Origin IGS: tagttttgtgatatttcttgatattctgttgtcaaacataagaaaatgcgtaaaagtttatgtaggtattaatattttcattatttttgttttcagccaatgtgtgttaagcattaagtgttgaattggttgctttaggtaaaggtggaaatgttttatatcataaattgatatttaaaataaactaaattactaattttcggtgggctttttaatagtttctccgacatctaaacagttacgtt .........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 aacgtaactgtttagatgtcggagaaactattaaaaagcccaccgaaaattagtaatttagtttattttaaatatcaatttatgatataaaacatttccacctttacctaaagcaaccaattcaacacttaatgcttaacacacattggctgaaaacaaaaataatgaaaatattaatacctacataaacttttacgcattttcttatgtttgacaacagaatatcaagaaatatcacaaaacta Mask Tandem Repeat Region ================================================ tagttttgtgatatttcttgatattctgttgtcaaacataagaaaatgcgtaaaagtttatgtaggtattaatattttcattatttttgttttcagccaatgtgtgttaagcattaagtgttgaattggttgctttaggtaaaggtggaaatgttttatatcataaattgatatttaaaataaactaaattactaattttcggtgggctttttaatagtttctccgacatctaaacagttacgtt Find is-nt database================================================ Query_seq: PI0451:PI0452|PI0451:PI0452:serine proteases, S51 group:conserved hypothetical protein; possible surface antigen:->->:425188..425432 245 tagttttgtgatatttcttgatattctgttgtcaaacataagaaaatgcgtaaaagtttatgtaggtattaatattttcattatttttgttttcagccaatgtgtgttaagcattaagtgttgaattggttgctttaggtaaaggtggaaatgttttatatcataaattgatatttaaaataaactaaattactaattttcggtgggctttttaatagtttctccgacatctaaacagttacgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0451:PI0452|PI0451:PI0452:serine proteases, S51 group:conserved hypothetical protein; possible surface antigen:->->:425188..425432 245 tagttttgtgatatttcttgatattctgttgtcaaacataagaaaatgcgtaaaagtttatgtaggtattaatattttcattatttttgttttcagccaatgtgtgttaagcattaagtgttgaattggttgctttaggtaaaggtggaaatgttttatatcataaattgatatttaaaataaactaaattactaattttcggtgggctttttaatagtttctccgacatctaaacagttacgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0451:PI0452|PI0451:PI0452:serine proteases, S51 group:conserved hypothetical protein; possible surface antigen:->->:425188..425432 245 tagttttgtgatatttcttgatattctgttgtcaaacataagaaaatgcgtaaaagtttatgtaggtattaatattttcattatttttgttttcagccaatgtgtgttaagcattaagtgttgaattggttgctttaggtaaaggtggaaatgttttatatcataaattgatatttaaaataaactaaattactaattttcggtgggctttttaatagtttctccgacatctaaacagttacgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagttttgtgatatttcttgatattctgttgtcaaacataagaaaatgcgtaaaagtttatgtaggtattaatattttcattatttttgttttcagccaatgtgtgttaagcattaagtgttgaattggttgctttaggtaaaggtggaaatgttttatatcataaattgatatttaaaataaactaaattactaattttcggtgggctttttaatagtttctccgacatctaaacagttacgtt Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 8 End: 121 ....... M I F L D I L L S N I R K C V K V Y V G I N I F I I F V F S Q C V L S I K C ............................................................................................................................ Protein_Len: 38 Strand: - Start: 61 End: 174 ............................................................ T P I L I K M I K T K L W H T N L M L H Q I P Q K L Y L H F H K I D Y I S M ....................................................................... tagttttgtgatatttcttgatattctgttgtcaaacataagaaaatgcgtaaaagtttatgtaggtattaatattttcattatttttgttttcagccaatgtgtgttaagcattaagtgttgaattggttgctttaggtaaaggtggaaatgttttatatcataaattgatatttaaaataaactaaattactaattttcggtgggctttttaatagtttctccgacatctaaacagttacgtt 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================================================ tagttttgtgatatttcttgatattctgttgtcaaacataagaaaatgcgtaaaagtttatgtaggtattaatattttcattatttttgttttcagccaatgtgtgttaagcattaagtgttgaattggttgctttaggtaaaggtggaaatgttttatatcataaattgatatttaaaataaactaaattactaattttcggtgggctttttaatagtttctccgacatctaaacagttacgtt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 46 HP_score: -2.9 Tail_Score: -3.60627 Start: 159 End: 173 Full_Region: GGTGGAAATGTTTTA TATCA TAAAT TGATA TTTAAAATAAACTAA ..............................................................................................................................................................TATCATAAATTGATA........................................................................ Find igs database================================================ Query_seq: PI0451:PI0452|PI0451:PI0452:serine proteases, S51 group:conserved hypothetical protein; possible surface antigen:->->:425188..425432 245 tagttttgtgatatttcttgatattctgttgtcaaacataagaaaatgcgtaaaagtttatgtaggtattaatattttcattatttttgttttcagccaatgtgtgttaagcattaagtgttgaattggttgctttaggtaaaggtggaaatgttttatatcataaattgatatttaaaataaactaaattactaattttcggtgggctttttaatagtttctccgacatctaaacagttacgtt Intra-Species Hit: Count: 1 Min: 1 Max: 245 Len: 245 Subject: pint_PI0451_PI0452|serine proteases, S51 group:conserved hypothetical protein; possible surface antigen|POSITIVE:POSITIVE|[425188,425432]|245 HSP 1 e-value: 1.0E-136 bit: 486.0 Len: 245 Query Start:1 Query End:245 Subject Strand: POSITIVE Subject Start: 1 Subject End: 245 tagttttgtgatatttcttgatattctgttgtcaaacataagaaaatgcgtaaaagtttatgtaggtattaatattttcattatttttgttttcagccaatgtgtgttaagcattaagtgttgaattggttgctttaggtaaaggtggaaatgttttatatcataaattgatatttaaaataaactaaattactaattttcggtgggctttttaatagtttctccgacatctaaacagttacgtt tagttttgtgatatttcttgatattctgttgtcaaacataagaaaatgcgtaaaagtttatgtaggtattaatattttcattatttttgttttcagccaatgtgtgttaagcattaagtgttgaattggttgctttaggtaaaggtggaaatgttttatatcataaattgatatttaaaataaactaaattactaattttcggtgggctttttaatagtttctccgacatctaaacagttacgtt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUUUUGUGAUAUUUCUUGAUAUUCUGUUGUCAAACAUAAGAAAAUGCGUAAAAGUUUAUGUAGGUAUUAAUAUUUUCAUUAUUUUUGUUUUCAGCCAAUGUGUGUUAAGCAUUAAGUGUUGAAUUGGUUGCUUUAGGUAAAGGUGGAAAUGUUUUAUAUCAUAAAUUGAUAUUUAAAAUAAACUAAAUUACUAAUUUUCGGUGGGCUUUUUAAUAGUUUCUCCGACAUCUAAACAGUUACGUU ...(((((((.......((((((......)))))).)))))))....((((((..(((((....((((..(((((((((((...(((((..(.((((((((..(..((........))..)...))))))))....)..))))))))))))))))..((((((.....))))))................)))).....((((.(((((.......)))))..))))....)))))..)))))). (-43.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACGUAACUGUUUAGAUGUCGGAGAAACUAUUAAAAAGCCCACCGAAAAUUAGUAAUUUAGUUUAUUUUAAAUAUCAAUUUAUGAUAUAAAACAUUUCCACCUUUACCUAAAGCAACCAAUUCAACACUUAAUGCUUAACACACAUUGGCUGAAAACAAAAAUAAUGAAAAUAUUAAUACCUACAUAAACUUUUACGCAUUUUCUUAUGUUUGACAACAGAAUAUCAAGAAAUAUCACAAAACUA ..(((((..(((((....((((.(................).))))..(((((((.(((...(((((((..((((((.....))))))......((((..((........(((((.................)))))..........))..))))...)))))))..))).))))))).......)))))..)))))...((((((((((((.......)))))).))))))