Origin IGS: tgattttccggcctgcaagcgtcacgagggcgtgcgaagcgcacgaagccttgatcttttggttacttttgggtcaagccaaaagtgacagaaagagattcttcgcttcgctctgaatgacaaattaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttaatttgtcattcagagcgaagcgaagaatctctttctgtcacttttggcttgacccaaaagtaaccaaaagatcaaggcttcgtgcgcttcgcacgccctcgtgacgcttgcaggccggaaaatca Mask Tandem Repeat Region ================================================ tgattttccggcctgcaagcgtcacgagggcgtgcgaagcgcacgaagccttgatcttttggttacttttgggtcaagccaaaagtgacagaaagagattcttcgcttcgctctgaatgacaaattaa Find is-nt database================================================ Query_seq: TF2745:TF2746|TF2745:TF2746:hypothetical protein:hypothetical protein:->->:2928008..2928135 128 tgattttccggcctgcaagcgtcacgagggcgtgcgaagcgcacgaagccttgatcttttggttacttttgggtcaagccaaaagtgacagaaagagattcttcgcttcgctctgaatgacaaattaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2745:TF2746|TF2745:TF2746:hypothetical protein:hypothetical protein:->->:2928008..2928135 128 tgattttccggcctgcaagcgtcacgagggcgtgcgaagcgcacgaagccttgatcttttggttacttttgggtcaagccaaaagtgacagaaagagattcttcgcttcgctctgaatgacaaattaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2745:TF2746|TF2745:TF2746:hypothetical protein:hypothetical protein:->->:2928008..2928135 128 tgattttccggcctgcaagcgtcacgagggcgtgcgaagcgcacgaagccttgatcttttggttacttttgggtcaagccaaaagtgacagaaagagattcttcgcttcgctctgaatgacaaattaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgattttccggcctgcaagcgtcacgagggcgtgcgaagcgcacgaagccttgatcttttggttacttttgggtcaagccaaaagtgacagaaagagattcttcgcttcgctctgaatgacaaattaa Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 3 End: 113 .. M F R P A S V T R A C E A H E A L I F W L L L G Q A K S D R K R F F A S L ............... Protein_Len: 33 Strand: - Start: 25 End: 123 ........................ S P T R L A R L R S R K T V K P D L W F H C F S I R R K A R F S M ..... tgattttccggcctgcaagcgtcacgagggcgtgcgaagcgcacgaagccttgatcttttggttacttttgggtcaagccaaaagtgacagaaagagattcttcgcttcgctctgaatgacaaattaa 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================================================ tgattttccggcctgcaagcgtcacgagggcgtgcgaagcgcacgaagccttgatcttttggttacttttgggtcaagccaaaagtgacagaaagagattcttcgcttcgctctgaatgacaaattaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2745:TF2746|TF2745:TF2746:hypothetical protein:hypothetical protein:->->:2928008..2928135 128 tgattttccggcctgcaagcgtcacgagggcgtgcgaagcgcacgaagccttgatcttttggttacttttgggtcaagccaaaagtgacagaaagagattcttcgcttcgctctgaatgacaaattaa Intra-Species Hit: Count: 9 Min: 1 Max: 128 Len: 128 Subject: tfor_TF2745_TF2746|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2928008,2928135]|128 HSP 1 e-value: 6.0E-67 bit: 254.0 Len: 128 Query Start:1 Query End:128 Subject Strand: POSITIVE Subject Start: 1 Subject End: 128 tgattttccggcctgcaagcgtcacgagggcgtgcgaagcgcacgaagccttgatcttttggttacttttgggtcaagccaaaagtgacagaaagagattcttcgcttcgctctgaatgacaaattaa tgattttccggcctgcaagcgtcacgagggcgtgcgaagcgcacgaagccttgatcttttggttacttttgggtcaagccaaaagtgacagaaagagattcttcgcttcgctctgaatgacaaattaa Subject: tfor_TF2500_TF2501|ABC transporter, ATP-binding protein:DNA mismatch repair protein|POSITIVE:POSITIVE|[2675363,2676419]|1057 HSP 1 e-value: 1.0E-43 bit: 176.0 Len: 128 Query Start:1 Query End:128 Subject Strand: POSITIVE Subject Start: 626 Subject End: 754 tgattttccggcctgcaagcgtcacgagggcgtgcgaagcgcacgaagccttgatcttttggttacttttgggtcaagccaaaagtgacagaaagagattcttcgctt-cgctctgaatgacaaattaa