 14 65 16 pint:PI1709|3end_ABC_transporter,_ATP-binding_protein_1626687..1626837_POSITIVE 265 123 86 91 48 pint:PI0336|3end_hypothetical_protein_314806..314956_POSITIVE 261 79 31 75 22 pint:PI2103|3end_hypothetical_protein_2057934..2058084_POSITIVE 259 49 6 49 5 pint:PI1815|3end_polyphosphate-selective_porin_O_1754510..1754660_POSITIVE 259 59 11 79 18 pint:PI1455|3end_hypothetical_protein_1378963..1379113_POSITIVE 256 52 12 119 69 pint:PI1506|3end_S-adenosylmethionine:tRNA_ribosyltransferase-isomerase_(queuine_synthetase)_1426562..1426712_POSITIVE 256 59 11 97 55 pint:PI0704|3end_conserved_hypothetical_protein_641364..641514_POSITIVE 255 58 11 105 45 pint:PI1309|3end_excinuclease_ABC,_A_subunit_1226605..1226755_POSITIVE 254 129 84 137 83 pint:PI2014|3end_conserved_hypothetical_protein_1972603..1972753_POSITIVE 252 41 1 151 121 pint:PI0731|3end_conserved_hypothetical_protein_663673..663823_POSITIVE