Origin IGS: taaaaacaattttgctttctgggggagcccgaaccgttaagggagcaataaactaagtactattttggatgacggctgcaaggaaatgactccttgcggccgttttctttttacggcgcagaaaagcgtcggcctgcgaaacagaaaaaaccgaacgcattacaataataaaagacaatgtccgttttattatcagatgtaatcaaatacagaaa .........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 tttctgtatttgattacatctgataataaaacggacattgtcttttattattgtaatgcgttcggttttttctgtttcgcaggccgacgcttttctgcgccgtaaaaagaaaacggccgcaaggagtcatttccttgcagccgtcatccaaaatagtacttagtttattgctcccttaacggttcgggctcccccagaaagcaaaattgttttta Mask Tandem Repeat Region ================================================ taaaaacaattttgctttctgggggagcccgaaccgttaagggagcaataaactaagtactattttggatgacggctgcaaggaaatgactccttgcggccgttttctttttacggcgcagaaaagcgtcggcctgcgaaacagaaaaaaccgaacgcattacaataataaaagacaatgtccgttttattatcagatgtaatcaaatacagaaa Find is-nt database================================================ Query_seq: TF0596:TF0597|TF0596:TF0597:conserved hypothetical protein:hypothetical protein:->->:628713..628927 215 taaaaacaattttgctttctgggggagcccgaaccgttaagggagcaataaactaagtactattttggatgacggctgcaaggaaatgactccttgcggccgttttctttttacggcgcagaaaagcgtcggcctgcgaaacagaaaaaaccgaacgcattacaataataaaagacaatgtccgttttattatcagatgtaatcaaatacagaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0596:TF0597|TF0596:TF0597:conserved hypothetical protein:hypothetical protein:->->:628713..628927 215 taaaaacaattttgctttctgggggagcccgaaccgttaagggagcaataaactaagtactattttggatgacggctgcaaggaaatgactccttgcggccgttttctttttacggcgcagaaaagcgtcggcctgcgaaacagaaaaaaccgaacgcattacaataataaaagacaatgtccgttttattatcagatgtaatcaaatacagaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0596:TF0597|TF0596:TF0597:conserved hypothetical protein:hypothetical protein:->->:628713..628927 215 taaaaacaattttgctttctgggggagcccgaaccgttaagggagcaataaactaagtactattttggatgacggctgcaaggaaatgactccttgcggccgttttctttttacggcgcagaaaagcgtcggcctgcgaaacagaaaaaaccgaacgcattacaataataaaagacaatgtccgttttattatcagatgtaatcaaatacagaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaaacaattttgctttctgggggagcccgaaccgttaagggagcaataaactaagtactattttggatgacggctgcaaggaaatgactccttgcggccgttttctttttacggcgcagaaaagcgtcggcctgcgaaacagaaaaaaccgaacgcattacaataataaaagacaatgtccgttttattatcagatgtaatcaaatacagaaa Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 76 End: 165 ........................................................................... M Q G N D S L R P F S F Y G A E K R R P A K Q K K P N A L Q .................................................. Protein_Len: 46 Strand: + Start: 62 End: 199 ............................................................. M L D D G C K E M T P C G R F L F T A Q K S V G L R N R K N R T H Y N N K R Q C P F Y Y Q M ................ Protein_Len: 33 Strand: - Start: 114 End: 212 ................................................................................................................. P A S F R R G A F C F F G F A N C Y Y F V I D T K N D S T I L Y M ... Protein_Len: 47 Strand: - Start: 56 End: 196 ....................................................... T S N Q I V A A L F H S R A A T K K K R R L F A D A Q S V S F V S R M V I I F S L T R K I I M ................... Protein_Len: 35 Strand: - Start: 40 End: 144 ....................................... P L L L S L V I K S S P Q L S I V G Q P R K R K V A C F L T P R R F M ....................................................................... taaaaacaattttgctttctgggggagcccgaaccgttaagggagcaataaactaagtactattttggatgacggctgcaaggaaatgactccttgcggccgttttctttttacggcgcagaaaagcgtcggcctgcgaaacagaaaaaaccgaacgcattacaataataaaagacaatgtccgttttattatcagatgtaatcaaatacagaaa 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================================================ taaaaacaattttgctttctgggggagcccgaaccgttaagggagcaataaactaagtactattttggatgacggctgcaaggaaatgactccttgcggccgttttctttttacggcgcagaaaagcgtcggcctgcgaaacagaaaaaaccgaacgcattacaataataaaagacaatgtccgttttattatcagatgtaatcaaatacagaaa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -15.8 Tail_Score: -5.26119 Start: 73 End: 102 Full_Region: TACTATTTTGGATGA CGGCTGCAAGGA AATGAC TCCTTGCGGCCG TTTTCTTTTTACGGC ........................................................................CGGCTGCAAGGAAATGACTCCTTGCGGCCG................................................................................................................. Find igs database================================================ Query_seq: TF0596:TF0597|TF0596:TF0597:conserved hypothetical protein:hypothetical protein:->->:628713..628927 215 taaaaacaattttgctttctgggggagcccgaaccgttaagggagcaataaactaagtactattttggatgacggctgcaaggaaatgactccttgcggccgttttctttttacggcgcagaaaagcgtcggcctgcgaaacagaaaaaaccgaacgcattacaataataaaagacaatgtccgttttattatcagatgtaatcaaatacagaaa Intra-Species Hit: Count: 1 Min: 1 Max: 215 Len: 215 Subject: tfor_TF0596_TF0597|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[628713,628927]|215 HSP 1 e-value: 1.0E-118 bit: 426.0 Len: 215 Query Start:1 Query End:215 Subject Strand: POSITIVE Subject Start: 1 Subject End: 215 taaaaacaattttgctttctgggggagcccgaaccgttaagggagcaataaactaagtactattttggatgacggctgcaaggaaatgactccttgcggccgttttctttttacggcgcagaaaagcgtcggcctgcgaaacagaaaaaaccgaacgcattacaataataaaagacaatgtccgttttattatcagatgtaatcaaatacagaaa taaaaacaattttgctttctgggggagcccgaaccgttaagggagcaataaactaagtactattttggatgacggctgcaaggaaatgactccttgcggccgttttctttttacggcgcagaaaagcgtcggcctgcgaaacagaaaaaaccgaacgcattacaataataaaagacaatgtccgttttattatcagatgtaatcaaatacagaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAACAAUUUUGCUUUCUGGGGGAGCCCGAACCGUUAAGGGAGCAAUAAACUAAGUACUAUUUUGGAUGACGGCUGCAAGGAAAUGACUCCUUGCGGCCGUUUUCUUUUUACGGCGCAGAAAAGCGUCGGCCUGCGAAACAGAAAAAACCGAACGCAUUACAAUAAUAAAAGACAAUGUCCGUUUUAUUAUCAGAUGUAAUCAAAUACAGAAA .........((((((....((((....))))..((((.(((((((.......(((((......)))))..((((((((((((((......))))))))))))))))))))).)))).))))))..(((((((.(((.....)))......))).)))).(((((((((((((((((...)))..)))))))))....)))))............. (-62.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUCUGUAUUUGAUUACAUCUGAUAAUAAAACGGACAUUGUCUUUUAUUAUUGUAAUGCGUUCGGUUUUUUCUGUUUCGCAGGCCGACGCUUUUCUGCGCCGUAAAAAGAAAACGGCCGCAAGGAGUCAUUUCCUUGCAGCCGUCAUCCAAAAUAGUACUUAGUUUAUUGCUCCCUUAACGGUUCGGGCUCCCCCAGAAAGCAAAAUUGUUUUUA ((((((......((((((....((((((((..((((...))))))))))))))))))((((.((((.....(((.....)))))))))))...((((.(((((.....((..(((((.((((((((....)))))))).)))))..))...(((((........))))).........))))).))))......))))))............... (-57.