Origin IGS: taattcaaattcattatgagaacaaaaagtcaaaaacttggcaattggattctggaagaatcgattgagattgattcaatgggatcaatcaaaggtggaaaattccaaaattttccttcagctcgcactgatgagtctgggtcaacttatgaaggtcaaaccctcgaagaagttatagtaaccccaccaccatcatcggtattttaacttaattctgagagagggctgagactgcttcagtccctctcattttcttttctaatttttataaca .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgttataaaaattagaaaagaaaatgagagggactgaagcagtctcagccctctctcagaattaagttaaaataccgatgatggtggtggggttactataacttcttcgagggtttgaccttcataagttgacccagactcatcagtgcgagctgaaggaaaattttggaattttccacctttgattgatcccattgaatcaatctcaatcgattcttccagaatccaattgccaagtttttgactttttgttctcataatgaatttgaatta Mask Tandem Repeat Region ================================================ taattcaaattcattatgagaacaaaaagtcaaaaacttggcaattggattctggaagaatcgattgagattgattcaatgggatcaatcaaaggtggaaaattccaaaattttccttcagctcgcactgatgagtctgggtcaacttatgaaggtcaaaccctcgaagaagttatagtaaccccaccaccatcatcggtattttaacttaattctgagagagggctgagactgcttcagtccctctcattttcttttctaatttttataaca Find is-nt database================================================ Query_seq: TF2139:TF2140|TF2139:TF2140:hypothetical protein:hypothetical protein:->->:2316239..2316511 273 taattcaaattcattatgagaacaaaaagtcaaaaacttggcaattggattctggaagaatcgattgagattgattcaatgggatcaatcaaaggtggaaaattccaaaattttccttcagctcgcactgatgagtctgggtcaacttatgaaggtcaaaccctcgaagaagttatagtaaccccaccaccatcatcggtattttaacttaattctgagagagggctgagactgcttcagtccctctcattttcttttctaatttttataaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2139:TF2140|TF2139:TF2140:hypothetical protein:hypothetical protein:->->:2316239..2316511 273 taattcaaattcattatgagaacaaaaagtcaaaaacttggcaattggattctggaagaatcgattgagattgattcaatgggatcaatcaaaggtggaaaattccaaaattttccttcagctcgcactgatgagtctgggtcaacttatgaaggtcaaaccctcgaagaagttatagtaaccccaccaccatcatcggtattttaacttaattctgagagagggctgagactgcttcagtccctctcattttcttttctaatttttataaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2139:TF2140|TF2139:TF2140:hypothetical protein:hypothetical protein:->->:2316239..2316511 273 taattcaaattcattatgagaacaaaaagtcaaaaacttggcaattggattctggaagaatcgattgagattgattcaatgggatcaatcaaaggtggaaaattccaaaattttccttcagctcgcactgatgagtctgggtcaacttatgaaggtcaaaccctcgaagaagttatagtaaccccaccaccatcatcggtattttaacttaattctgagagagggctgagactgcttcagtccctctcattttcttttctaatttttataaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taattcaaattcattatgagaacaaaaagtcaaaaacttggcaattggattctggaagaatcgattgagattgattcaatgggatcaatcaaaggtggaaaattccaaaattttccttcagctcgcactgatgagtctgggtcaacttatgaaggtcaaaccctcgaagaagttatagtaaccccaccaccatcatcggtattttaacttaattctgagagagggctgagactgcttcagtccctctcattttcttttctaatttttataaca Predict ORF larger than 30AA ================================================ Protein_Len: 46 Strand: + Start: 38 End: 175 ..................................... M A I G F W K N R L R L I Q W D Q S K V E N S K I F L Q L A L M S L G Q L M K V K P S K K L .................................................................................................. Protein_Len: 60 Strand: + Start: 13 End: 204 ............ M M R T K S Q K L G N W I L E E S I E I D S M G S I K G G K F Q N F P S A R T D E S G S T Y E G Q T L E E V I V T P P P ..................................................................... Protein_Len: 32 Strand: - Start: 33 End: 128 ................................ F S P L Q I R S S D I S I S E I P D I L P P F N W F K G E A R M ................................................................................................................................................. taattcaaattcattatgagaacaaaaagtcaaaaacttggcaattggattctggaagaatcgattgagattgattcaatgggatcaatcaaaggtggaaaattccaaaattttccttcagctcgcactgatgagtctgggtcaacttatgaaggtcaaaccctcgaagaagttatagtaaccccaccaccatcatcggtattttaacttaattctgagagagggctgagactgcttcagtccctctcattttcttttctaatttttataaca 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: 16 End: 45 ...............ATTGCCAAGTTTTTGACTTTTTGTTCTCAT.................................................................................