Origin IGS: taaacactcgtctgtgttgctgagcctgccgaagcgataccaaaatccagcctgttacaagtggtgcatgagaagacggagatttcgcacatagggaaataatacgtacttttgcggcaaaaaaatgggatgcggatgtgaacatctgcgtcaaggggaacg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cgttccccttgacgcagatgttcacatccgcatcccatttttttgccgcaaaagtacgtattatttccctatgtgcgaaatctccgtcttctcatgcaccacttgtaacaggctggattttggtatcgcttcggcaggctcagcaacacagacgagtgttta Mask Tandem Repeat Region ================================================ taaacactcgtctgtgttgctgagcctgccgaagcgataccaaaatccagcctgttacaagtggtgcatgagaagacggagatttcgcacatagggaaataatacgtacttttgcggcaaaaaaatgggatgcggatgtgaacatctgcgtcaaggggaacg Find is-nt database================================================ Query_seq: TF1322:TF1323|TF1322:TF1323:conserved hypothetical protein; possible surface protein:metallo-beta-lactamase superfamily protein:->->:1402628..1402789 162 taaacactcgtctgtgttgctgagcctgccgaagcgataccaaaatccagcctgttacaagtggtgcatgagaagacggagatttcgcacatagggaaataatacgtacttttgcggcaaaaaaatgggatgcggatgtgaacatctgcgtcaaggggaacg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1322:TF1323|TF1322:TF1323:conserved hypothetical protein; possible surface protein:metallo-beta-lactamase superfamily protein:->->:1402628..1402789 162 taaacactcgtctgtgttgctgagcctgccgaagcgataccaaaatccagcctgttacaagtggtgcatgagaagacggagatttcgcacatagggaaataatacgtacttttgcggcaaaaaaatgggatgcggatgtgaacatctgcgtcaaggggaacg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1322:TF1323|TF1322:TF1323:conserved hypothetical protein; possible surface protein:metallo-beta-lactamase superfamily protein:->->:1402628..1402789 162 taaacactcgtctgtgttgctgagcctgccgaagcgataccaaaatccagcctgttacaagtggtgcatgagaagacggagatttcgcacatagggaaataatacgtacttttgcggcaaaaaaatgggatgcggatgtgaacatctgcgtcaaggggaacg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaacactcgtctgtgttgctgagcctgccgaagcgataccaaaatccagcctgttacaagtggtgcatgagaagacggagatttcgcacatagggaaataatacgtacttttgcggcaaaaaaatgggatgcggatgtgaacatctgcgtcaaggggaacg Predict ORF larger than 30AA ================================================ Protein_Len: 45 Strand: - Start: 3 End: 137 .. V S T Q T A S G A S A I G F D L R N C T T C S F V S I E C M P F Y Y T S K R C F F P I R M ......................... Protein_Len: 51 Strand: - Start: 2 End: 154 . F V R R H Q Q A Q R L S V L I W G T V L P A H S S P S K A C L S I I R V K A A F F H S A S T F M Q T M ........ taaacactcgtctgtgttgctgagcctgccgaagcgataccaaaatccagcctgttacaagtggtgcatgagaagacggagatttcgcacatagggaaataatacgtacttttgcggcaaaaaaatgggatgcggatgtgaacatctgcgtcaaggggaacg 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================================================ taaacactcgtctgtgttgctgagcctgccgaagcgataccaaaatccagcctgttacaagtggtgcatgagaagacggagatttcgcacatagggaaataatacgtacttttgcggcaaaaaaatgggatgcggatgtgaacatctgcgtcaaggggaacg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1322:TF1323|TF1322:TF1323:conserved hypothetical protein; possible surface protein:metallo-beta-lactamase superfamily protein:->->:1402628..1402789 162 taaacactcgtctgtgttgctgagcctgccgaagcgataccaaaatccagcctgttacaagtggtgcatgagaagacggagatttcgcacatagggaaataatacgtacttttgcggcaaaaaaatgggatgcggatgtgaacatctgcgtcaaggggaacg Intra-Species Hit: Count: 1 Min: 1 Max: 162 Len: 162 Subject: tfor_TF1322_TF1323|conserved hypothetical protein; possible surface protein:metallo-beta-lactamase superfamily protein|POSITIVE:POSITIVE|[1402628,1402789]|162 HSP 1 e-value: 1.0E-74 bit: 280.0 Len: 162 Query Start:1 Query End:162 Subject Strand: POSITIVE Subject Start: 1 Subject End: 162 taaacactcgtctgtgttgctgagcctgccgaagcgataccaaaatccagcctgttacaagtggtgcatgagaagacggagatttcgcacatagggaaataatacgtacttttgcggcnnnnnnntgggatgcggatgtgaacatctgcgtcaaggggaacg taaacactcgtctgtgttgctgagcctgccgaagcgataccaaaatccagcctgttacaagtggtgcatgagaagacggagatttcgcacatagggaaataatacgtacttttgcggcaaaaaaatgggatgcggatgtgaacatctgcgtcaaggggaacg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACACUCGUCUGUGUUGCUGAGCCUGCCGAAGCGAUACCAAAAUCCAGCCUGUUACAAGUGGUGCAUGAGAAGACGGAGAUUUCGCACAUAGGGAAAUAAUACGUACUUUUGCGGCAAAAAAAUGGGAUGCGGAUGUGAACAUCUGCGUCAAGGGGAACG .............((((((((..(.....)..)))))))).....(((..(((........((.((((.(((...(((...(((((.(.....).)))))....))).))).)))).)).........((((((((((....)))))))))).))))))... (-46.