Origin IGS: tgaatgggcatggagtcaagtcctttgattattaggggagcaagtttgtgttttggtcagaccaaaaccttgctcttcgaggattgactcatcccgttggtctatttataaatcaaaacaagtacagcaataaaaacaatagaaaatcgcaatacgaatggtcgcccacccaaacgaccagtaaaaaagaagaaatataagattactctgaaa .........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 tttcagagtaatcttatatttcttcttttttactggtcgtttgggtgggcgaccattcgtattgcgattttctattgtttttattgctgtacttgttttgatttataaatagaccaacgggatgagtcaatcctcgaagagcaaggttttggtctgaccaaaacacaaacttgctcccctaataatcaaaggacttgactccatgcccattca Mask Tandem Repeat Region ================================================ tgaatgggcatggagtcaagtcctttgattattaggggagcaagtttgtgttttggtcagaccaaaaccttgctcttcgaggattgactcatcccgttggtctatttataaatcaaaacaagtacagcaataaaaacaatagaaaatcgcaatacgaatggtcgcccacccaaacgaccagtaaaaaagaagaaatataagattactctgaaa Find is-nt database================================================ Query_seq: TF1697:TF1698|TF1697:TF1698:mobilizable transposon, excision protein:mobilization protein:->->:1819354..1819566 213 tgaatgggcatggagtcaagtcctttgattattaggggagcaagtttgtgttttggtcagaccaaaaccttgctcttcgaggattgactcatcccgttggtctatttataaatcaaaacaagtacagcaataaaaacaatagaaaatcgcaatacgaatggtcgcccacccaaacgaccagtaaaaaagaagaaatataagattactctgaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1697:TF1698|TF1697:TF1698:mobilizable transposon, excision protein:mobilization protein:->->:1819354..1819566 213 tgaatgggcatggagtcaagtcctttgattattaggggagcaagtttgtgttttggtcagaccaaaaccttgctcttcgaggattgactcatcccgttggtctatttataaatcaaaacaagtacagcaataaaaacaatagaaaatcgcaatacgaatggtcgcccacccaaacgaccagtaaaaaagaagaaatataagattactctgaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1697:TF1698|TF1697:TF1698:mobilizable transposon, excision protein:mobilization protein:->->:1819354..1819566 213 tgaatgggcatggagtcaagtcctttgattattaggggagcaagtttgtgttttggtcagaccaaaaccttgctcttcgaggattgactcatcccgttggtctatttataaatcaaaacaagtacagcaataaaaacaatagaaaatcgcaatacgaatggtcgcccacccaaacgaccagtaaaaaagaagaaatataagattactctgaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaatgggcatggagtcaagtcctttgattattaggggagcaagtttgtgttttggtcagaccaaaaccttgctcttcgaggattgactcatcccgttggtctatttataaatcaaaacaagtacagcaataaaaacaatagaaaatcgcaatacgaatggtcgcccacccaaacgaccagtaaaaaagaagaaatataagattactctgaaa Predict ORF larger than 30AA ================================================ Protein_Len: 50 Strand: + Start: 48 End: 197 ............................................... M F W S D Q N L A L R G L T H P V G L F I N Q N K Y S N K N N R K S Q Y E W S P T Q T T S K K E E I ................ Protein_Len: 34 Strand: + Start: 112 End: 213 ............................................................................................................... M K T S T A I K T I E N R N T N G R P P K R P V K K K K Y K I T L K Protein_Len: 30 Strand: - Start: 109 End: 198 ............................................................................................................ L D F C T C C Y F C Y F I A I R I T A W G F S W Y F L L F M ............... Protein_Len: 33 Strand: - Start: 105 End: 203 ........................................................................................................ K Y I L V L V A I F V I S F R L V F P R G G L R G T F F F F Y L M .......... tgaatgggcatggagtcaagtcctttgattattaggggagcaagtttgtgttttggtcagaccaaaaccttgctcttcgaggattgactcatcccgttggtctatttataaatcaaaacaagtacagcaataaaaacaatagaaaatcgcaatacgaatggtcgcccacccaaacgaccagtaaaaaagaagaaatataagattactctgaaa Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 84 Start: 83 End: 112 ..................................................................................ATTGACTCATCCCGTTGGTCTATTTATAAA..................