tgattttccgacctgcgagcgtcgcgaaggcgtgtgaagcgcacgaagccttgaccttttggttacttttgggtcaagccaaaagtgacagaaggagattcttcgcttacgctctgaatgacatattaa Subject: tfor_TF0685_TF0686|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[731193,732338]|1146 HSP 1 e-value: 1.0E-43 bit: 176.0 Len: 128 Query Start:1 Query End:128 Subject Strand: NEGATIVE Subject Start: 173 Subject End: 301 tgattttccggcctgcaagcgtcacgagggcgtgcgaagcgcacgaagccttgatcttttggttacttttgggtcaagccaaaagtgac-agaaagagattcttcgcttcgctctgaatgacaaattaa tgattttccgacctgcaagcgtcgcgaaggcgtgtgaagcgcacgaagccttgacctttgggttactttttggtcaagccaaaagtgacaaaaaagagattcttcgcttcgctctgaatgacaaattaa HSP 2 e-value: 1.0E-9 bit: 63.9 Len: 36 Query Start:93 Query End:128 Subject Strand: NEGATIVE Subject Start: 550 Subject End: 585 ............................................................................................aagagattcttcgcttcgctctgaatgacaaattaa ............................................................................................aagagattcatcgcttcgctctgaatgacaaattaa Subject: tfor_TF1659_TF1660|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1775270,1775408]|139 HSP 1 e-value: 2.0E-30 bit: 133.0 Len: 110 Query Start:19 Query End:128 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 ..................gcgtcacgagggcgtgcgaagcgcacgaagccttgatcttttggttacttttgggtcaagccaaaagtgacag-aaagagattcttcgcttcgctctgaatgacaaattaa ..................gcgtcgcgaaggcgtgtgaagcgcacgaagccttgacctttgggttacttttgggtcaagccaaaagtaacggaaaagagattcatcgcttcgctctgaatgataaattaa Subject: tfor_TF1187_TF1188|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1269933,1270295]|363 HSP 1 e-value: 6.0E-30 bit: 131.0 Len: 100 Query Start:29 Query End:128 Subject Strand: POSITIVE Subject Start: 11 Subject End: 112 ............................ggcgtgcgaagcgcacgaagccttgatcttttggttacttttgggtcaagccaaaagtgacag-aaagagattcttcgctt-cgctctgaatgacaaattaa ............................ggcgtgtgaagcgcacgaagccttgaccttttggttacttttgggtcaagccaaaagtaacggaaaagagattcatcgcttacgctctgaatgacaaattaa Subject: tfor_TF2922_TF2923|surface antigen BspA:hypothetical protein|POSITIVE:POSITIVE|[3121599,3122307]|709 HSP 1 e-value: 2.0E-29 bit: 129.0 Len: 97 Query Start:1 Query End:97 Subject Strand: NEGATIVE Subject Start: 148 Subject End: 244 tgattttccggcctgcaagcgtcacgagggcgtgcgaagcgcacgaagccttgatcttttggttacttttgggtcaagccaaaagtgacagaaagag............................... tgattttccgacctgcgagcgtcgcgaaggcgtgtgaagcgcacgaagccttgaccttttggttacttttgggtcaagccaaaagtaacggaaagag............................... HSP 2 e-value: 5.0E-9 bit: 61.9 Len: 38 Query Start:91 Query End:128 Subject Strand: NEGATIVE Subject Start: 416 Subject End: 454 ..........................................................................................gaaagagattcttcgctt-cgctctgaatgacaaattaa ..........................................................................................gaaagagattcttcgcttacgctctgaatgacaaattaa HSP 3 e-value: 7.0E-8 bit: 58.0 Len: 37 Query Start:92 Query End:128 Subject Strand: NEGATIVE Subject Start: 581 Subject End: 617 ...........................................................................................aaagagattcttcgcttcgctctgaatgacaaattaa ...........................................................................................aaagagattcatcgcttcgcgctgaatgacaaattaa Subject: tfor_TF2920_TF2921|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[3117231,3118637]|1407 HSP 1 e-value: 2.0E-29 bit: 129.0 Len: 97 Query Start:1 Query End:97 Subject