Origin IGS: taacttttgggtcaagccaaaagtaacggaaagaacgctctgaacaacaaaagaaacgaataacgaatagtgactaacgaaaaatgtttattaatatcaaattgtagaaaaca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgttttctacaatttgatattaataaacatttttcgttagtcactattcgttattcgtttcttttgttgttcagagcgttctttccgttacttttggcttgacccaaaagtta Mask Tandem Repeat Region ================================================ taacttttgggtcaagccaaaagtaacggaaagaacgctctgaacaacaaaagaaacgaataacgaatagtgactaacgaaaaatgtttattaatatcaaattgtagaaaaca Find is-nt database================================================ Query_seq: TF1842:TF1843|TF1842:TF1843:hypothetical protein:surface antigen BspA:->->:1992861..1992973 113 taacttttgggtcaagccaaaagtaacggaaagaacgctctgaacaacaaaagaaacgaataacgaatagtgactaacgaaaaatgtttattaatatcaaattgtagaaaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1842:TF1843|TF1842:TF1843:hypothetical protein:surface antigen BspA:->->:1992861..1992973 113 taacttttgggtcaagccaaaagtaacggaaagaacgctctgaacaacaaaagaaacgaataacgaatagtgactaacgaaaaatgtttattaatatcaaattgtagaaaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1842:TF1843|TF1842:TF1843:hypothetical protein:surface antigen BspA:->->:1992861..1992973 113 taacttttgggtcaagccaaaagtaacggaaagaacgctctgaacaacaaaagaaacgaataacgaatagtgactaacgaaaaatgtttattaatatcaaattgtagaaaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacttttgggtcaagccaaaagtaacggaaagaacgctctgaacaacaaaagaaacgaataacgaatagtgactaacgaaaaatgtttattaatatcaaattgtagaaaaca Predict ORF larger than 30AA ================================================ taacttttgggtcaagccaaaagtaacggaaagaacgctctgaacaacaaaagaaacgaataacgaatagtgactaacgaaaaatgtttattaatatcaaattgtagaaaaca 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================================================ taacttttgggtcaagccaaaagtaacggaaagaacgctctgaacaacaaaagaaacgaataacgaatagtgactaacgaaaaatgtttattaatatcaaattgtagaaaaca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1842:TF1843|TF1842:TF1843:hypothetical protein:surface antigen BspA:->->:1992861..1992973 113 taacttttgggtcaagccaaaagtaacggaaagaacgctctgaacaacaaaagaaacgaataacgaatagtgactaacgaaaaatgtttattaatatcaaattgtagaaaaca Intra-Species Hit: Count: 1 Min: 1 Max: 113 Len: 113 Subject: tfor_TF1842_TF1843|hypothetical protein:surface antigen BspA|POSITIVE:POSITIVE|[1992861,1992973]|113 HSP 1 e-value: 5.0E-58 bit: 224.0 Len: 113 Query Start:1 Query End:113 Subject Strand: POSITIVE Subject Start: 1 Subject End: 113 taacttttgggtcaagccaaaagtaacggaaagaacgctctgaacaacaaaagaaacgaataacgaatagtgactaacgaaaaatgtttattaatatcaaattgtagaaaaca taacttttgggtcaagccaaaagtaacggaaagaacgctctgaacaacaaaagaaacgaataacgaatagtgactaacgaaaaatgtttattaatatcaaattgtagaaaaca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACUUUUGGGUCAAGCCAAAAGUAACGGAAAGAACGCUCUGAACAACAAAAGAAACGAAUAACGAAUAGUGACUAACGAAAAAUGUUUAUUAAUAUCAAAUUGUAGAAAACA ..((((((((......))))))))..((((........))))...........................((..(((.(((...(((((....)))))....))))))...)). (-13.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUUUCUACAAUUUGAUAUUAAUAAACAUUUUUCGUUAGUCACUAUUCGUUAUUCGUUUCUUUUGUUGUUCAGAGCGUUCUUUCCGUUACUUUUGGCUUGACCCAAAAGUUA .(((((..(((((..((.((.(((((........(....)..........))))).)).))....)))))..)))))............