Origin IGS: catttcactgttagtttatgattcgagttttttcattgattttgcgccccagccaccttatataatagccacaagcgcaatactatctattaaagtgcaaacttagataaaaagttttaaaccacctaaatttatactttcttttttatgcttagatttaaaaattatatttgttttgcttgttttcgtactatattgacactgtttgcgcta .........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 tagcgcaaacagtgtcaatatagtacgaaaacaagcaaaacaaatataatttttaaatctaagcataaaaaagaaagtataaatttaggtggtttaaaactttttatctaagtttgcactttaatagatagtattgcgcttgtggctattatataaggtggctggggcgcaaaatcaatgaaaaaactcgaatcataaactaacagtgaaatg Mask Tandem Repeat Region ================================================ catttcactgttagtttatgattcgagttttttcattgattttgcgccccagccaccttatataatagccacaagcgcaatactatctattaaagtgcaaacttagataaaaagttttaaaccacctaaatttatactttcttttttatgcttagatttaaaaattatatttgttttgcttgttttcgtactatattgacactgtttgcgcta Find is-nt database================================================ Query_seq: PI1680:PI1681|PI1680:PI1681:conserved hypothetical protein:Mg2+/Co2+ transporter:->->:1597053..1597265 213 catttcactgttagtttatgattcgagttttttcattgattttgcgccccagccaccttatataatagccacaagcgcaatactatctattaaagtgcaaacttagataaaaagttttaaaccacctaaatttatactttcttttttatgcttagatttaaaaattatatttgttttgcttgttttcgtactatattgacactgtttgcgcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1680:PI1681|PI1680:PI1681:conserved hypothetical protein:Mg2+/Co2+ transporter:->->:1597053..1597265 213 catttcactgttagtttatgattcgagttttttcattgattttgcgccccagccaccttatataatagccacaagcgcaatactatctattaaagtgcaaacttagataaaaagttttaaaccacctaaatttatactttcttttttatgcttagatttaaaaattatatttgttttgcttgttttcgtactatattgacactgtttgcgcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1680:PI1681|PI1680:PI1681:conserved hypothetical protein:Mg2+/Co2+ transporter:->->:1597053..1597265 213 catttcactgttagtttatgattcgagttttttcattgattttgcgccccagccaccttatataatagccacaagcgcaatactatctattaaagtgcaaacttagataaaaagttttaaaccacctaaatttatactttcttttttatgcttagatttaaaaattatatttgttttgcttgttttcgtactatattgacactgtttgcgcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 catttcactgttagtttatgattcgagttttttcattgattttgcgccccagccaccttatataatagccacaagcgcaatactatctattaaagtgcaaacttagataaaaagttttaaaccacctaaatttatactttcttttttatgcttagatttaaaaattatatttgttttgcttgttttcgtactatattgacactgtttgcgcta Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 2 End: 103 . M S L L V Y D S S F F I D F A P Q P P Y I I A T S A I L S I K V Q T .............................................................................................................. Protein_Len: 30 Strand: + Start: 107 End: 196 .......................................................................................................... M K S F K P P K F I L S F L C L D L K I I F V L L V F V L Y ................. catttcactgttagtttatgattcgagttttttcattgattttgcgccccagccaccttatataatagccacaagcgcaatactatctattaaagtgcaaacttagataaaaagttttaaaccacctaaatttatactttcttttttatgcttagatttaaaaattatatttgttttgcttgttttcgtactatattgacactgtttgcgcta 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================================================ catttcactgttagtttatgattcgagttttttcattgattttgcgccccagccaccttatataatagccacaagcgcaatactatctattaaagtgcaaacttagataaaaagttttaaaccacctaaatttatactttcttttttatgcttagatttaaaaattatatttgttttgcttgttttcgtactatattgacactgtttgcgcta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1680:PI1681|PI1680:PI1681:conserved hypothetical protein:Mg2+/Co2+ transporter:->->:1597053..1597265 213 catttcactgttagtttatgattcgagttttttcattgattttgcgccccagccaccttatataatagccacaagcgcaatactatctattaaagtgcaaacttagataaaaagttttaaaccacctaaatttatactttcttttttatgcttagatttaaaaattatatttgttttgcttgttttcgtactatattgacactgtttgcgcta Intra-Species Hit: Count: 1 Min: 1 Max: 213 Len: 213 Subject: pint_PI1680_PI1681|conserved hypothetical protein:Mg2+/Co2+ transporter|POSITIVE:POSITIVE|[1597053,1597265]|213 HSP 1 e-value: 1.0E-117 bit: 422.0 Len: 213 Query Start:1 Query End:213 Subject Strand: POSITIVE Subject Start: 1 Subject End: 213 catttcactgttagtttatgattcgagttttttcattgattttgcgccccagccaccttatataatagccacaagcgcaatactatctattaaagtgcaaacttagataaaaagttttaaaccacctaaatttatactttcttttttatgcttagatttaaaaattatatttgttttgcttgttttcgtactatattgacactgtttgcgcta catttcactgttagtttatgattcgagttttttcattgattttgcgccccagccaccttatataatagccacaagcgcaatactatctattaaagtgcaaacttagataaaaagttttaaaccacctaaatttatactttcttttttatgcttagatttaaaaattatatttgttttgcttgttttcgtactatattgacactgtttgcgcta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAUUUCACUGUUAGUUUAUGAUUCGAGUUUUUUCAUUGAUUUUGCGCCCCAGCCACCUUAUAUAAUAGCCACAAGCGCAAUACUAUCUAUUAAAGUGCAAACUUAGAUAAAAAGUUUUAAACCACCUAAAUUUAUACUUUCUUUUUUAUGCUUAGAUUUAAAAAUUAUAUUUGUUUUGCUUGUUUUCGUACUAUAUUGACACUGUUUGCGCUA ((...