Strand: NEGATIVE Subject Start: 204 Subject End: 300 tgattttccggcctgcaagcgtcacgagggcgtgcgaagcgcacgaagccttgatcttttggttacttttgggtcaagccaaaagtgacagaaagag............................... tgattttccgacctgcaagtgtcgcgaaggcgtgtgaagcgcacgaagccttgacctttgggttacttttgggtcaagccaaaagtaacagaaagag............................... HSP 2 e-value: 5.0E-9 bit: 61.9 Len: 38 Query Start:91 Query End:128 Subject Strand: NEGATIVE Subject Start: 406 Subject End: 444 ..........................................................................................gaaagagattcttcgctt-cgctctgaatgacaaattaa ..........................................................................................gaaagagattcttcgcttacgctctgaatgacaaattaa Subject: tfor_TF2914_TF2915|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[3109704,3110561]|858 HSP 1 e-value: 1.0E-27 bit: 123.0 Len: 94 Query Start:1 Query End:94 Subject Strand: NEGATIVE Subject Start: 13 Subject End: 106 tgattttccggcctgcaagcgtcacgagggcgtgcgaagcgcacgaagccttgatcttttggttacttttgggtcaagccaaaagtgacagaaa.................................. tgattttccgacctgcaagcctcgcgaaggcgtgtgaagagcacgaagccttgactttttggttacttttgggtcaagccaaaagtgacagaaa.................................. HSP 2 e-value: 3.0E-10 bit: 65.9 Len: 33 Query Start:96 Query End:128 Subject Strand: NEGATIVE Subject Start: 212 Subject End: 244 ...............................................................................................agattcttcgcttcgctctgaatgacaaattaa ...............................................................................................agattcttcgcttcgctctgaatgacaaattaa Subject: tfor_TF1838_TF1839|tRNA/rRNA methyltransferase:conserved hypothetical protein|POSITIVE:POSITIVE|[1988806,1989486]|681 HSP 1 e-value: 1.0E-9 bit: 63.9 Len: 39 Query Start:90 Query End:128 Subject Strand: POSITIVE Subject Start: 146 Subject End: 185 .........................................................................................agaaagagattcttcgctt-cgctctgaatgacaaattaa .........................................................................................agaaagagattcttcgcttacgctctgaatgacaaattaa HSP 2 e-value: 3.0E-7 bit: 56.0 Len: 40 Query Start:1 Query End:40 Subject Strand: POSITIVE Subject Start: 350 Subject End: 389 tgattttccggcctgcaagcgtcacgagggcgtgcgaagc........................................................................................ tgattttccgacctgcaagcgtcgcgaaggcgtgcgaagc........................................................................................ HSP 3 e-value: 3.0E-7 bit: 56.0 Len: 43 Query Start:44 Query End:86 Subject Strand: POSITIVE Subject Start: 384 Subject End: 427 ...........................................cgaagccttgatcttttggttactttt-gggtcaagccaaaagt.......................................... ...........................................cgaagccttgacctttgggttactttttgggtcaagccaaaagt.......................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUUUUCCGGCCUGCAAGCGUCACGAGGGCGUGCGAAGCGCACGAAGCCUUGAUCUUUUGGUUACUUUUGGGUCAAGCCAAAAGUGACAGAAAGAGAUUCUUCGCUUCGCUCUGAAUGACAAAUUAA (((((((((((...(((((((...(((((.((((((...))))))...))))).((((((.(((((((((((......))))))))))).)))))).......))))).)).)))...)).)))))). (-44.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAAUUUGUCAUUCAGAGCGAAGCGAAGAAUCUCUUUCUGUCACUUUUGGCUUGACCCAAAAGUAACCAAAAGAUCAAGGCUUCGUGCGCUUCGCACGCCCUCGUGACGCUUGCAGGCCGGAAAAUCA ....((((.(.....(((((..((((......(((((..((.((((((((......)))))))).))..)))))....(((...(((((...)))))))).))))