Origin IGS: ttattaattgttattcttttattaattgtcattctttactattttatttccttcttttgtcattcagagcaaagcgatgaatctttttccttctccaagtgagattcctcacggtgttcggaatgacaaacgcggtta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaccgcgtttgtcattccgaacaccgtgaggaatctcacttggagaaggaaaaagattcatcgctttgctctgaatgacaaaagaaggaaataaaatagtaaagaatgacaattaataaaagaataacaattaataa Mask Tandem Repeat Region ================================================ nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnactattttatttccttcttttgtcattcagagcaaagcgatgaatctttttccttctccaagtgagattcctcacggtgttcggaatgacaaacgcggtta Find is-nt database================================================ Query_seq: TF1591:TF1592|TF1591:TF1592:surface antigen BspA:hypothetical protein:->->:1708327..1708464 138 ttattaattgttattcttttattaattgtcattctttactattttatttccttcttttgtcattcagagcaaagcgatgaatctttttccttctccaagtgagattcctcacggtgttcggaatgacaaacgcggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1591:TF1592|TF1591:TF1592:surface antigen BspA:hypothetical protein:->->:1708327..1708464 138 ttattaattgttattcttttattaattgtcattctttactattttatttccttcttttgtcattcagagcaaagcgatgaatctttttccttctccaagtgagattcctcacggtgttcggaatgacaaacgcggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1591:TF1592|TF1591:TF1592:surface antigen BspA:hypothetical protein:->->:1708327..1708464 138 ttattaattgttattcttttattaattgtcattctttactattttatttccttcttttgtcattcagagcaaagcgatgaatctttttccttctccaagtgagattcctcacggtgttcggaatgacaaacgcggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttattaattgttattcttttattaattgtcattctttactattttatttccttcttttgtcattcagagcaaagcgatgaatctttttccttctccaagtgagattcctcacggtgttcggaatgacaaacgcggtta Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 7 End: 99 ...... M V I L L L I V I L Y Y F I S F F C H S E Q S D E S F S F S K ....................................... Protein_Len: 37 Strand: + Start: 26 End: 136 ......................... M S F F T I L F P S F V I Q S K A M N L F P S P S E I P H G V R N D K R G .. ttattaattgttattcttttattaattgtcattctttactattttatttccttcttttgtcattcagagcaaagcgatgaatctttttccttctccaagtgagattcctcacggtgttcggaatgacaaacgcggtta 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================================================ ttattaattgttattcttttattaattgtcattctttactattttatttccttcttttgtcattcagagcaaagcgatgaatctttttccttctccaagtgagattcctcacggtgttcggaatgacaaacgcggtta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1591:TF1592|TF1591:TF1592:surface antigen BspA:hypothetical protein:->->:1708327..1708464 138 ttattaattgttattcttttattaattgtcattctttactattttatttccttcttttgtcattcagagcaaagcgatgaatctttttccttctccaagtgagattcctcacggtgttcggaatgacaaacgcggtta Intra-Species Hit: Count: 2 Min: 1 Max: 138 Len: 138 Subject: tfor_TF1591_TF1592|surface antigen BspA:hypothetical protein|POSITIVE:POSITIVE|[1708327,1708464]|138 HSP 1 e-value: 7.0E-73 bit: 274.0 Len: 138 Query Start:1 Query End:138 Subject Strand: POSITIVE Subject Start: 1 Subject End: 138 ttattaattgttattcttttattaattgtcattctttactattttatttccttcttttgtcattcagagcaaagcgatgaatctttttccttctccaagtgagattcctcacggtgttcggaatgacaaacgcggtta ttattaattgttattcttttattaattgtcattctttactattttatttccttcttttgtcattcagagcaaagcgatgaatctttttccttctccaagtgagattcctcacggtgttcggaatgacaaacgcggtta Subject: tfor_TF1589_TF1590|surface antigen BspA:hypothetical protein|POSITIVE:POSITIVE|[1705807,1705950]|144 HSP 1 e-value: 4.0E-68 bit: 258.0 Len: 138 Query Start:1 Query End:138 Subject Strand: POSITIVE Subject Start: 7 Subject End: 144 ttattaattgttattcttttattaattgtcattctttactattttatttccttcttttgtcattcagagcaaagcgatgaatctttttccttctccaagtgagattcctcacggtgttcggaatgacaaacgcggtta ttattaattgttattcttttattaattgtcattctttactattttatttccttcttttgtcattcagagcgaagtgatgaatctttttccttctccaagtgagattcctcacggtgttcggaatgacaaacgcggtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAUUAAUUGUUAUUCUUUUAUUAAUUGUCAUUCUUUACUAUUUUAUUUCCUUCUUUUGUCAUUCAGAGCAAAGCGAUGAAUCUUUUUCCUUCUCCAAGUGAGAUUCCUCACGGUGUUCGGAAUGACAAACGCGGUUA ....