Origin IGS: taatttatattcttgccttgcttgtatatatagggggagagaacaccccgttcagagcagggttttctctccccctataccccctctttttcccgcgctgccaaaggggctacccctttggaaaccccgat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atcggggtttccaaaggggtagcccctttggcagcgcgggaaaaagagggggtatagggggagagaaaaccctgctctgaacggggtgttctctccccctatatatacaagcaaggcaagaatataaatta Mask Tandem Repeat Region ================================================ taatttatattcttgccttgcttgtatatatagggggagagaacaccccgttcagagcagggttttctctccccctataccccctctttttcccgcgctgccaaaggggctacccctttggaaaccccgat Find is-nt database================================================ Query_seq: TDE1058:TDE1059|TDE1058:TDE1059:hypothetical protein:hypothetical protein:<-<-:1086457..1086587 131 taatttatattcttgccttgcttgtatatatagggggagagaacaccccgttcagagcagggttttctctccccctataccccctctttttcccgcgctgccaaaggggctacccctttggaaaccccgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1058:TDE1059|TDE1058:TDE1059:hypothetical protein:hypothetical protein:<-<-:1086457..1086587 131 taatttatattcttgccttgcttgtatatatagggggagagaacaccccgttcagagcagggttttctctccccctataccccctctttttcccgcgctgccaaaggggctacccctttggaaaccccgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1058:TDE1059|TDE1058:TDE1059:hypothetical protein:hypothetical protein:<-<-:1086457..1086587 131 taatttatattcttgccttgcttgtatatatagggggagagaacaccccgttcagagcagggttttctctccccctataccccctctttttcccgcgctgccaaaggggctacccctttggaaaccccgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatttatattcttgccttgcttgtatatatagggggagagaacaccccgttcagagcagggttttctctccccctataccccctctttttcccgcgctgccaaaggggctacccctttggaaaccccgat Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 26 End: 130 ......................... M Y R G R E H P V Q S R V F S P P I P P L F P A L P K G L P L W K P R . Protein_Len: 43 Strand: + Start: 3 End: 131 .. M Y I L A L L V Y I G G E N T P F R A G F S L P L Y P L F F P R C Q R G Y P F G N P D taatttatattcttgccttgcttgtatatatagggggagagaacaccccgttcagagcagggttttctctccccctataccccctctttttcccgcgctgccaaaggggctacccctttggaaaccccgat 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================================================ taatttatattcttgccttgcttgtatatatagggggagagaacaccccgttcagagcagggttttctctccccctataccccctctttttcccgcgctgccaaaggggctacccctttggaaaccccgat Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 74 HP_score: -11.0 Tail_Score: -2.93708 Start: 25 End: 83 Full_Region: TTCTTGCCTTGCTTG TATATATAGGGGGAGAGAACACCCCGTT CAG AGCAGGGTTTTCTCTCCCCCTATACCCC CTCTTTTTCCCGCGC ........................TATATATAGGGGGAGAGAACACCCCGTTCAGAGCAGGGTTTTCTCTCCCCCTATACCCC................................................ TransTerm Strand: - Conf: 100 HP_score: -23.2 Tail_Score: -2.87132 Start: 31 End: 77 Full_Region: gaaaaagagggggta tagggggagagaaaaccctgct ctg aacggggtgttctctcccccta tatatacaagcaagg ..............................tagggggagagaaaaccctgctctgaacggggtgttctctcccccta...................................................... TransTerm Strand: - Conf: 100 HP_score: -21.4 Tail_Score: -2.98823 Start: 33 End: 75 Full_Region: aaaagagggggtata gggggagagaaaaccctgct ctg aacggggtgttctctccccc tatatatacaagcaa ................................gggggagagaaaaccctgctctgaacggggtgttctctccccc........................................................ Find igs database================================================ Query_seq: TDE1058:TDE1059|TDE1058:TDE1059:hypothetical protein:hypothetical protein:<-<-:1086457..1086587 131 taatttatattcttgccttgcttgtatatatagggggagagaacaccccgttcagagcagggttttctctccccctataccccctctttttcccgcgctgccaaaggggctacccctttggaaaccccgat Intra-Species Hit: Count: 1 Min: 1 Max: 131 Len: 131 Subject: NC_002967_TDE1058_TDE1059|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1086457,1086587]|131 HSP 1 e-value: 1.0E-68 bit: 260.0 Len: 131 Query Start:1 Query End:131 Subject Strand: POSITIVE Subject Start: 1 Subject End: 131 taatttatattcttgccttgcttgtatatatagggggagagaacaccccgttcagagcagggttttctctccccctataccccctctttttcccgcgctgccaaaggggctacccctttggaaaccccgat taatttatattcttgccttgcttgtatatatagggggagagaacaccccgttcagagcagggttttctctccccctataccccctctttttcccgcgctgccaaaggggctacccctttggaaaccccgat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUAUAUUCUUGCCUUGCUUGUAUAUAUAGGGGGAGAGAACACCCCGUUCAGAGCAGGGUUUUCUCUCCCCCUAUACCCCCUCUUUUUCCCGCGCUGCCAAAGGGGCUACCCCUUUGGAAACCCCGAU ............................