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tgaatgggcatggagtcaagtcctttgattattaggggagcaagtttgtgttttggtcagaccaaaaccttgctcttcgaggattgactcatcccgttggtctatttataaatcaaaacaagtacagcaataaaaacaatagaaaatcgcaatacgaatggtcgcccacccaaacgaccagtaaaaaagaagaaatataagattactctgaaa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 72 HP_score: -10.4 Tail_Score: -2.6155 Start: 50 End: 68 Full_Region: GGGGAGCAAGTTTGT GTTTTGGT CAG ACCAAAAC CTTGCTCTTCGAGGA .................................................GTTTTGGTCAGACCAAAAC................................................................................................................................................. TransTerm Strand: - Conf: 70 HP_score: -3.2 Tail_Score: -4.90321 Start: 147 End: 157 Full_Region: tgggtgggcgaccat tcgt att gcga ttttctattgttttt ..................................................................................................................................................tcgtattgcga........................................................ Find igs database================================================ Query_seq: TF1697:TF1698|TF1697:TF1698:mobilizable transposon, excision protein:mobilization protein:->->:1819354..1819566 213 tgaatgggcatggagtcaagtcctttgattattaggggagcaagtttgtgttttggtcagaccaaaaccttgctcttcgaggattgactcatcccgttggtctatttataaatcaaaacaagtacagcaataaaaacaatagaaaatcgcaatacgaatggtcgcccacccaaacgaccagtaaaaaagaagaaatataagattactctgaaa Intra-Species Hit: Count: 1 Min: 1 Max: 213 Len: 213 Subject: tfor_TF1697_TF1698|mobilizable transposon, excision protein:mobilization protein|POSITIVE:POSITIVE|[1819354,1819566]|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 tgaatgggcatggagtcaagtcctttgattattaggggagcaagtttgtgttttggtcagaccaaaaccttgctcttcgaggattgactcatcccgttggtctatttataaatcaaaacaagtacagcaataaaaacaatagaaaatcgcaatacgaatggtcgcccacccaaacgaccagtaaaaaagaagaaatataagattactctgaaa tgaatgggcatggagtcaagtcctttgattattaggggagcaagtttgtgttttggtcagaccaaaaccttgctcttcgaggattgactcatcccgttggtctatttataaatcaaaacaagtacagcaataaaaacaatagaaaatcgcaatacgaatggtcgcccacccaaacgaccagtaaaaaagaagaaatataagattactctgaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAUGGGCAUGGAGUCAAGUCCUUUGAUUAUUAGGGGAGCAAGUUUGUGUUUUGGUCAGACCAAAACCUUGCUCUUCGAGGAUUGACUCAUCCCGUUGGUCUAUUUAUAAAUCAAAACAAGUACAGCAAUAAAAACAAUAGAAAAUCGCAAUACGAAUGGUCGCCCACCCAAACGACCAGUAAAAAAGAAGAAAUAUAAGAUUACUCUGAAA ..((((((....(((((((.(((((.........((((((((((.....(((((((.....)))))))))))))))))))))))))))))..))))))......((((((..((.......(((..((....................))..)))...((((((..........))))))...........))..))))))............ (-53.45) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUCAGAGUAAUCUUAUAUUUCUUCUUUUUUACUGGUCGUUUGGGUGGGCGACCAUUCGUAUUGCGAUUUUCUAUUGUUUUUAUUGCUGUACUUGUUUUGAUUUAUAAAUAGACCAACGGGAUGAGUCAAUCCUCGAAGAGCAAGGUUUUGGUCUGACCAAAACACAAACUUGCUCCCCUAAUAAUCAAAGGACUUGACUCCAUGCCCAUUCA ....(((....)))...................(((((....((((((....))))))((((.(((((..............))))).))))...................)))))..(((..(((((((((((....((((((((((((((.....))))))).....))))))).............)))).)))))))....)))