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 445 110 66 154 87 tfor:TF2223|5end_CTn_excision__protein_2394247..2394477_POSITIVE 436 139 94 165 123 tfor:TF0587|5end_outer_membrane_protein_618319..618549_POSITIVE 434 140 93 204 157 tfor:TF0527|5end_prolyl_endopeptidase_549672..549902_POSITIVE 427 140 96 76 32 tfor:TF1742|5end_TPR_repeat-containing_protein_1873129..1873359_POSITIVE 420 138 91 50 2 tfor:TF0888|5end_transfer_region-related_protein,_TraN_938392..938622_POSITIVE 411 138 91 171 122 tfor:TF1848|5end_conserved_hypothetical_protein_1997589..1997819_POSITIVE 397 137 91 57 8 tfor:TF2515|5end_outer_membrane_protein,_TonB_dependent_receptor_2692854..2693084_POSITIVE 396 139 95 175 131 tfor:TF2492|5end_NifU-related_protein_2666683..2666913_POSITIVE 393 138 101 178 135 tfor:TF2582|5end_ABC_transporter,_ATP-binding_protein_2749433..2749663_POSITIVE 389 139 91 168 127 tfor:TF1181|5end_methylated-DNA--[protein]-cysteine_S-methyltransferase_1267522..1267752_POSITIVE 387 139 92 141 96 tfor:TF0992|5end_hypothetical_protein_1048251..1048481_POSITIVE 384 137 94 161 111 tfor:TF1948|5end_conserved_hypothetical_protein_2095942..2096172_POSITIVE 384 139 91 187 146 tfor:TF0211|5end_DNA_polymerase_III,_epsilon_subunit_236905..237135_POSITIVE 380 139 91 48 6 tfor:TF1758|5end_conserved_hypothetical_protein_1894769..1894999_POSITIVE 377 139 92 81 19 tfor:TF2833|5end_lipid_A_disaccharide_synthase_3023973..3024203_POSITIVE 377 138 97 39 2 tfor:TF1739|5end_possible_sulfatase_1866983..1867213_POSITIVE 376 137 91 156 96 tfor:TF2657|5end_conserved_hypothetical_protein_2829729..2829959_POSITIVE 372 136 91 231 165 tfor:TF0439|5end_Na+-transporting_NADH:ubiquinone_oxidoreductase,_subunit_1_462284..462514_POSITIVE 372 138 113 225 191 tfor:TF0232|5end_conserved_hypothetical_protein_258347..258577_POSITIVE 371 137 92 58 7 tfor:TF1602|5end_L-aspartate_oxidase_1715579..1715809_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 471 138 91 65 10 tfor:TF1181|3end_methylated-DNA--[protein]-cysteine_S-methyltransferase_1267991..1268141_POSITIVE 407 134 92 150 113 tfor:TF1612|3end_conserved_hypothetical_protein_1729866..1730016_POSITIVE 387 139 92 144 99 tfor:TF0991|3end_probable_NAD(FAD)-dependent_dehydrogenase_1048334..1048484_POSITIVE 386 107 63 69 16 tfor:TF1301|3end_hypothetical_protein_1383487..1383637_POSITIVE 371 113 75 59 1 tfor:TF2221|3end_CTn_excision_protein_2394229..2394379_POSITIVE 363 138 93 49 3 tfor:TF1834|3end_3-isopropylmalate_dehydrogenase_1984311..1984461_POSITIVE 363 117 74 66 21 tfor:TF1334|3end_hypothetical_protein_1416423..1416573_POSITIVE 357 118 76 112 73 tfor:TF2783|3end_aminotransferase,_PatB_family_2969297..2969447_POSITIVE 346 139 94 140 80 tfor:TF0744|3end_DNA_polymerase_III_subunit,_gamma/tau_792308..792458_POSITIVE 346 159 114 66 22 tfor:TF0300|3end_hypothetical_protein_325541..325691_POSITIVE 344 138 97 142 98 tfor:TF2515|3end_outer_membrane_protein,_TonB_dependent_receptor_2694865..2695015_POSITIVE 343 139 94 144 100 tfor:TF0214|3end_DNA_recombination_and_repair_protein,_RecN_241571..241721_POSITIVE 341 159 115 57 12 tfor:TF2992|3end_hexapeptide_transferase_family_protein_3209691..3209841_POSITIVE 337 139 94 121 77 tfor:TF2774|3end_2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_pyrophosphokinase_2959719..2959869_POSITIVE 331 159 113 76 23 tfor:TF2820|3end_argininosuccinate_synthetase_3011200..3011350_POSITIVE 329 138 91 49 4 tfor:TF0037|3end_sialic_acid-specific_9-O-acetylesterase_39991..40141_POSITIVE 328 138 96 121 74 tfor:TF0757|3end_50S_ribosomal_protein_L25;_general_stress_protein_805293..805443_POSITIVE 327 138 91 95 38 tfor:TF1428|3end_conserved_hypothetical_protein_1513996..1514146_POSITIVE 324 158 115 108 60 tfor:TF0686|3end_hypothetical_protein_732950..733100_POSITIVE 323 118 73 59 13 tfor:TF1908|3end_possible_phosphoglycerate_mutase_2063299..2063449_POSITIVE