Origin IGS: gaaagttttatgaatagacgtaaaacgagcttgtctgggattgatcttttatgaagacgttttgataatgcgaaggaggctgtccaaaaagtcctaccggactttgcagacagcctcgatatacgaaaaaggccggatataaagcgtttcgttacgcttctccgctctta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taagagcggagaagcgtaacgaaacgctttatatccggcctttttcgtatatcgaggctgtctgcaaagtccggtaggactttttggacagcctccttcgcattatcaaaacgtcttcataaaagatcaatcccagacaagctcgttttacgtctattcataaaactttc Mask Tandem Repeat Region ================================================ gaaagttttatgaatagacgtaaaacgagcttgtctgggattgatcttttatgaagacgttttgataatgcgaaggaggctgtccaaaaagtcctaccggactttgcagacagcctcgatatacgaaaaaggccggatataaagcgtttcgttacgcttctccgctctta Find is-nt database================================================ Query_seq: TF0689:TF0690|TF0689:TF0690:hypothetical protein:preprotein translocase subunit:->->:735213..735382 170 gaaagttttatgaatagacgtaaaacgagcttgtctgggattgatcttttatgaagacgttttgataatgcgaaggaggctgtccaaaaagtcctaccggactttgcagacagcctcgatatacgaaaaaggccggatataaagcgtttcgttacgcttctccgctctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0689:TF0690|TF0689:TF0690:hypothetical protein:preprotein translocase subunit:->->:735213..735382 170 gaaagttttatgaatagacgtaaaacgagcttgtctgggattgatcttttatgaagacgttttgataatgcgaaggaggctgtccaaaaagtcctaccggactttgcagacagcctcgatatacgaaaaaggccggatataaagcgtttcgttacgcttctccgctctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0689:TF0690|TF0689:TF0690:hypothetical protein:preprotein translocase subunit:->->:735213..735382 170 gaaagttttatgaatagacgtaaaacgagcttgtctgggattgatcttttatgaagacgttttgataatgcgaaggaggctgtccaaaaagtcctaccggactttgcagacagcctcgatatacgaaaaaggccggatataaagcgtttcgttacgcttctccgctctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gaaagttttatgaatagacgtaaaacgagcttgtctgggattgatcttttatgaagacgttttgataatgcgaaggaggctgtccaaaaagtcctaccggactttgcagacagcctcgatatacgaaaaaggccggatataaagcgtttcgttacgcttctccgctctta Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 14 End: 139 ............. M D V K R A C L G L I F Y E D V L I M R R R L S K K S Y R T L Q T A S I Y E K G R I ............................... Protein_Len: 33 Strand: - Start: 11 End: 109 .......... S Y V Y F S S T Q S Q D K I F V N Q Y H S P P Q G F L G V P S Q M ............................................................. Protein_Len: 46 Strand: - Start: 3 End: 140 .. L K I F L R L V L K D P I S R K H L R K S L A F S A T W F T R G S K A S L R S I R F L G S M .............................. gaaagttttatgaatagacgtaaaacgagcttgtctgggattgatcttttatgaagacgttttgataatgcgaaggaggctgtccaaaaagtcctaccggactttgcagacagcctcgatatacgaaaaaggccggatataaagcgtttcgttacgcttctccgctctta 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: 82 Start: 40 End: 69 .......................................ATTGATCTTTTATGAAGACGTTTTGATAAT..................