((((((((......)))))))).. (-14.97) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 704 50 3 54 7 tfor:TF2921|5end_hypothetical_protein_3118498..3118728_POSITIVE 638 50 3 185 138 tfor:TF2997|5end_hypothetical_protein_3211408..3211638_POSITIVE 587 50 3 111 51 tfor:TF0685|5end_hypothetical_protein_730852..731082_POSITIVE 529 50 3 172 112 tfor:TF2996|5end_hypothetical_protein_3210802..3211032_POSITIVE 524 50 3 197 138 tfor:TF1578|5end_hypothetical_protein_1686187..1686417_POSITIVE 487 50 3 181 122 tfor:TF1168|5end_hypothetical_protein_1248755..1248985_POSITIVE 460 50 3 181 122 tfor:TF1588|5end_hypothetical_protein_1702268..1702498_POSITIVE 451 50 3 132 71 tfor:TF0469|5end_hypothetical_protein_486960..487190_POSITIVE 451 50 3 101 40 tfor:TF0468|5end_hypothetical_protein_486929..487159_POSITIVE 317 67 21 48 1 tfor:TF2653|5end_hypothetical_protein_2822093..2822323_POSITIVE 309 47 3 91 39 tfor:TF0285|5end_conserved_hypothetical_protein_314465..314695_POSITIVE 303 39 3 95 56 tfor:TF1185|5end_hypothetical_protein_1269238..1269468_POSITIVE 275 74 36 141 97 tfor:TF2815|5end_meso-diaminopimelate_D-dehydrogenase_3005429..3005659_POSITIVE 267 42 8 184 141 tfor:TF2282|5end_hypothetical_protein_2439401..2439631_POSITIVE 265 50 1 80 25 tfor:TF2177|5end_hypothetical_protein_2349281..2349511_POSITIVE 263 50 2 218 173 tfor:TF1126|5end_conserved_hypothetical_protein;_possible_lipoprotein_1199978..1200208_POSITIVE 259 73 36 194 159 tfor:TF1590|5end_hypothetical_protein_1705811..1706041_POSITIVE 251 75 36 85 40 tfor:TF1585|5end_hypothetical_protein_1690369..1690599_POSITIVE 251 75 36 85 40 tfor:TF1584|5end_hypothetical_protein_1690245..1690475_POSITIVE 251 75 36 85 40 tfor:TF1582|5end_hypothetical_protein_1690121..1690351_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 789 47 3 54 10 tfor:TF2998|3end_surface_antigen_BspA_3215151..3215301_POSITIVE 555 50 3 78 19 tfor:TF2639|3end_hypothetical_protein_2809333..2809483_POSITIVE 533 44 3 91 49 tfor:TF2914|3end_hypothetical_protein_3109643..3109793_POSITIVE 529 50 3 139 79 tfor:TF2994|3end_hypothetical_protein_3210849..3210999_POSITIVE 524 50 3 65 6 tfor:TF1576|3end_hypothetical_protein_1686135..1686285_POSITIVE 439 39 3 147 105 tfor:TF1577|3end_hypothetical_protein_1686234..1686384_POSITIVE 404 34 3 130 98 tfor:TF2667|3end_hypothetical_protein_2842705..2842855_POSITIVE 404 34 3 130 98 tfor:TF2665|3end_hypothetical_protein_2842235..2842385_POSITIVE 404 34 3 130 98 tfor:TF2664|3end_hypothetical_protein_2841730..2841880_POSITIVE 326 24 3 147 126 tfor:TF2668|3end_hypothetical_protein_2842733..2842883_POSITIVE 326 24 3 147 126 tfor:TF2666|3end_hypothetical_protein_2842263..2842413_POSITIVE 309 47 3 88 36 tfor:TF0284|3end_alanine_racemase_314542..314692_POSITIVE 303 39 3 88 49 tfor:TF1184|3end_hypothetical_protein_1269311..1269461_POSITIVE 275 74 36 56 12 tfor:TF2814|3end_prolipoprotein_diacylglyceryl_transferase_3005424..3005574_POSITIVE 259 73 36 49 14 tfor:TF1589|3end_surface_antigen_BspA_1705746..1705896_POSITIVE 251 75 36 142 97 tfor:TF1582|3end_hypothetical_protein_1690506..1690656_POSITIVE 251 75 36 107 62 tfor:TF1583|3end_conserved_hypothetical_protein;_possible_endonuclease_1690223..1690373_POSITIVE 236 40 4 50 10 tfor:TF2012|3end_conserved_hypothetical_protein_2168720..2168870_POSITIVE 232 59 16 83 39 tfor:TF1681|3end_dTDP-4-keto-L-rhamnose_reductase_1795844..1795994_POSITIVE 231 50 9 78 28 tfor:TF2652|3end_hypothetical_protein_2822122..2822272_POSITIVE