((((((.((......)).))))))......................((.(.((((((((((.(((((..(.((.(((((((....(((....))).))))))).)).)..))))).)))))))))).).))... (-29.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACCGCGUUUGUCAUUCCGAACACCGUGAGGAAUCUCACUUGGAGAAGGAAAAAGAUUCAUCGCUUUGCUCUGAAUGACAAAAGAAGGAAAUAAAAUAGUAAAGAAUGACAAUUAAUAAAAGAAUAACAAUUAAUAA ...((...((((((((((.((.((..((((.((((((..(((.....)))....)))))).))))..)).)).))))))))))....))................................................. (-28.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 784 120 72 168 120 tfor:TF1841|5end_hypothetical_protein_1991936..1992166_POSITIVE 744 120 72 168 119 tfor:TF2745|5end_hypothetical_protein_2927562..2927792_POSITIVE 643 130 81 193 144 tfor:TF1842|5end_hypothetical_protein_1992571..1992801_POSITIVE 618 130 82 48 5 tfor:TF1660|5end_hypothetical_protein_1775269..1775499_POSITIVE 595 110 61 89 40 tfor:TF2816|5end_hypothetical_protein_3006925..3007155_POSITIVE 585 110 61 218 168 tfor:TF2817|5end_hypothetical_protein_3007358..3007588_POSITIVE 571 110 61 151 102 tfor:TF2777|5end_hypothetical_protein_2961595..2961825_POSITIVE 569 130 81 60 12 tfor:TF0542|5end_hypothetical_protein_571918..572148_POSITIVE 534 130 99 61 30 tfor:TF1846|5end_hypothetical_protein_1996726..1996956_POSITIVE 480 130 82 46 4 tfor:TF2776|5end_hypothetical_protein_2961470..2961700_POSITIVE 462 90 56 52 17 tfor:TF1185|5end_hypothetical_protein_1269238..1269468_POSITIVE 424 130 99 76 45 tfor:TF3105|5end_hypothetical_protein_3338068..3338298_POSITIVE 424 100 56 155 96 tfor:TF2746|5end_hypothetical_protein_2927996..2928226_POSITIVE 424 130 99 46 15 tfor:TF1844|5end_hypothetical_protein_1996389..1996619_POSITIVE 424 130 99 76 45 tfor:TF1187|5end_hypothetical_protein_1269625..1269855_POSITIVE 424 130 99 42 11 tfor:TF1184|5end_hypothetical_protein_1269004..1269234_POSITIVE 424 130 99 186 155 tfor:TF1182|5end_hypothetical_protein_1268565..1268795_POSITIVE 400 100 56 77 17 tfor:TF1845|5end_hypothetical_protein_1996620..1996850_POSITIVE 386 100 56 163 103 tfor:TF3106|5end_hypothetical_protein_3338355..3338585_POSITIVE 368 100 58 59 1 tfor:TF2517|5end_hypothetical_protein_2695089..2695319_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 659 110 61 55 7 tfor:TF0369|3end_hypothetical_protein_386186..386336_POSITIVE 625 128 81 80 33 tfor:TF1841|3end_hypothetical_protein_1992267..1992417_POSITIVE 557 96 53 151 109 tfor:TF0821|3end_hypothetical_protein_880195..880345_POSITIVE 548 110 61 145 95 tfor:TF1483|3end_glycosyltransferase_family_protein_1578825..1578975_POSITIVE 508 130 83 42 1 tfor:TF0541|3end_conserved_hypothetical_protein_571858..572008_POSITIVE 462 90 56 45 10 tfor:TF1184|3end_hypothetical_protein_1269311..1269461_POSITIVE 462 90 56 45 10 tfor:TF1183|3end_hypothetical_protein_1268728..1268878_POSITIVE 447 94 56 126 91 tfor:TF0828|3end_hypothetical_protein_887508..887658_POSITIVE 444 90 56 86 52 tfor:TF2817|3end_hypothetical_protein_3007626..3007776_POSITIVE 400 100 56 70 10 tfor:TF1844|3end_hypothetical_protein_1996693..1996843_POSITIVE 389 97 58 39 1 tfor:TF0538|3end_hypothetical_protein_567135..567285_POSITIVE 386 100 56 70 10 tfor:TF3105|3end_hypothetical_protein_3338342..3338492_POSITIVE 369 85 53 151 118 tfor:TF0534|3end_hypothetical_protein_559768..559918_POSITIVE 360 101 62 47 1 tfor:TF0535|3end_surface_antigen_BspA_561701..561851_POSITIVE 304 119 71 96 36 tfor:TF1295|3end_conserved_hypothetical_protein_1377256..1377406_POSITIVE 282 124 84 130 76 tfor:TF2532|3end_ferric-uptake_regulator_2715708..2715858_POSITIVE 281 110 64 59 4 tfor:TF1759|3end_membrane-bound_lytic_murein_transglycosylase_D_precursor_1897144..1897294_POSITIVE 271 120 73 142 95 tfor:TF1262|3end_PDZ_domain_protein_1348831..1348981_POSITIVE 266 129 86 81 34 tfor:TF1558|3end_possible_heme_biosynthesis_protein_1665959..1666109_POSITIVE 264 70 26 145 110 tfor:TF1761|3end_hypothetical_protein_1899579..1899729_POSITIVE