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gaaagttttatgaatagacgtaaaacgagcttgtctgggattgatcttttatgaagacgttttgataatgcgaaggaggctgtccaaaaagtcctaccggactttgcagacagcctcgatatacgaaaaaggccggatataaagcgtttcgttacgcttctccgctctta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -15.7 Tail_Score: -2.76453 Start: 78 End: 115 Full_Region: tttttcgtatatcga ggctgtctgcaaagtcc ggta ggactttttggacagcc tccttcgcattatca .............................................................................ggctgtctgcaaagtccggtaggactttttggacagcc....................................................... TransTerm Strand: - Conf: 73 HP_score: -5.8 Tail_Score: -4.57073 Start: 91 End: 102 Full_Region: gaggctgtctgcaaa gtcc ggta ggac tttttggacagcctc ..........................................................................................gtccggtaggac.................................................................... Find igs database================================================ Query_seq: TF0689:TF0690|TF0689:TF0690:hypothetical protein:preprotein translocase subunit:->->:735213..735382 170 gaaagttttatgaatagacgtaaaacgagcttgtctgggattgatcttttatgaagacgttttgataatgcgaaggaggctgtccaaaaagtcctaccggactttgcagacagcctcgatatacgaaaaaggccggatataaagcgtttcgttacgcttctccgctctta Intra-Species Hit: Count: 1 Min: 1 Max: 170 Len: 170 Subject: tfor_TF0689_TF0690|hypothetical protein:preprotein translocase subunit|POSITIVE:POSITIVE|[735213,735382]|170 HSP 1 e-value: 7.0E-92 bit: 337.0 Len: 170 Query Start:1 Query End:170 Subject Strand: POSITIVE Subject Start: 1 Subject End: 170 gaaagttttatgaatagacgtaaaacgagcttgtctgggattgatcttttatgaagacgttttgataatgcgaaggaggctgtccaaaaagtcctaccggactttgcagacagcctcgatatacgaaaaaggccggatataaagcgtttcgttacgcttctccgctctta gaaagttttatgaatagacgtaaaacgagcttgtctgggattgatcttttatgaagacgttttgataatgcgaaggaggctgtccaaaaagtcctaccggactttgcagacagcctcgatatacgaaaaaggccggatataaagcgtttcgttacgcttctccgctctta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAAGUUUUAUGAAUAGACGUAAAACGAGCUUGUCUGGGAUUGAUCUUUUAUGAAGACGUUUUGAUAAUGCGAAGGAGGCUGUCCAAAAAGUCCUACCGGACUUUGCAGACAGCCUCGAUAUACGAAAAAGGCCGGAUAUAAAGCGUUUCGUUACGCUUCUCCGCUCUUA ....((((((((......))))))))((((.(((((((......((((((.((....(((.........)))...(((((((((...(((((((....)))))))...)))))))))......)).)))))))))))))..((((((......))))))....))))... (-55.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGAGCGGAGAAGCGUAACGAAACGCUUUAUAUCCGGCCUUUUUCGUAUAUCGAGGCUGUCUGCAAAGUCCGGUAGGACUUUUUGGACAGCCUCCUUCGCAUUAUCAAAACGUCUUCAUAAAAGAUCAAUCCCAGACAAGCUCGUUUUACGUCUAUUCAUAAAACUUUC ...((((......(((..((((((.(((........)))...)))))).....(((((((((((.(((((((....))))))).)))))))))))...)))...........((((..................))))..))))((((((.(......).)))))).... (-48.77) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 455 117 72 107 56 tfor:TF1742|5end_TPR_repeat-containing_protein_1873129..1873359_POSITIVE 370 117 74 164 124 tfor:TF1027|5end_hypothetical_protein_1085641..1085871_POSITIVE 367 170 134 45 14 tfor:TF2724|5end_anti-sigma_factor_2898193..2898423_POSITIVE 365 117 71 105 43 tfor:TF1003|5end_conserved_hypothetical_protein;_possible_secreted_glycosylhydrolase_1058177..1058407_POSITIVE 360 170 124 175 125 tfor:TF0627|5end_conserved_hypothetical_protein_662743..662973_POSITIVE 357 109 62 84 39 tfor:TF0543|5end_glycine_cleavage_system_p-protein_572251..572481_POSITIVE 343 168 134 65 24 