Origin IGS: taaaagtgctaacaaacgctaatcaaaaataagtaaatcccagtaacataataagttgctgggatttttatttcttaataatgattaaatcttatcgtttttaattgtttttgtgcttatatttgtaccatatttgtgccgcgacttaatgggagataaagtgcgacttaatttaaaagatagattgataatcaaatagatacaaatagt .........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 actatttgtatctatttgattatcaatctatcttttaaattaagtcgcactttatctcccattaagtcgcggcacaaatatggtacaaatataagcacaaaaacaattaaaaacgataagatttaatcattattaagaaataaaaatcccagcaacttattatgttactgggatttacttatttttgattagcgtttgttagcactttta Mask Tandem Repeat Region ================================================ taaaagtgctaacaaacgctaatcaaaaataagtaaatcccagtaacataataagttgctgggatttttatttcttaataatgattaaatcttatcgtttttaattgtttttgtgcttatatttgtaccatatttgtgccgcgacttaatgggagataaagtgcgacttaatttaaaagatagattgataatcaaatagatacaaatagt Find is-nt database================================================ Query_seq: PI0496:PI0497|PI0496:PI0497:heat shock protein hsp70 (chaperone protein dnaK):predicted recombinase, tnpA protein:->->:458671..458880 210 taaaagtgctaacaaacgctaatcaaaaataagtaaatcccagtaacataataagttgctgggatttttatttcttaataatgattaaatcttatcgtttttaattgtttttgtgcttatatttgtaccatatttgtgccgcgacttaatgggagataaagtgcgacttaatttaaaagatagattgataatcaaatagatacaaatagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0496:PI0497|PI0496:PI0497:heat shock protein hsp70 (chaperone protein dnaK):predicted recombinase, tnpA protein:->->:458671..458880 210 taaaagtgctaacaaacgctaatcaaaaataagtaaatcccagtaacataataagttgctgggatttttatttcttaataatgattaaatcttatcgtttttaattgtttttgtgcttatatttgtaccatatttgtgccgcgacttaatgggagataaagtgcgacttaatttaaaagatagattgataatcaaatagatacaaatagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0496:PI0497|PI0496:PI0497:heat shock protein hsp70 (chaperone protein dnaK):predicted recombinase, tnpA protein:->->:458671..458880 210 taaaagtgctaacaaacgctaatcaaaaataagtaaatcccagtaacataataagttgctgggatttttatttcttaataatgattaaatcttatcgtttttaattgtttttgtgcttatatttgtaccatatttgtgccgcgacttaatgggagataaagtgcgacttaatttaaaagatagattgataatcaaatagatacaaatagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaagtgctaacaaacgctaatcaaaaataagtaaatcccagtaacataataagttgctgggatttttatttcttaataatgattaaatcttatcgtttttaattgtttttgtgcttatatttgtaccatatttgtgccgcgacttaatgggagataaagtgcgacttaatttaaaagatagattgataatcaaatagatacaaatagt Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 89 End: 196 ........................................................................................ M L S F L I V F V L I F V P Y L C R D L M G D K V R L N L K D R L I I K .............. Protein_Len: 40 Strand: - Start: 88 End: 207 ....................................................................................... I K D N K I T K T S I N T G Y K H R S K I P S L T R S L K F S L N I I L Y I C M ... taaaagtgctaacaaacgctaatcaaaaataagtaaatcccagtaacataataagttgctgggatttttatttcttaataatgattaaatcttatcgtttttaattgtttttgtgcttatatttgtaccatatttgtgccgcgacttaatgggagataaagtgcgacttaatttaaaagatagattgataatcaaatagatacaaatagt 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================================================ taaaagtgctaacaaacgctaatcaaaaataagtaaatcccagtaacataataagttgctgggatttttatttcttaataatgattaaatcttatcgtttttaattgtttttgtgcttatatttgtaccatatttgtgccgcgacttaatgggagataaagtgcgacttaatttaaaagatagattgataatcaaatagatacaaatagt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -10.2 Tail_Score: -5.48514 Start: 