Origin IGS: tgttttgatactttaatgggttgaatgataattatttatgtttgtctgtttttatggttttaccttttccaaagttttcccctccaaactttttcatctttcttcttactacatactattttgtgataagtgattgataatcagtattactttgtagtataagacaatactacacattctacta .........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 tagtagaatgtgtagtattgtcttatactacaaagtaatactgattatcaatcacttatcacaaaatagtatgtagtaagaagaaagatgaaaaagtttggaggggaaaactttggaaaaggtaaaaccataaaaacagacaaacataaataattatcattcaacccattaaagtatcaaaaca Mask Tandem Repeat Region ================================================ tgttttgatactttaatgggttgaatgataattatttatgtttgtctgtttttatggttttaccttttccaaagttttcccctccaaactttttcatctttcttcttactacatactattttgtgataagtgattgataatcagtattactttgtagtataagacaatactacacattctacta Find is-nt database================================================ Query_seq: TF1633:TF1635|TF1633:TF1635:mobilizable transposon, excision protein:conserved hypothetical protein; possible helicase:->->:1745409..1745592 184 tgttttgatactttaatgggttgaatgataattatttatgtttgtctgtttttatggttttaccttttccaaagttttcccctccaaactttttcatctttcttcttactacatactattttgtgataagtgattgataatcagtattactttgtagtataagacaatactacacattctacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1633:TF1635|TF1633:TF1635:mobilizable transposon, excision protein:conserved hypothetical protein; possible helicase:->->:1745409..1745592 184 tgttttgatactttaatgggttgaatgataattatttatgtttgtctgtttttatggttttaccttttccaaagttttcccctccaaactttttcatctttcttcttactacatactattttgtgataagtgattgataatcagtattactttgtagtataagacaatactacacattctacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1633:TF1635|TF1633:TF1635:mobilizable transposon, excision protein:conserved hypothetical protein; possible helicase:->->:1745409..1745592 184 tgttttgatactttaatgggttgaatgataattatttatgtttgtctgtttttatggttttaccttttccaaagttttcccctccaaactttttcatctttcttcttactacatactattttgtgataagtgattgataatcagtattactttgtagtataagacaatactacacattctacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgttttgatactttaatgggttgaatgataattatttatgtttgtctgtttttatggttttaccttttccaaagttttcccctccaaactttttcatctttcttcttactacatactattttgtgataagtgattgataatcagtattactttgtagtataagacaatactacacattctacta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 25 End: 123 ........................ M I I I Y V C L F L W F Y L F Q S F P L Q T F S S F F L L H T I L ............................................................. Protein_Len: 31 Strand: + Start: 38 End: 130 ..................................... M F V C F Y G F T F S K V F P S K L F H L S S Y Y I L F C D K ...................................................... Protein_Len: 38 Strand: + Start: 21 End: 134 .................... M N D N Y L C L S V F M V L P F P K F S P P N F F I F L L T T Y Y F V I S D .................................................. tgttttgatactttaatgggttgaatgataattatttatgtttgtctgtttttatggttttaccttttccaaagttttcccctccaaactttttcatctttcttcttactacatactattttgtgataagtgattgataatcagtattactttgtagtataagacaatactacacattctacta 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================================================ tgttttgatactttaatgggttgaatgataattatttatgtttgtctgtttttatggttttaccttttccaaagttttcccctccaaactttttcatctttcttcttactacatactattttgtgataagtgattgataatcagtattactttgtagtataagacaatactacacattctacta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1633:TF1635|TF1633:TF1635:mobilizable transposon, excision protein:conserved hypothetical protein; possible helicase:->->:1745409..1745592 184 tgttttgatactttaatgggttgaatgataattatttatgtttgtctgtttttatggttttaccttttccaaagttttcccctccaaactttttcatctttcttcttactacatactattttgtgataagtgattgataatcagtattactttgtagtataagacaatactacacattctacta