Origin IGS: tgataagaaagagcttctaggagataacatccaagatgttttctaatcaatactactcaaattgaggaaacatttttgtaccatacaaagataattcactgataatcagtgtgggatatatttgaggaagtgaagtaaagaataagtatatacgagggatagacaagcatatcttgtctattcctcattttttctaatctttaatatataaatt .........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 aatttatatattaaagattagaaaaaatgaggaatagacaagatatgcttgtctatccctcgtatatacttattctttacttcacttcctcaaatatatcccacactgattatcagtgaattatctttgtatggtacaaaaatgtttcctcaatttgagtagtattgattagaaaacatcttggatgttatctcctagaagctctttcttatca Mask Tandem Repeat Region ================================================ tgataagaaagagcttctaggagataacatccaagatgttttctaatcaatactactcaaattgaggaaacatttttgtaccatacaaagataattcactgataatcagtgtgggatatatttgaggaagtgaagtaaagaataagtatatacgagggatagacaagcatatcttgtctattcctcattttttctaatctttaatatataaatt Find is-nt database================================================ Query_seq: PI0510:PI0511|PI0510:PI0511:hypothetical protein:hypothetical protein:->->:470360..470573 214 tgataagaaagagcttctaggagataacatccaagatgttttctaatcaatactactcaaattgaggaaacatttttgtaccatacaaagataattcactgataatcagtgtgggatatatttgaggaagtgaagtaaagaataagtatatacgagggatagacaagcatatcttgtctattcctcattttttctaatctttaatatataaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0510:PI0511|PI0510:PI0511:hypothetical protein:hypothetical protein:->->:470360..470573 214 tgataagaaagagcttctaggagataacatccaagatgttttctaatcaatactactcaaattgaggaaacatttttgtaccatacaaagataattcactgataatcagtgtgggatatatttgaggaagtgaagtaaagaataagtatatacgagggatagacaagcatatcttgtctattcctcattttttctaatctttaatatataaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0510:PI0511|PI0510:PI0511:hypothetical protein:hypothetical protein:->->:470360..470573 214 tgataagaaagagcttctaggagataacatccaagatgttttctaatcaatactactcaaattgaggaaacatttttgtaccatacaaagataattcactgataatcagtgtgggatatatttgaggaagtgaagtaaagaataagtatatacgagggatagacaagcatatcttgtctattcctcattttttctaatctttaatatataaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgataagaaagagcttctaggagataacatccaagatgttttctaatcaatactactcaaattgaggaaacatttttgtaccatacaaagataattcactgataatcagtgtgggatatatttgaggaagtgaagtaaagaataagtatatacgagggatagacaagcatatcttgtctattcctcattttttctaatctttaatatataaatt Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 99 End: 188 .................................................................................................. Q Y D T H S I N S S T F Y L I L I Y S P Y V L M D Q R N R M .......................... Protein_Len: 42 Strand: - Start: 56 End: 181 ....................................................... E F Q P F M K T G Y L S L E S I I L T P Y I Q P L S T F F L Y I R P I S L C I K D M ................................. tgataagaaagagcttctaggagataacatccaagatgttttctaatcaatactactcaaattgaggaaacatttttgtaccatacaaagataattcactgataatcagtgtgggatatatttgaggaagtgaagtaaagaataagtatatacgagggatagacaagcatatcttgtctattcctcattttttctaatctttaatatataaatt 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================================================ tgataagaaagagcttctaggagataacatccaagatgttttctaatcaatactactcaaattgaggaaacatttttgtaccatacaaagataattcactgataatcagtgtgggatatatttgaggaagtgaagtaaagaataagtatatacgagggatagacaagcatatcttgtctattcctcattttttctaatctttaatatataaatt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -12.3 Tail_Score: -5.38321 Start: 153 End: 187 Full_Region: AAGAATAAGTATATA CGAGGGATAGACAAG CATAT