..)))))....).))))...... (-35.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 995 80 31 86 37 tfor:TF0469|5end_hypothetical_protein_486960..487190_POSITIVE 995 80 31 55 6 tfor:TF0468|5end_hypothetical_protein_486929..487159_POSITIVE 981 50 1 107 58 tfor:TF1588|5end_hypothetical_protein_1702268..1702498_POSITIVE 952 50 1 123 74 tfor:TF2997|5end_hypothetical_protein_3211408..3211638_POSITIVE 952 50 1 123 74 tfor:TF1578|5end_hypothetical_protein_1686187..1686417_POSITIVE 923 50 1 97 48 tfor:TF2996|5end_hypothetical_protein_3210802..3211032_POSITIVE 914 80 31 66 17 tfor:TF0685|5end_hypothetical_protein_730852..731082_POSITIVE 903 90 41 147 98 tfor:TF1168|5end_hypothetical_protein_1248755..1248985_POSITIVE 595 107 61 43 3 tfor:TF2921|5end_hypothetical_protein_3118498..3118728_POSITIVE 585 120 71 126 79 tfor:TF2653|5end_hypothetical_protein_2822093..2822323_POSITIVE 560 44 1 231 188 tfor:TF2670|5end_hypothetical_protein_2842779..2843009_POSITIVE 559 120 71 164 118 tfor:TF0017|5end_hypothetical_protein_10504..10734_POSITIVE 536 120 71 170 132 tfor:TF2668|5end_hypothetical_protein_2842471..2842701_POSITIVE 536 120 71 94 56 tfor:TF2667|5end_hypothetical_protein_2842395..2842625_POSITIVE 531 120 79 40 2 tfor:TF0018|5end_hypothetical_protein_11250..11480_POSITIVE 525 120 71 98 50 tfor:TF0470|5end_hypothetical_protein_487253..487483_POSITIVE 524 120 72 207 169 tfor:TF2669|5end_possible_Fe-S_oxidoreductase_2842971..2843201_POSITIVE 524 120 72 170 132 tfor:TF2665|5end_hypothetical_protein_2841973..2842203_POSITIVE 513 120 71 88 40 tfor:TF2994|5end_hypothetical_protein_3210605..3210835_POSITIVE 512 120 83 175 138 tfor:TF1585|5end_hypothetical_protein_1690369..1690599_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 952 50 1 90 41 tfor:TF1577|3end_hypothetical_protein_1686234..1686384_POSITIVE 923 50 1 64 15 tfor:TF2994|3end_hypothetical_protein_3210849..3210999_POSITIVE 820 120 71 75 25 tfor:TF2639|3end_hypothetical_protein_2809333..2809483_POSITIVE 814 90 41 74 25 tfor:TF2914|3end_hypothetical_protein_3109643..3109793_POSITIVE 809 90 41 151 102 tfor:TF2668|3end_hypothetical_protein_2842733..2842883_POSITIVE 809 90 41 123 74 tfor:TF2667|3end_hypothetical_protein_2842705..2842855_POSITIVE 809 90 41 123 74 tfor:TF2665|3end_hypothetical_protein_2842235..2842385_POSITIVE 809 90 41 151 102 tfor:TF2666|3end_hypothetical_protein_2842263..2842413_POSITIVE 809 90 41 123 74 tfor:TF2664|3end_hypothetical_protein_2841730..2841880_POSITIVE 799 120 71 62 12 tfor:TF1576|3end_hypothetical_protein_1686135..1686285_POSITIVE 585 120 71 75 28 tfor:TF2652|3end_hypothetical_protein_2822122..2822272_POSITIVE 539 107 61 46 6 tfor:TF2998|3end_surface_antigen_BspA_3215151..3215301_POSITIVE 529 116 71 151 107 tfor:TF0017|3end_hypothetical_protein_11231..11381_POSITIVE 512 120 83 73 36 tfor:TF1583|3end_conserved_hypothetical_protein;_possible_endonuclease_1690223..1690373_POSITIVE 495 120 71 62 16 tfor:TF2997|3end_hypothetical_protein_3211664..3211814_POSITIVE 453 120 85 41 4 tfor:TF1578|3end_hypothetical_protein_1686416..1686566_POSITIVE 441 120 90 37 5 tfor:TF1760|3end_guanosine-3',5'-bis(diphosphate)_3'-pyrophosphohydrolase_1899413..1899563_POSITIVE 423 46 9 31 1 tfor:TF3039|3end_ABC_transporter,_ATP-binding_protein_3267697..3267847_POSITIVE 419 120 83 108 71 tfor:TF1582|3end_hypothetical_protein_1690506..1690656_POSITIVE 410 61 24 75 46 tfor:TF0005|3end_possible_beta-lactamase_1789..1939_POSITIVE