(((((((((((((((.((((.((.....)).)))).)))))))))))))))..............((.....(((((((((...)))))))))......)).. (-51.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCGGGGUUUCCAAAGGGGUAGCCCCUUUGGCAGCGCGGGAAAAAGAGGGGGUAUAGGGGGAGAGAAAACCCUGCUCUGAACGGGGUGUUCUCUCCCCCUAUAUAUACAAGCAAGGCAAGAAUAUAAAUUA .((.(.(((.(((((((((...))))))))).))).).)).......(...((((((((((((((((.((((((.......)))))).))))))))))))))))...)....................... (-60.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1119 120 71 211 162 NC_002967:TDE1058|5end_hypothetical_protein_1086366..1086596_NEGATIVE 958 129 81 122 74 NC_002967:TDE1892|5end_hypothetical_protein_1912065..1912295_POSITIVE 908 130 81 138 86 NC_002967:TDE2265|5end_hypothetical_protein_2302165..2302395_POSITIVE 854 130 81 119 65 NC_002967:TDE0402|5end_hypothetical_protein_454352..454582_NEGATIVE 831 110 61 209 159 NC_002967:TDE2735|5end_surface_antigen,_putative_2790154..2790384_POSITIVE 785 79 31 227 159 NC_002967:TDE0469|5end_hypothetical_protein_523987..524217_NEGATIVE 764 129 81 206 156 NC_002967:TDE0741|5end_hypothetical_protein_778158..778388_NEGATIVE 732 120 72 231 178 NC_002967:TDE0401|5end_adenylate/guanylate_cyclase_catalytic_domain_protein_454230..454460_NEGATIVE 672 100 52 209 149 NC_002967:TDE2259|5end_hypothetical_protein_2297237..2297467_NEGATIVE 584 79 31 208 142 NC_002967:TDE0570|5end_hypothetical_protein_600169..600399_POSITIVE 496 117 72 207 158 NC_002967:TDE2142|5end_methyl-accepting_chemotaxis_protein_2175769..2175999_POSITIVE 448 74 31 73 29 NC_002967:TDE1057|5end_hypothetical_protein_1086245..1086475_NEGATIVE 446 110 61 216 149 NC_002967:TDE1982|5end_hypothetical_protein_1992984..1993214_NEGATIVE 421 77 31 227 156 NC_002967:TDE2260|5end_hypothetical_protein_2297338..2297568_POSITIVE 418 110 63 229 181 NC_002967:TDE2024|5end_hypothetical_protein_2051021..2051251_NEGATIVE 394 116 73 70 20 NC_002967:TDE1629|5end_dihydrolipoamide_dehydrogenase_1678514..1678744_NEGATIVE 385 118 74 199 167 NC_002967:TDE1621|5end_hypothetical_protein_1670743..1670973_NEGATIVE 373 130 85 182 141 NC_002967:TDE1556|5end_hypothetical_protein_1598787..1599017_POSITIVE 371 119 71 112 54 NC_002967:TDE1885|5end_hypothetical_protein_1906857..1907087_POSITIVE 366 117 72 228 180 NC_002967:TDE2097|5end_hypothetical_protein_2124741..2124971_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 719 65 31 126 92 NC_002967:TDE1892|3end_hypothetical_protein_1912237..1912387_POSITIVE 608 100 52 151 96 NC_002967:TDE0569|3end_hypothetical_protein_600162..600312_POSITIVE 527 77 31 86 39 NC_002967:TDE2420|3end_DNA-directed_RNA_polymerase_beta'_subunit_2444960..2445110_NEGATIVE 493 129 94 63 27 NC_002967:TDE1981|3end_hypothetical_protein_1992437..1992587_POSITIVE 465 77 31 85 16 NC_002967:TDE1893|3end_GTP-binding_protein_LepA_1912212..1912362_NEGATIVE 452 128 82 148 94 NC_002967:TDE2527|3end_hypothetical_protein_2555449..2555599_NEGATIVE 448 74 31 86 42 NC_002967:TDE1058|3end_hypothetical_protein_1086232..1086382_NEGATIVE 426 58 19 144 96 NC_002967:TDE0402|3end_hypothetical_protein_454248..454398_NEGATIVE 420 129 103 27 1 NC_002967:TDE1891|3end_hypothetical_protein_1912050..1912200_POSITIVE 400 79 31 142 92 NC_002967:TDE2025|3end_hypothetical_protein_2051075..2051225_NEGATIVE 394 98 52 119 70 NC_002967:TDE1914|3end_Holliday_junction_DNA_helicase_RuvB_1930889..1931039_NEGATIVE 385 118 74 122 90 NC_002967:TDE1622|3end_hypothetical_protein_1670820..1670970_NEGATIVE 370 76 33 84 40 NC_002967:TDE0665|3end_pyruvate_ferredoxin/flavodoxin_oxidoreductase_family_protein_699792..699942_NEGATIVE 364 76 32 51 4 NC_002967:TDE0664|3end_OmpA_family_protein_699728..699878_POSITIVE 343 130 93 65 18 NC_002967:TDE2428|3end_ribosomal_protein_L33_2456122..2456272_NEGATIVE 330 128 86 53 12 NC_002967:TDE0452|3end_hypothetical_protein_509949..510099_NEGATIVE 326 110 70 83 32 NC_002967:TDE0678|3end_hypothetical_protein_716438..716588_POSITIVE 319 94 53 130 87 NC_002967:TDE1665|3end_hypothetical_protein_1718908..1719058_NEGATIVE 318 111 71 47 5 NC_002967:TDE2181|3end_PAP2_family_protein_2211995..2212145_NEGATIVE 317 128 81 150 94 NC_002967:TDE0956|3end_hypothetical_protein_980330..980480_POSITIVE