CTTGTCTATTCCTCA TTTTTTCTAATCTTT ........................................................................................................................................................CGAGGGATAGACAAGCATATCTTGTCTATTCCTCA........................... TransTerm Strand: + Conf: 100 HP_score: -15.8 Tail_Score: -3.80552 Start: 154 End: 186 Full_Region: AGAATAAGTATATAC GAGGGATAGACAAG CATAT CTTGTCTATTCCTC ATTTTTTCTAATCTT .........................................................................................................................................................GAGGGATAGACAAGCATATCTTGTCTATTCCTC............................ Find igs database================================================ Query_seq: PI0510:PI0511|PI0510:PI0511:hypothetical protein:hypothetical protein:->->:470360..470573 214 tgataagaaagagcttctaggagataacatccaagatgttttctaatcaatactactcaaattgaggaaacatttttgtaccatacaaagataattcactgataatcagtgtgggatatatttgaggaagtgaagtaaagaataagtatatacgagggatagacaagcatatcttgtctattcctcattttttctaatctttaatatataaatt Intra-Species Hit: Count: 1 Min: 1 Max: 214 Len: 214 Subject: pint_PI0510_PI0511|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[470360,470573]|214 HSP 1 e-value: 1.0E-118 bit: 424.0 Len: 214 Query Start:1 Query End:214 Subject Strand: POSITIVE Subject Start: 1 Subject End: 214 tgataagaaagagcttctaggagataacatccaagatgttttctaatcaatactactcaaattgaggaaacatttttgtaccatacaaagataattcactgataatcagtgtgggatatatttgaggaagtgaagtaaagaataagtatatacgagggatagacaagcatatcttgtctattcctcattttttctaatctttaatatataaatt tgataagaaagagcttctaggagataacatccaagatgttttctaatcaatactactcaaattgaggaaacatttttgtaccatacaaagataattcactgataatcagtgtgggatatatttgaggaagtgaagtaaagaataagtatatacgagggatagacaagcatatcttgtctattcctcattttttctaatctttaatatataaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUAAGAAAGAGCUUCUAGGAGAUAACAUCCAAGAUGUUUUCUAAUCAAUACUACUCAAAUUGAGGAAACAUUUUUGUACCAUACAAAGAUAAUUCACUGAUAAUCAGUGUGGGAUAUAUUUGAGGAAGUGAAGUAAAGAAUAAGUAUAUACGAGGGAUAGACAAGCAUAUCUUGUCUAUUCCUCAUUUUUUCUAAUCUUUAAUAUAUAAAUU .(((.((((((((((((....(((.((((((...)))))).))).......(((.(((((((.........(((((((((...)))))))))....(((((.....)))))........)))))))..)))))))).................((((((((((((((.....))))))))))))))..))))))).)))............... (-56.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUAUAUAUUAAAGAUUAGAAAAAAUGAGGAAUAGACAAGAUAUGCUUGUCUAUCCCUCGUAUAUACUUAUUCUUUACUUCACUUCCUCAAAUAUAUCCCACACUGAUUAUCAGUGAAUUAUCUUUGUAUGGUACAAAAAUGUUUCCUCAAUUUGAGUAGUAUUGAUUAGAAAACAUCUUGGAUGUUAUCUCCUAGAAGCUCUUUCUUAUCA ...............(((.(((((..((((((.(((((((((.....))))))))).))))))................((((.....(((((((........(((((.....)))))...(((.((((((...)))))).)))........)))))))...........(((.((((((...)))))).)))....))))...))))).))). (-49.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 279 168 123 105 60 pint:PI1932|5end_glycogen_synthase_1878080..1878310_POSITIVE 263 168 124 202 153 pint:PI0846|5end_transcription_regulator,_CRP_family_780435..780665_POSITIVE 248 197 151 227 181 pint:PI0709|5end_possible_IS1249-related_transposase_646467..646697_POSITIVE 244 186 143 186 145 pint:PI1460|5end_ribonucleotide_reductase,_alpha_subunit,_N-terminal_region_1382215..1382445_POSITIVE 241 169 121 114 64 pint:PI1677|5end_cell_division_protein_FtsH_1591766..1591996_POSITIVE 238 191 152 94 62 pint:PI1900|5end_conserved_hypothetical_protein_1843099..1843329_POSITIVE 