Intra-Species Hit: Count: 1 Min: 1 Max: 184 Len: 184 Subject: tfor_TF1633_TF1635|mobilizable transposon, excision protein:conserved hypothetical protein; possible helicase|POSITIVE:POSITIVE|[1745409,1745592]|184 HSP 1 e-value: 4.0E-44 bit: 178.0 Len: 90 Query Start:95 Query End:184 Subject Strand: POSITIVE Subject Start: 95 Subject End: 184 ..............................................................................................catctttcttcttactacatactattttgtgataagtgattgataatcagtattactttgtagtataagacaatactacacattctacta ..............................................................................................catctttcttcttactacatactattttgtgataagtgattgataatcagtattactttgtagtataagacaatactacacattctacta HSP 2 e-value: 1.0E-10 bit: 67.9 Len: 34 Query Start:1 Query End:34 Subject Strand: POSITIVE Subject Start: 1 Subject End: 34 tgttttgatactttaatgggttgaatgataatta...................................................................................................................................................... tgttttgatactttaatgggttgaatgataatta...................................................................................................................................................... Inter-species Hit: Count: 1 Min: 1 Max: 184 Len: 184 Subject: pint_PI0377_PI0378|DNA primase/mobilizable transposon, excision protein:conserved hypothetical protein; possible helicase|POSITIVE:POSITIVE|[347884,348165]|282 HSP 1 e-value: 3.0E-39 bit: 163.0 Len: 90 Query Start:95 Query End:184 Subject Strand: POSITIVE Subject Start: 193 Subject End: 282 ..............................................................................................catctttcttcttactacatactattttgtgataagtgattgataatcagtattactttgtagtataagacaatactacacattctacta ..............................................................................................catctttcttcttaccacatactattttgtgataaatgattgataatcagtattactttgtagtataagacaatactacacattctacta HSP 2 e-value: 1.0E-10 bit: 67.9 Len: 34 Query Start:1 Query End:34 Subject Strand: POSITIVE Subject Start: 100 Subject End: 133 tgttttgatactttaatgggttgaatgataatta...................................................................................................................................................... tgttttgatactttaatgggttgaatgataatta...................................................................................................................................................... Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUUUGAUACUUUAAUGGGUUGAAUGAUAAUUAUUUAUGUUUGUCUGUUUUUAUGGUUUUACCUUUUCCAAAGUUUUCCCCUCCAAACUUUUUCAUCUUUCUUCUUACUACAUACUAUUUUGUGAUAAGUGAUUGAUAAUCAGUAUUACUUUGUAGUAUAAGACAAUACUACACAUUCUACUA .....(((((((.....((((.((((.((((..((..((....))..))..)))).)))).)))).....(((((((........)))))))...(((..((..((((.((((........)))).)))).))..)))....)))))))...((((((((......)))))))).......... (-31.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUAGAAUGUGUAGUAUUGUCUUAUACUACAAAGUAAUACUGAUUAUCAAUCACUUAUCACAAAAUAGUAUGUAGUAAGAAGAAAGAUGAAAAAGUUUGGAGGGGAAAACUUUGGAAAAGGUAAAACCAUAAAAACAGACAAACAUAAAUAAUUAUCAUUCAACCCAUUAAAGUAUCAAAACA ..((.(((((((((((((......))))))))..(((((.....(((((..((.(((((.(((........))).)))))..))..)))))....(((((...((....(((((....)))))....)).......)))))...........)))))))))).))................... (-30.