38 End: 64 Full_Region: TCAAAAATAAGTAAA TCCCAGTAACAT AAT AAGTTGCTGGGA TTTTTATTTCTTAAT .....................................TCCCAGTAACATAATAAGTTGCTGGGA.................................................................................................................................................. TransTerm Strand: - Conf: 80 HP_score: -8.0 Tail_Score: -4.25754 Start: 38 End: 64 Full_Region: attaagaaataaaaa tcccagcaactt att atgttactggga tttacttatttttga .....................................tcccagcaacttattatgttactggga.................................................................................................................................................. Find igs database================================================ Query_seq: PI0496:PI0497|PI0496:PI0497:heat shock protein hsp70 (chaperone protein dnaK):predicted recombinase, tnpA protein:->->:458671..458880 210 taaaagtgctaacaaacgctaatcaaaaataagtaaatcccagtaacataataagttgctgggatttttatttcttaataatgattaaatcttatcgtttttaattgtttttgtgcttatatttgtaccatatttgtgccgcgacttaatgggagataaagtgcgacttaatttaaaagatagattgataatcaaatagatacaaatagt Intra-Species Hit: Count: 1 Min: 1 Max: 210 Len: 210 Subject: pint_PI0496_PI0497|heat shock protein hsp70 (chaperone protein dnaK):predicted recombinase, tnpA protein|POSITIVE:POSITIVE|[458671,458880]|210 HSP 1 e-value: 1.0E-115 bit: 416.0 Len: 210 Query Start:1 Query End:210 Subject Strand: POSITIVE Subject Start: 1 Subject End: 210 taaaagtgctaacaaacgctaatcaaaaataagtaaatcccagtaacataataagttgctgggatttttatttcttaataatgattaaatcttatcgtttttaattgtttttgtgcttatatttgtaccatatttgtgccgcgacttaatgggagataaagtgcgacttaatttaaaagatagattgataatcaaatagatacaaatagt taaaagtgctaacaaacgctaatcaaaaataagtaaatcccagtaacataataagttgctgggatttttatttcttaataatgattaaatcttatcgtttttaattgtttttgtgcttatatttgtaccatatttgtgccgcgacttaatgggagataaagtgcgacttaatttaaaagatagattgataatcaaatagatacaaatagt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAGUGCUAACAAACGCUAAUCAAAAAUAAGUAAAUCCCAGUAACAUAAUAAGUUGCUGGGAUUUUUAUUUCUUAAUAAUGAUUAAAUCUUAUCGUUUUUAAUUGUUUUUGUGCUUAUAUUUGUACCAUAUUUGUGCCGCGACUUAAUGGGAGAUAAAGUGCGACUUAAUUUAAAAGAUAGAUUGAUAAUCAAAUAGAUACAAAUAGU ...(((..(.(((((...........((((((..(((((((((((((.......)))))))))))))))))))..(((.((((((........)))))).))).)))))...)..))).((((((((...((((((...(((.((((.((.....)).)))))))..((((((((.....))))))))....))))))..)))))))).. (-48.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUAUUUGUAUCUAUUUGAUUAUCAAUCUAUCUUUUAAAUUAAGUCGCACUUUAUCUCCCAUUAAGUCGCGGCACAAAUAUGGUACAAAUAUAAGCACAAAAACAAUUAAAAACGAUAAGAUUUAAUCAUUAUUAAGAAAUAAAAAUCCCAGCAACUUAUUAUGUUACUGGGAUUUACUUAUUUUUGAUUAGCGUUUGUUAGCACUUUUA ..((((((((((((((((......(((.((.....)).)))..(((((((((...........)))).))))).)))))).))))))))))...(((((((..((((((((...((((((.((((((....))))))......(((((((((.(((.......))).))))))))).))))))))))))).)..)))))..))....... (-46.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 351 169 121 60 16 pint:PI1505|5end_2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_pyrophosphokinase_1424922..1425152_POSITIVE 301 153 111 196 152 pint:PI0596|5end_hypothetical_protein_546400..546630_POSITIVE 289 143 104 188 148 pint:PI1626|5end_hypothetical_protein_1550194..1550424_POSITIVE 280 166 128 130 85 pint:PI0538|5end_transcriptional_regulator_492561..492791_POSITIVE 279 160 111 121 61 pint:PI0009|5end_NAD-dependent_epimerase/dehydratase_family_protein_9653..9883_POSITIVE 