238 159 111 142 86 pint:PI1833|5end_bacterioferritin_comigratory_protein_1773957..1774187_POSITIVE 234 168 125 211 172 pint:PI1641|5end_hypothetical_protein_1558495..1558725_POSITIVE 234 168 125 211 172 pint:PI0347|5end_hypothetical_protein_321267..321497_POSITIVE 232 156 114 91 49 pint:PI1233|5end_conserved_hypothetical_protein;_possible__MazG_family_protein_1153334..1153564_POSITIVE 228 45 1 56 7 pint:PI1966|5end_conserved_hypothetical_protein_1922851..1923081_POSITIVE 228 161 126 77 43 pint:PI0781|5end_UDP-glucose/GDP-mannose_dehydrogenase_family;_probable__UDP-glucose_6-dehydrogenase_719260..719490_POSITIVE 227 42 1 142 92 pint:PI0222|5end_conserved_hypothetical_protein_217808..218038_POSITIVE 226 150 105 223 175 pint:PI1097|5end_acetyltransferase,_GNAT_family_1021443..1021673_POSITIVE 224 170 121 101 53 pint:PI1709|5end_ABC_transporter,_ATP-binding_protein_1625843..1626073_POSITIVE 223 169 121 72 26 pint:PI1062|5end_TPR_repeat_protein_980020..980250_POSITIVE 222 159 113 190 138 pint:PI1378|5end_GTP-binding_protein_lepA_1299904..1300134_POSITIVE 221 180 138 43 1 pint:PI1365|5end_conserved_hypothetical_protein;_probable_transmembrane_protein_1283976..1284206_POSITIVE 218 103 61 124 71 pint:PI1978|5end_hypothetical_protein_1934615..1934845_POSITIVE 218 103 61 188 135 pint:PI1976|5end_hypothetical_protein_1932993..1933223_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 263 168 124 126 77 pint:PI0845|3end_peptidyl-dipeptidase_780439..780589_POSITIVE 261 185 146 63 24 pint:PI1368|3end_enolase_(phosphopyruvate_hydratase)_1289507..1289657_POSITIVE 238 159 111 128 72 pint:PI1832|3end_conserved_hypothetical_protein_1774023..1774173_POSITIVE 238 177 131 53 3 pint:PI1676|3end_phosphatidate_cytidylyltransferase_1591773..1591923_POSITIVE 233 137 103 140 114 pint:PI1680|3end_conserved_hypothetical_protein_1596992..1597142_POSITIVE 232 156 114 141 99 pint:PI1231|3end_hypothetical_protein_1153464..1153614_POSITIVE 232 156 114 68 26 pint:PI1232|3end_conserved_hypothetical_protein_1153391..1153541_POSITIVE 220 127 81 49 3 pint:PI1880|3end_phosphoenolpyruvate_carboxykinase_(ATP)_1823300..1823450_POSITIVE 220 149 108 61 20 pint:PI0323|3end_hypothetical_protein_306070..306220_POSITIVE 218 155 111 71 23 pint:PI0952|3end_conserved_hypothetical_protein_884775..884925_POSITIVE 216 127 101 55 30 pint:PI1744|3end_chromosome_partitioning_protein_1666620..1666770_POSITIVE 216 174 154 148 121 pint:PI0532|3end_ABC_transporter,_ATP-binding/permease_protein_487329..487479_POSITIVE 212 187 162 104 82 pint:PI1979|3end_conserved_hypothetical_protein_1937327..1937477_POSITIVE 211 138 107 41 6 pint:PI1599|3end_predicted_TPR-repeat-containing_protein_1529176..1529326_POSITIVE 211 160 111 128 84 pint:PI0218|3end_conserved_hypothetical_protein_211149..211299_POSITIVE 209 168 128 99 56 pint:PI0940|3end_ribonuclease_G_874429..874579_POSITIVE 209 179 161 143 124 pint:PI0861|3end_glucosamine--fructose-6-phosphate_aminotransferase_(glutamine-fructose-6-phosphate_transaminase_(isomerizing))_798270..798420_POSITIVE 207 157 121 134 103 pint:PI1316|3end_conserved_hypothetical_protein_1232655..1232805_POSITIVE 207 162 122 112 70 pint:PI0489|3end_probable_cardiolipin_synthetase_449108..449258_POSITIVE 206 183 153 39 7 pint:PI2136|3end_hypothetical_protein_2082840..2082990_POSITIVE