((.(((((((.(((((..(((((.....((.(((((((((((....((..............)).....))))))...((((((....(((....))))))))).................((((((((..(............)..))))))))..)))))....))....)))))...)))))....))))))).))..))..... (-27.14) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGCGCAAACAGUGUCAAUAUAGUACGAAAACAAGCAAAACAAAUAUAAUUUUUAAAUCUAAGCAUAAAAAAGAAAGUAUAAAUUUAGGUGGUUUAAAACUUUUUAUCUAAGUUUGCACUUUAAUAGAUAGUAUUGCGCUUGUGGCUAUUAUAUAAGGUGGCUGGGGCGCAAAAUCAAUGAAAAAACUCGAAUCAUAAACUAACAGUGAAAUG ..((((...((((..(.((((((((.(...((((((.............((((((..........))))))..(((((.(((((((((((((...........))))))))))))).)))))...............))))))..)))))))))...)..))))..))))......................((((.........)))).... (-40.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 343 80 31 99 48 pint:PI1642|5end_conserved_hypothetical_protein_1558800..1559030_POSITIVE 340 79 36 142 91 pint:PI0334|5end_hypothetical_protein_313234..313464_POSITIVE 322 80 33 118 66 pint:PI1734|5end_possible_carboxyl-terminal_protease-related_protein_1652409..1652639_POSITIVE 312 80 31 99 48 pint:PI0348|5end_conserved_hypothetical_protein_321572..321802_POSITIVE 300 77 39 180 137 pint:PI0668|5end_peptidyl-prolyl_cis-trans_isomerase_SlyD,_FKBP-type_(peptidylprolyl_isomerase)_610216..610446_POSITIVE 300 77 39 77 34 pint:PI0667|5end_hypothetical_protein_610113..610343_POSITIVE 293 55 14 202 159 pint:PI2102|5end_DNA_topoisomerase_IV,_subunit_B_2055706..2055936_POSITIVE 289 79 44 192 151 pint:PI1785|5end_conserved_hypothetical_protein_1717122..1717352_POSITIVE 287 79 35 72 11 pint:PI1697|5end_conserved_hypothetical_protein_1612217..1612447_POSITIVE 278 58 14 160 106 pint:PI0261|5end_conjugative_transposon_protein,_TraK_254065..254295_POSITIVE 277 100 51 210 163 pint:PI2073|5end_mobilization_protein_2031995..2032225_POSITIVE 275 78 32 52 12 pint:PI0576|5end_helicase,_UvrD/Rep_520226..520456_POSITIVE 266 79 40 83 42 pint:PI0659|5end_hypothetical_protein_603203..603433_POSITIVE 265 82 43 43 3 pint:PI0219|5end_conserved_hypothetical_protein_211412..211642_POSITIVE 263 87 42 94 60 pint:PI0915|5end_hypothetical_protein_845183..845413_POSITIVE 259 79 34 62 13 pint:PI2021|5end_DNA_repair_protein_1977925..1978155_POSITIVE 258 77 42 83 46 pint:PI0188|5end_phosphomethylpyrimidine_kinase_178433..178663_POSITIVE 256 59 18 60 11 pint:PI0486|5end_DNA-directed_RNA_polymerase,_alpha_subunit_445073..445303_POSITIVE 251 79 44 137 103 pint:PI0867|5end_hypothetical_protein_803859..804089_POSITIVE 251 79 44 54 20 pint:PI0866|5end_hypothetical_protein_803776..804006_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 343 80 31 102 51 pint:PI1641|3end_hypothetical_protein_1558883..1559033_POSITIVE 322 80 33 66 14 pint:PI1733|3end_hypothetical_protein_1652437..1652587_POSITIVE 312 80 31 102 51 pint:PI0347|3end_hypothetical_protein_321655..321805_POSITIVE 300 77 39 55 12 pint:PI0666|3end_chorismate_synthase_610171..610321_POSITIVE 296 78 32 101 52 pint:PI0434|3end_possible_beta-lactamase_406890..407040_POSITIVE 278 58 14 137 83 pint:PI0260|3end_conjugative_transposon_protein,_TraJ_254122..254272_POSITIVE 276 49 2 151 103 pint:PI2084|3end_hypothetical_protein_2041069..2041219_POSITIVE 276 87 43 114 68 pint:PI0365|3end_hypothetical_protein_336118..336268_POSITIVE 256 58 13 126 68 pint:PI0811|3end_protease/hemagglutinin_PrtT,_streptopain_family_749937..750087_POSITIVE 246 80 31 77 27 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 245 58 11 134 88 pint:PI1652|3end_hypothetical_protein_1565235..1565385_POSITIVE 244 57 14 49 7 pint:PI0115|3end_hypothetical_protein_108669..108819_POSITIVE 241 60 13 134 87 pint:PI0106|3end_ABC_transport_system,_ATP-binding/permease_103317..103467_POSITIVE 237 52 11 102 60 pint:PI0251|3end_hypothetical_protein_247810..247960_POSITIVE 236 58 21 64 26 pint:PI0838|3end_DNA_replication_and_repair_protein_773927..774077_POSITIVE 235 58 15 53 18 pint:PI0958|3end_G:T/U_mismatch-specific_DNA_glycosylase_890569..890719_POSITIVE 234 208 163 122 78 pint:PI1133|3end_GrpE_protein_1060404..1060554_POSITIVE 232 107 68 68 20 pint:PI2034|3end_conserved_hypothetical_protein_1988120..1988270_POSITIVE 231 80 33 60 6 pint:PI0286|3end_ISPg3-related_transposase_272065..272215_POSITIVE 230 209 167 107 63 pint:PI2010|3end_ABC_transporter,_permease_component_1970242..1970392_POSITIVE