tfor:TF2564|5end_50S_ribosomal_protein_L14_2739604..2739834_POSITIVE 343 136 92 79 36 tfor:TF0236|5end_multidrug_resistance_protein_261779..262009_POSITIVE 341 118 71 211 150 tfor:TF2670|5end_hypothetical_protein_2842779..2843009_POSITIVE 341 118 71 225 164 tfor:TF2666|5end_hypothetical_protein_2841818..2842048_POSITIVE 338 165 131 40 8 tfor:TF0467|5end_acetyltransferase-related_protein_485936..486166_POSITIVE 327 115 75 115 71 tfor:TF2919|5end_5'-nucleotidase_family_protein_3114441..3114671_POSITIVE 327 170 131 59 20 tfor:TF2704|5end_ribonuclease_HII_2876242..2876472_POSITIVE 323 118 71 81 20 tfor:TF1168|5end_hypothetical_protein_1248755..1248985_POSITIVE 322 99 53 111 54 tfor:TF1585|5end_hypothetical_protein_1690369..1690599_POSITIVE 322 99 53 111 54 tfor:TF1584|5end_hypothetical_protein_1690245..1690475_POSITIVE 322 99 53 111 54 tfor:TF1582|5end_hypothetical_protein_1690121..1690351_POSITIVE 315 118 71 47 2 tfor:TF1444|5end_conserved_hypothetical_protein;_possible_hemin_receptor_1528223..1528453_POSITIVE 314 100 51 146 112 tfor:TF1401|5end_Holliday_junction_DNA_helicase_1476502..1476732_POSITIVE 311 135 91 50 2 tfor:TF2354|5end_dihydropteroate_synthase_2518541..2518771_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 378 118 71 85 24 tfor:TF2666|3end_hypothetical_protein_2842263..2842413_POSITIVE 370 117 74 82 42 tfor:TF1026|3end_beta-N-acetylglucosaminidase;_beta_lactamase_1085639..1085789_POSITIVE 365 117 71 80 18 tfor:TF1002|3end_replicative_DNA_helicase_1058232..1058382_POSITIVE 360 170 124 81 31 tfor:TF0626|3end_hypothetical_protein_662729..662879_POSITIVE 357 109 62 77 32 tfor:TF0542|3end_hypothetical_protein_572324..572474_POSITIVE 343 168 134 60 19 tfor:TF2563|3end_30S_ribosomal_protein_S17_2739679..2739829_POSITIVE 343 136 92 69 26 tfor:TF0235|3end_hypothetical_protein_261849..261999_POSITIVE 341 118 71 85 24 tfor:TF2668|3end_hypothetical_protein_2842733..2842883_POSITIVE 336 138 91 55 9 tfor:TF0007|3end_3-oxoacyl-[acyl-carrier-protein]_synthase_III_3599..3749_POSITIVE 334 119 71 136 85 tfor:TF2953|3end_possible_TonB-dependent_outer_membrane_receptor_3161501..3161651_POSITIVE 327 170 131 54 15 tfor:TF2703|3end_conserved_hypothetical_protein_2876317..2876467_POSITIVE 327 118 77 57 8 tfor:TF2665|3end_hypothetical_protein_2842235..2842385_POSITIVE 327 119 71 52 2 tfor:TF1599|3end_ribonuclease_P_protein_component_1714054..1714204_POSITIVE 322 160 114 108 62 tfor:TF2745|3end_hypothetical_protein_2927947..2928097_POSITIVE 322 99 53 133 76 tfor:TF1583|3end_conserved_hypothetical_protein;_possible_endonuclease_1690223..1690373_POSITIVE 314 100 51 137 103 tfor:TF1400|3end_polysaccharide_biosynthesis_protein;_membrane_protein_1476573..1476723_POSITIVE 310 115 71 60 13 tfor:TF1755|3end_periplasmic_protease_1892867..1893017_POSITIVE 309 167 130 53 5 tfor:TF2886|3end_RNA_methylase_SpoU_family_3076270..3076420_POSITIVE 306 170 124 115 71 tfor:TF2789|3end_enoyl-[acyl-carrier-protein]_reductase_2973365..2973515_POSITIVE 306 118 71 118 56 tfor:TF0841|3end_NADH_dehydrogenase/NAD(P)H_nitroreductase_893048..893198_POSITIVE