278 166 135 183 148 pint:PI0818|5end_alpha-amylase_758185..758415_POSITIVE 268 165 128 149 117 pint:PI1342|5end_conserved_hypothetical_protein_1257057..1257287_POSITIVE 268 170 122 39 1 pint:PI0260|5end_conjugative_transposon_protein,_TraJ_253023..253253_POSITIVE 267 156 111 47 3 pint:PI0634|5end_conserved_hypothetical_protein_580082..580312_POSITIVE 267 166 126 212 161 pint:PI0093|5end_riboflavin_biosynthesis_protein_90489..90719_POSITIVE 265 167 126 211 174 pint:PI0492|5end_hypothetical_protein_451701..451931_POSITIVE 259 159 113 65 6 pint:PI0128|5end_dipeptidase,_pathogenicity_island-encoded_protein_D_120532..120762_POSITIVE 255 169 124 77 31 pint:PI2053|5end_conserved_hypothetical_protein;_possible_outer_membrane_receptor_protein_2010673..2010903_POSITIVE 251 165 125 85 42 pint:PI0952|5end_conserved_hypothetical_protein_883718..883948_POSITIVE 251 143 104 188 148 pint:PI0333|5end_hypothetical_protein_313478..313708_POSITIVE 250 147 106 144 107 pint:PI2115|5end_hypothetical_protein_2064966..2065196_POSITIVE 250 144 107 101 68 pint:PI2062|5end_type_I_restriction-modification_system_2021658..2021888_POSITIVE 250 175 136 51 10 pint:PI0304|5end_hypothetical_protein_288582..288812_POSITIVE 247 139 93 75 23 pint:PI0999|5end_hypothetical_protein_922376..922606_POSITIVE 243 155 114 231 187 pint:PI1722|5end_possible_peptidyl-prolyl_cis-trans_isomerase_1639536..1639766_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 333 154 111 77 16 pint:PI2058|3end_riboflavin_biosynthesis_protein_2016824..2016974_POSITIVE 323 67 27 56 18 pint:PI0496|3end_heat_shock_protein_hsp70_(chaperone_protein_dnaK)_458610..458760_POSITIVE 301 153 111 122 78 pint:PI0595|3end_conserved_hypothetical_protein_546406..546556_POSITIVE 285 145 104 138 95 pint:PI1527|3end_immunoreactive_46_kDa_antigen_PG99_1449520..1449670_POSITIVE 280 166 128 112 67 pint:PI0536|3end_hypothetical_protein_492623..492773_POSITIVE 278 166 135 127 92 pint:PI0817|3end_glycosyl_transferase,_group_1_family_protein_758209..758359_POSITIVE 262 155 112 133 92 pint:PI0094|3end_protoporphyrinogen_oxidase_90511..90661_POSITIVE 251 159 111 148 107 pint:PI1102|3end_conserved_hypothetical_protein_1026247..1026397_POSITIVE 249 158 111 145 86 pint:PI1562|3end_methyltransferase_1480449..1480599_POSITIVE 248 167 123 108 74 pint:PI0537|3end_alanyl-tRNA_synthetase_(alanine--tRNA_ligase)_492412..492562_POSITIVE 236 167 126 53 8 pint:PI1069|3end_hypothetical_protein_988458..988608_POSITIVE 232 168 135 57 23 pint:PI1431|3end_conserved_hypothetical_protein_1352809..1352959_POSITIVE 232 168 125 70 13 pint:PI0925|3end_ribosomal_protein_L11_methyltransferase_856638..856788_POSITIVE 229 180 133 75 19 pint:PI0226|3end_ABC_transporter,_ATP-binding_/_permease_protein_223884..224034_POSITIVE 227 165 134 77 50 pint:PI1206|3end_ATP-dependent_DNA_helicase,_UvrD/PcrA/Rep_family_1127132..1127282_POSITIVE 226 169 122 68 20 pint:PI1926|3end_conserved_hypothetical_protein_1870977..1871127_POSITIVE 224 164 125 98 58 pint:PI1794|3end_conserved_hypothetical_protein_1726696..1726846_POSITIVE 223 144 104 85 42 pint:PI0722|3end_RNA_polymerase_sigma-70_factor_655413..655563_POSITIVE 222 147 105 47 8 pint:PI1630|3end_hypothetical_protein_1552494..1552644_POSITIVE 222 137 92 118 64 pint:PI0958|3end_G:T/U_mismatch-specific_DNA_glycosylase_890569..890719_POSITIVE