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taattcaaattcattatgagaacaaaaagtcaaaaacttggcaattggattctggaagaatcgattgagattgattcaatgggatcaatcaaaggtggaaaattccaaaattttccttcagctcgcactgatgagtctgggtcaacttatgaaggtcaaaccctcgaagaagttatagtaaccccaccaccatcatcggtattttaacttaattctgagagagggctgagactgcttcagtccctctcattttcttttctaatttttataaca Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 93 HP_score: -9.0 Tail_Score: -5.22137 Start: 216 End: 249 Full_Region: ATTTTAACTTAATTC TGAGAGAGGGCTGAG ACTGC TTCAGTCCCTCTCA TTTTCTTTTCTAATT .......................................................................................................................................................................................................................TGAGAGAGGGCTGAGACTGCTTCAGTCCCTCTCA........................ TransTerm Strand: + Conf: 79 HP_score: -9.4 Tail_Score: -3.70842 Start: 219 End: 248 Full_Region: TTAACTTAATTCTGA GAGAGGGCTGAG ACTGC TTCAGTCCCTCTC ATTTTCTTTTCTAAT ..........................................................................................................................................................................................................................GAGAGGGCTGAGACTGCTTCAGTCCCTCTC......................... Find igs database================================================ Query_seq: TF2139:TF2140|TF2139:TF2140:hypothetical protein:hypothetical protein:->->:2316239..2316511 273 taattcaaattcattatgagaacaaaaagtcaaaaacttggcaattggattctggaagaatcgattgagattgattcaatgggatcaatcaaaggtggaaaattccaaaattttccttcagctcgcactgatgagtctgggtcaacttatgaaggtcaaaccctcgaagaagttatagtaaccccaccaccatcatcggtattttaacttaattctgagagagggctgagactgcttcagtccctctcattttcttttctaatttttataaca Intra-Species Hit: Count: 1 Min: 1 Max: 273 Len: 273 Subject: tfor_TF2139_TF2140|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2316239,2316511]|273 HSP 1 e-value: 1.0E-153 bit: 541.0 Len: 273 Query Start:1 Query End:273 Subject Strand: POSITIVE Subject Start: 1 Subject End: 273 taattcaaattcattatgagaacaaaaagtcaaaaacttggcaattggattctggaagaatcgattgagattgattcaatgggatcaatcaaaggtggaaaattccaaaattttccttcagctcgcactgatgagtctgggtcaacttatgaaggtcaaaccctcgaagaagttatagtaaccccaccaccatcatcggtattttaacttaattctgagagagggctgagactgcttcagtccctctcattttcttttctaatttttataaca taattcaaattcattatgagaacaaaaagtcaaaaacttggcaattggattctggaagaatcgattgagattgattcaatgggatcaatcaaaggtggaaaattccaaaattttccttcagctcgcactgatgagtctgggtcaacttatgaaggtcaaaccctcgaagaagttatagtaaccccaccaccatcatcggtattttaacttaattctgagagagggctgagactgcttcagtccctctcattttcttttctaatttttataaca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUCAAAUUCAUUAUGAGAACAAAAAGUCAAAAACUUGGCAAUUGGAUUCUGGAAGAAUCGAUUGAGAUUGAUUCAAUGGGAUCAAUCAAAGGUGGAAAAUUCCAAAAUUUUCCUUCAGCUCGCACUGAUGAGUCUGGGUCAACUUAUGAAGGUCAAACCCUCGAAGAAGUUAUAGUAACCCCACCACCAUCAUCGGUAUUUUAACUUAAUUCUGAGAGAGGGCUGAGACUGCUUCAGUCCCUCUCAUUUUCUUUUCUAAUUUUUAUAACA .............((((((((.......(((((....))))).((((((....((((((..((((((((((((((((....)))))))))......((((((((....)))))))).)))).))).((((((((...(((.....(((.(((.((.....)).))))))..((((...))))....)))...))))))))................(((((.((((((((.....))))))))))))).))))))..)))))))))))))).. (-70.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUAUAAAAAUUAGAAAAGAAAAUGAGAGGGACUGAAGCAGUCUCAGCCCUCUCUCAGAAUUAAGUUAAAAUACCGAUGAUGGUGGUGGGGUUACUAUAACUUCUUCGAGGGUUUGACCUUCAUAAGUUGACCCAGACUCAUCAGUGCGAGCUGAAGGAAAAUUUUGGAAUUUUCCACCUUUGAUUGAUCCCAUUGAAUCAAUCUCAAUCGAUUCUUCCAGAAUCCAAUUGCCAAGUUUUUGACUUUUUGUUCUCAUAAUGAAUUUGAAUUA .(((((...................(((((((.((((.......)))))))))))..(((((.(((((((((....((((((..(((((((((((...((((((....