..... (-55.07) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 337 48 3 156 104 tfor:TF1631|5end_hypothetical_protein_1743091..1743321_POSITIVE 330 105 67 130 90 tfor:TF1182|5end_hypothetical_protein_1268565..1268795_POSITIVE 329 103 62 225 192 tfor:TF2381|5end_muramidase/hemagglutinin_2545757..2545987_POSITIVE 320 105 68 220 181 tfor:TF1185|5end_hypothetical_protein_1269238..1269468_POSITIVE 317 105 68 72 33 tfor:TF1841|5end_hypothetical_protein_1991936..1992166_POSITIVE 317 60 11 227 175 tfor:TF0745|5end_conserved_hypothetical_protein_790653..790883_POSITIVE 314 105 68 65 26 tfor:TF2817|5end_hypothetical_protein_3007358..3007588_POSITIVE 309 100 51 108 40 tfor:TF1531|5end_potassium_uptake_protein_1636534..1636764_POSITIVE 306 79 32 168 113 tfor:TF2229.1|5end_rteR_regulatory_ortholog_(with_internal_stop)_2399454..2399684_POSITIVE 302 50 4 219 173 tfor:TF1492|5end_ribonuclease_H-related_protein_1592017..1592247_POSITIVE 300 48 1 89 48 tfor:TF1138|5end_ribosomal_large_subunit_pseudouridine_synthase_B_1213863..1214093_POSITIVE 292 60 11 150 87 tfor:TF1324|5end_conserved_hypothetical_protein_1403462..1403692_POSITIVE 289 100 51 82 21 tfor:TF1850|5end_Na+/H+-exchanging_protein_1998542..1998772_POSITIVE 285 77 34 204 161 tfor:TF2155|5end_transposase_2329586..2329816_POSITIVE 284 49 9 91 53 tfor:TF1121|5end_ABC_transporter_ATP-binding/permease_component,_bacteriocin/lantibiotic_exporter_1195183..1195413_POSITIVE 283 80 35 155 107 tfor:TF1747|5end_hypothetical_protein_1881268..1881498_POSITIVE 281 194 155 192 139 tfor:TF1990|5end_outer_membrane_protein_2141320..2141550_POSITIVE 280 80 32 164 118 tfor:TF1665|5end_conserved_hypothetical_protein_1779148..1779378_POSITIVE 277 42 4 170 127 tfor:TF2065|5end_CTP:CMP-3-deoxy-D-manno-octulosonate_transferase_2231146..2231376_POSITIVE 277 102 68 217 181 tfor:TF1845|5end_hypothetical_protein_1996620..1996850_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 479 78 35 56 13 tfor:TF1697|3end_mobilizable_transposon,_excision_protein_1819293..1819443_POSITIVE 366 80 35 135 96 tfor:TF0012|3end_conserved_hypothetical_protein_6641..6791_POSITIVE 334 93 59 75 37 tfor:TF0178|3end_ferritin_188223..188373_POSITIVE 330 105 67 130 90 tfor:TF1186|3end_hypothetical_protein_1269815..1269965_POSITIVE 309 100 51 108 40 tfor:TF1530|3end_1-deoxyxylulose-5-phosphate_synthase_1636614..1636764_POSITIVE 300 48 1 63 22 tfor:TF1137|3end_asparaginyl-tRNA_synthetase_(asparagine--tRNA_ligase)_1213917..1214067_POSITIVE 292 60 11 141 78 tfor:TF1323|3end_metallo-beta-lactamase_superfamily_protein_1403533..1403683_POSITIVE 285 77 34 67 24 tfor:TF2154|3end_conserved_hypothetical_protein_2329529..2329679_POSITIVE 284 49 9 84 46 tfor:TF1120|3end_conserved_hypothetical_protein_1195256..1195406_POSITIVE 280 80 32 142 96 tfor:TF1664|3end_conserved_hypothetical_protein_1779206..1779356_POSITIVE 277 168 136 114 70 tfor:TF0519|3end_thiamine_monophosphate_kinase_544814..544964_POSITIVE 272 61 26 99 61 tfor:TF1986|3end_hypothetical_protein_2137286..2137436_POSITIVE 269 188 142 81 35 tfor:TF2657|3end_conserved_hypothetical_protein_2830873..2831023_POSITIVE 269 80 34 73 33 tfor:TF1437|3end_hypothetical_protein_1522361..1522511_POSITIVE 266 48 6 77 28 tfor:TF1350|3end_possible_transcriptional_regulator_1430636..1430786_POSITIVE 264 45 1 100 49 tfor:TF2994|3end_hypothetical_protein_3210849..3210999_POSITIVE 264 50 1 123 76 tfor:TF2024|3end_conserved_hypothetical_protein_2181979..2182129_POSITIVE 262 80 33 78 23 tfor:TF0629|3end_hypothetical_protein_666710..666860_POSITIVE 260 77 33 104 53 tfor:TF1151|3end_conserved_hypothetical_protein_1233262..1233412_POSITIVE 259 52 11 144 108 tfor:TF2116|3end_conserved_hypothetical_protein;_possible_hemagglutinin/hemolysin_2289634..2289784_POSITIVE