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 282 95 64 168 130 tfor:TF2950|5end_chloromuconate_cycloisomerase_3157399..3157629_POSITIVE 278 88 55 86 45 tfor:TF1773|5end_hypothetical_protein_1910939..1911169_POSITIVE 277 80 38 50 2 tfor:TF1908|5end_possible_phosphoglycerate_mutase_2062695..2062925_POSITIVE 256 57 15 216 173 tfor:TF0578|5end_ribonuclease_G_607939..608169_POSITIVE 252 60 17 128 81 tfor:TF0699|5end_pyridoxal_phosphate_biosynthetic_protein_741556..741786_POSITIVE 251 108 73 147 107 tfor:TF0266|5end_conserved_hypothetical_protein_295097..295327_POSITIVE 250 64 21 133 91 tfor:TF2371|5end_conserved_hypothetical_protein_2536974..2537204_POSITIVE 249 60 12 185 133 tfor:TF1023|5end_ABC_transporter,_permease_component_1079197..1079427_POSITIVE 247 110 63 145 82 tfor:TF1873|5end_possible_hemolysin_secretion_protein_2026745..2026975_POSITIVE 247 110 63 145 82 tfor:TF1131|5end_membrane-fusion_protein;_possible_hemolysin_secretion_protein_1207611..1207841_POSITIVE 246 108 65 86 32 tfor:TF0324|5end_conserved_hypothetical_protein_351228..351458_POSITIVE 245 94 56 35 2 tfor:TF0107|5end_ion_channel_protein_113913..114143_POSITIVE 241 101 65 41 8 tfor:TF2298|5end_hypothetical_protein_2449681..2449911_POSITIVE 241 109 72 183 145 tfor:TF0816|5end_hypothetical_protein_874217..874447_POSITIVE 239 76 36 120 72 tfor:TF1789|5end_conserved_hypothetical_protein_1930219..1930449_POSITIVE 239 85 42 197 144 tfor:TF1490|5end_hypothetical_protein_1590238..1590468_POSITIVE 239 106 62 42 9 tfor:TF0168|5end_hypothetical_protein_178160..178390_POSITIVE 238 110 69 92 50 tfor:TF2385|5end_conserved_hypothetical_protein;_possible_MazG_family_protein_2550676..2550906_POSITIVE 238 80 34 178 130 tfor:TF1432|5end_possible_hemolysin_A_1515936..1516166_POSITIVE 234 104 64 148 113 tfor:TF0662|5end_hypothetical_protein_708316..708546_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 261 106 63 56 15 tfor:TF0886|3end_conjugative_transposon_protein_fragment_938152..938302_POSITIVE 256 57 15 133 90 tfor:TF0577|3end_possible_endo-1,4-beta-xylanase_B_607936..608086_POSITIVE 251 108 73 140 100 tfor:TF0265|3end_conserved_hypothetical_protein,_Rhs_family_295170..295320_POSITIVE 250 64 21 123 81 tfor:TF2370|3end_tRNA_delta-2_isopentenylpyrophosphate_transferase_2537044..2537194_POSITIVE 247 110 63 131 68 tfor:TF1872|3end_ABC_transporter,_ATP-binding/permease_component_2026811..2026961_POSITIVE 247 110 63 131 68 tfor:TF1130|3end_ABC_transporter_ATP-binding_protein/permease_component_1207677..1207827_POSITIVE 239 80 38 115 68 tfor:TF1690|3end_chaperone_protein_dnaK_1808721..1808871_POSITIVE 239 106 62 36 3 tfor:TF0167|3end_conserved_hypothetical_protein_178234..178384_POSITIVE 238 110 69 92 50 tfor:TF2384|3end_thiol:disulfide_interchange_protein_2550756..2550906_POSITIVE 237 172 131 65 22 tfor:TF2299|3end_hypothetical_protein_2450247..2450397_POSITIVE 230 145 116 127 99 tfor:TF0580|3end_A/G-specific_adenine_glycosylase_611390..611540_POSITIVE 221 56 11 67 25 tfor:TF1520|3end_transaldolase_1628883..1629033_POSITIVE 220 124 89 83 48 tfor:TF1786|3end_hypothetical_protein_1926425..1926575_POSITIVE 218 104 64 76 26 tfor:TF2311|3end_conserved_hypothetical_protein_2471612..2471762_POSITIVE 217 100 51 84 29 tfor:TF2855|3end_ATPase,_AAA_family_3042011..3042161_POSITIVE 215 70 22 107 47 tfor:TF2893|3end_conserved_hypothetical_protein;_possible_phosphoesterase_3082039..3082189_POSITIVE 211 105 62 83 33 tfor:TF2159|3end_conserved_hypothetical_protein_2336076..2336226_POSITIVE 208 105 74 117 86 tfor:TF2158|3end_conserved_hypothetical_protein_2334584..2334734_POSITIVE 207 69 39 89 51 tfor:TF3149|3end_conserved_hypothetical_protein_3385592..3385742_POSITIVE 206 102 66 103 70 tfor:TF2935|3end_possible_recombinase_3138587..3138737_POSITIVE