(((((.....)))))..))))))...((((....(((((....))))).((((((((....))))))))...))))..))))))))))).))).))).((((.(((((.....)))))..))))......)))))))))...))))).)))))............ (-70.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 333 248 214 205 165 tfor:TF0822|5end_hypothetical_protein_880487..880717_POSITIVE 333 248 214 205 165 tfor:TF0821|5end_hypothetical_protein_879879..880109_POSITIVE 325 256 216 77 33 tfor:TF1428|5end_conserved_hypothetical_protein_1513566..1513796_POSITIVE 322 157 116 56 13 tfor:TF0464|5end_precorrin_methylase_480211..480441_POSITIVE 306 244 204 231 186 tfor:TF2191|5end_hypothetical_protein_2365934..2366164_POSITIVE 303 157 112 177 130 tfor:TF1398|5end_conserved_hypothetical_protein_1471474..1471704_POSITIVE 301 254 216 80 40 tfor:TF2383|5end_hypothetical_protein_2548300..2548530_POSITIVE 300 258 217 99 66 tfor:TF2681|5end_conserved_hypothetical_protein_2855796..2856026_POSITIVE 299 248 204 191 141 tfor:TF0678|5end_hypothetical_protein_721103..721333_POSITIVE 297 168 122 223 177 tfor:TF2772|5end_tRNA_pseudouridine_synthase_B_2957383..2957613_POSITIVE 295 258 222 229 185 tfor:TF2824|5end_nucleoside-transporting_protein_nupG_3014701..3014931_POSITIVE 295 255 212 202 168 tfor:TF1085|5end_Fe-S_oxidoreductase_1154891..1155121_POSITIVE 293 169 125 200 157 tfor:TF2247|5end_transfer_region-related_protein,_TraA_2421463..2421693_POSITIVE 292 228 181 64 8 tfor:TF1600|5end_uroporphyrinogen-III_synthase_1713964..1714194_POSITIVE 291 259 213 151 96 tfor:TF1327|5end_L-fucose_permease_1405790..1406020_POSITIVE 291 155 114 230 179 tfor:TF0236|5end_multidrug_resistance_protein_261779..262009_POSITIVE 290 254 226 33 5 tfor:TF2818|5end_acetylornithine_aminotransferase_3007739..3007969_POSITIVE 290 258 213 101 53 tfor:TF1342|5end_possible_lipoprotein_1423125..1423355_POSITIVE 288 167 121 210 152 tfor:TF2912|5end_hypothetical_protein_3106508..3106738_POSITIVE 287 259 215 200 148 tfor:TF0117|5end_2-dehydro-3-deoxygluconokinase_128682..128912_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 322 157 116 56 13 tfor:TF0463|3end_precorrin-6Y_C5,15-methyltransferase_480291..480441_POSITIVE 314 254 214 77 36 tfor:TF2911|3end_hypothetical_protein_3106640..3106790_POSITIVE 313 256 217 43 4 tfor:TF1427|3end_penicillin-binding_protein_2_1513612..1513762_POSITIVE 292 228 181 74 18 tfor:TF1599|3end_ribonuclease_P_protein_component_1714054..1714204_POSITIVE 291 259 213 151 96 tfor:TF1325|3end_L-fucose_isomerase_1405870..1406020_POSITIVE 290 258 213 96 48 tfor:TF1341|3end_glycogen_synthase_1423200..1423350_POSITIVE 278 200 152 144 90 tfor:TF0128|3end_hypothetical_protein_140556..140706_POSITIVE 276 255 216 70 34 tfor:TF0860|3end_conserved_hypothetical_protein_913369..913519_POSITIVE 275 248 212 43 4 tfor:TF2999|3end_conserved_hypothetical_protein_3215891..3216041_POSITIVE 275 253 215 56 3 tfor:TF2592|3end_conserved_hypothetical_protein_2762807..2762957_POSITIVE 275 258 215 129 76 tfor:TF1090|3end_hypothetical_protein_1159360..1159510_POSITIVE 271 254 217 66 23 tfor:TF2787|3end_30S_ribosomal_protein_S1_2972258..2972408_POSITIVE 271 260 216 100 47 tfor:TF2325|3end_conserved_hypothetical_protein_2484659..2484809_POSITIVE 268 195 151 43 2 tfor:TF2579|3end_30S_ribosomal_protein_S4_2747884..2748034_POSITIVE 267 170 122 56 17 tfor:TF1818|3end_conserved_hypothetical_protein_1958754..1958904_POSITIVE 266 98 53 79 32 tfor:TF2782|3end_conserved_hypothetical_protein_2967356..2967506_POSITIVE 266 179 132 83 33 tfor:TF2104|3end_transposase_2276433..2276583_POSITIVE 266 179 132 83 33 tfor:TF0449|3end_transposase_469209..469359_POSITIVE 266 179 132 83 33 tfor:TF0353|3end_transposase_element_372543..372693_POSITIVE 265 253 213 94 50 tfor:TF1244|3end_hypothetical_protein_1328813..1328963_POSITIVE