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGUUCCCCUUGACGCAGAUGUUCACAUCCGCAUCCCAUUUUUUUGCCGCAAAAGUACGUAUUAUUUCCCUAUGUGCGAAAUCUCCGUCUUCUCAUGCACCACUUGUAACAGGCUGGAUUUUGGUAUCGCUUCGGCAGGCUCAGCAACACAGACGAGUGUUUA .((.......((((.((((..........(((...........))).......(((((((.........)))))))...)))).)))).......))..(((((((.....((((......(((...((....))..))))))).......))))))).... (-34.44) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 401 58 12 55 21 tfor:TF1929|5end_conserved_hypothetical_protein_2076049..2076279_POSITIVE 384 67 24 64 6 tfor:TF0118|5end_5-keto-D-gluconate_5-reductase_129768..129998_POSITIVE 355 158 114 229 176 tfor:TF0730|5end_conserved_hypothetical_protein_782249..782479_POSITIVE 349 70 23 86 32 tfor:TF1168|5end_hypothetical_protein_1248755..1248985_POSITIVE 345 42 7 85 36 tfor:TF1298|5end_possible_membrane_protein_1380107..1380337_POSITIVE 344 37 8 191 158 tfor:TF0881|5end_conserved_hypothetical_protein_934459..934689_POSITIVE 338 52 12 39 1 tfor:TF0038|5end_conserved_hypothetical_protein_39907..40137_POSITIVE 335 41 8 46 10 tfor:TF1189|5end_outer_membrane_protein,_TonB_dependent_receptor_1270586..1270816_POSITIVE 333 68 22 84 40 tfor:TF2677|5end_aspartate_transaminase_2850809..2851039_POSITIVE 332 141 105 184 150 tfor:TF1535|5end_possible_outer_membrane_receptor_protein_1639970..1640200_POSITIVE 330 69 22 221 168 tfor:TF2775|5end_conserved_hypothetical_protein;_possible_mucoidy_inhibitor-related_protein_2959668..2959898_POSITIVE 330 70 24 174 116 tfor:TF0414|5end_N-ethylammeline_chlorohydrolase_431789..432019_POSITIVE 327 70 26 45 7 tfor:TF0441|5end_Na+-transporting_NADH:ubiquinone_oxidoreductase,_subunit_3_464614..464844_POSITIVE 325 48 7 83 32 tfor:TF0961|5end_translation_initiation_inhibitor,_endoribonuclease_activity_1010445..1010675_POSITIVE 320 98 52 208 149 tfor:TF0555|5end_Bacteroides_aerotolerance_protein,_BatB_587048..587278_POSITIVE 319 160 113 88 39 tfor:TF2513|5end_conserved_hypothetical_protein_2691146..2691376_POSITIVE 319 59 16 206 164 tfor:TF2294|5end_hypothetical_protein_2448012..2448242_POSITIVE 318 158 114 50 3 tfor:TF2674|5end_conserved_hypothetical_protein;_possible_phosphoesterase_2848176..2848406_POSITIVE 318 70 21 52 6 tfor:TF0379|5end_conserved_hypothetical_protein,_nif3_family_399458..399688_POSITIVE 317 55 18 92 54 tfor:TF0301|5end_outer_membrane_protein,_TonB_dependent_receptor_325457..325687_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 401 58 12 50 16 tfor:TF1928|3end_conserved_hypothetical_protein_2076124..2076274_POSITIVE 354 51 11 48 4 tfor:TF0037|3end_sialic_acid-specific_9-O-acetylesterase_39991..40141_POSITIVE 351 149 102 142 81 tfor:TF2109|3end_possible_metallo-beta-lactamase_family_protein_2278960..2279110_POSITIVE 331 97 57 151 111 tfor:TF1472|3end_acyl-ACP_thioesterase_1566337..1566487_POSITIVE 329 49 8 49 7 tfor:TF1771|3end_prolipoprotein_diacylglyceryl_transferase_1910607..1910757_POSITIVE 327 70 26 39 1 tfor:TF0440|3end_Na+-transporting_NADH:ubiquinone_oxidoreductase,_subunit_2_464688..464838_POSITIVE 325 48 7 64 13 tfor:TF0960|3end_beta-galactosidase_1010506..1010656_POSITIVE 319 160 113 64 15 tfor:TF2512|3end_possible_abortive_infection_protein_2691202..2691352_POSITIVE 318 158 114 66 19 tfor:TF2673|3end_conserved_hypothetical_protein_2848272..2848422_POSITIVE 318 41 2 148 109 tfor:TF2125|3end_conserved_hypothetical_protein_2302465..2302615_POSITIVE 318 159 112 117 56 tfor:TF1868|3end_conserved_hypothetical_protein;_possible_transposase_2023043..2023193_POSITIVE 317 55 18 96 58 tfor:TF0300|3end_hypothetical_protein_325541..325691_POSITIVE 314 160 127 34 8 tfor:TF2922|3end_surface_antigen_BspA_3121538..3121688_POSITIVE 313 120 74 80 36 tfor:TF0862|3end_conserved_hypothetical_protein_fragment_914459..914609_POSITIVE 310 60 19 81 25 tfor:TF2275|3end_conserved_hypothetical_protein_2438300..2438450_POSITIVE 309 49 9 56 18 tfor:TF1064|3end_ampG_permease_1135382..1135532_POSITIVE 301 159 116 52 6 tfor:TF2339|3end_hypothetical_protein_2505783..2505933_POSITIVE 301 58 12 140 94 tfor:TF1443|3end_hypothetical_protein_1528203..1528353_POSITIVE 299 79 34 121 67 tfor:TF1732|3end_conserved_hypothetical_protein_1855979..1856129_POSITIVE 299 159 116 114 81 tfor:TF0419|3end_conserved_hypothetical_protein_435794..435944_POSITIVE