............. (-31.29) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 288 238 202 33 1 pint:PI0390|5end_conserved_hypothetical_protein_357316..357546_POSITIVE 287 139 91 148 98 pint:PI0844|5end_cytidine/deoxycytidylate_deaminase_(dCMP_deaminase)_777793..778023_POSITIVE 276 238 201 231 192 pint:PI0301|5end_probable_transposase_285672..285902_POSITIVE 273 148 110 49 6 pint:PI1480|5end_xanthine/uracil_permease_family_protein_1402675..1402905_POSITIVE 268 238 203 184 145 pint:PI1646|5end_hypothetical_protein_1561954..1562184_POSITIVE 268 151 118 224 192 pint:PI1417|5end_MATE_efflux_family_protein_(Na+-driven_multidrug_efflux_pump)_1336126..1336356_POSITIVE 260 145 103 173 125 pint:PI1969|5end_hypothetical_protein_1925496..1925726_POSITIVE 259 149 101 224 169 pint:PI1088|5end_conserved_hypothetical_protein_1011606..1011836_POSITIVE 254 140 92 75 23 pint:PI0612|5end_lysyl-tRNA_synthetase_560461..560691_POSITIVE 251 52 11 103 64 pint:PI0344|5end_conserved_hypothetical_protein_318178..318408_POSITIVE 250 154 116 120 86 pint:PI1528|5end_hypothetical_protein_1449685..1449915_POSITIVE 246 164 125 91 47 pint:PI1872|5end_glycosyl_transferase,_group_2_family_protein_1817057..1817287_POSITIVE 238 33 4 56 30 pint:PI0617|5end_electron_transfer_flavoprotein,_alpha_subunit_566367..566597_POSITIVE 237 121 87 83 46 pint:PI0270|5end_conserved_hypothetical_protein_261388..261618_POSITIVE 234 149 107 107 57 pint:PI1335|5end_Fe-S_oxidoreductase_1252818..1253048_POSITIVE 232 140 95 214 169 pint:PI1287|5end_ATP_synthase,_A_subunit_1201224..1201454_POSITIVE 230 68 21 125 84 pint:PI2121|5end_glucose_inhibited_division_protein_A_2069889..2070119_POSITIVE 230 124 88 65 34 pint:PI1082|5end_polypeptide_deformylase_1001282..1001512_POSITIVE 229 66 21 215 177 pint:PI1552|5end_transcriptional_regulator,_LuxR_family_1468521..1468751_POSITIVE 229 120 71 137 69 pint:PI1502|5end_hypothetical_protein_1423267..1423497_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 289 150 101 81 24 pint:PI1892|3end_UDP-N-acetylmuramoylalanine--D-glutamate_ligase_1835547..1835697_POSITIVE 287 139 91 137 87 pint:PI0843|3end_carboxyl-terminal_protease_777862..778012_POSITIVE 259 149 101 95 40 pint:PI1087|3end_conserved_hypothetical_protein_1011557..1011707_POSITIVE 257 240 202 104 60 pint:PI0368|3end_hypothetical_protein_339985..340135_POSITIVE 255 148 110 119 84 pint:PI2041|3end_conserved_hypothetical_protein_1994660..1994810_POSITIVE 255 240 202 104 60 pint:PI1661|3end_hypothetical_protein_1576817..1576967_POSITIVE 248 147 101 106 54 pint:PI0758|3end_hypothetical_protein_690506..690656_POSITIVE 246 164 125 87 43 pint:PI1871|3end_glycosyl_transferase,_group_1_family_protein_1817133..1817283_POSITIVE 241 148 116 41 1 pint:PI1479|3end_xanthine_phosphoribosyltransferase_1402747..1402897_POSITIVE 238 33 4 49 23 pint:PI0616|3end_electron_transfer_flavoprotein,_beta-subunit_566440..566590_POSITIVE 237 121 87 95 58 pint:PI0269|3end_conserved_hypothetical_protein_261480..261630_POSITIVE 234 149 107 84 34 pint:PI1334|3end_ferrodoxin_1252875..1253025_POSITIVE 222 148 105 107 65 pint:PI0905|3end_hypothetical_protein_834697..834847_POSITIVE 222 148 105 85 43 pint:PI0560|3end_hypothetical_protein_508910..509060_POSITIVE 221 224 197 89 58 pint:PI0257|3end_conjugative_transposon_protein,_TraF_249802..249952_POSITIVE 220 155 115 144 113 pint:PI1342|3end_conserved_hypothetical_protein_1257799..1257949_POSITIVE 219 159 116 129 81 pint:PI0851|3end_hypothetical_protein_784524..784674_POSITIVE 218 132 91 84 44 pint:PI1802|3end_50S_ribosomal_protein_L13_1734957..1735107_POSITIVE 217 156 130 119 94 pint:PI2090|3end_thioesterase_family_protein_2048066..2048216_POSITIVE 217 228 195 147 99 pint:PI0430|3end_periplasmic_protease;_MdsD_protein_403101..403251_POSITIVE