Origin IGS: gccttttcaaaaaaacgagtgcaaacataaaaaaattacgccgaactatgtatgctaatgtcagaaatttagccgacacgtccgaaaaactttgataaaaacatgctatataacatctttttaagttgtcgcattcagtagaagaacgctaattttacacgcgaaattaacaaatgactgatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aatcagtcatttgttaatttcgcgtgtaaaattagcgttcttctactgaatgcgacaacttaaaaagatgttatatagcatgtttttatcaaagtttttcggacgtgtcggctaaatttctgacattagcatacatagttcggcgtaatttttttatgtttgcactcgtttttttgaaaaggc Mask Tandem Repeat Region ================================================ gccttttcaaaaaaacgagtgcaaacataaaaaaattacgccgaactatgtatgctaatgtcagaaatttagccgacacgtccgaaaaactttgataaaaacatgctatataacatctttttaagttgtcgcattcagtagaagaacgctaattttacacgcgaaattaacaaatgactgatt Find is-nt database================================================ Query_seq: TF3034:TF3035|TF3034:TF3035:conserved hypothetical protein:aldose 1-epimerase:->->:3260495..3260677 183 gccttttcaaaaaaacgagtgcaaacataaaaaaattacgccgaactatgtatgctaatgtcagaaatttagccgacacgtccgaaaaactttgataaaaacatgctatataacatctttttaagttgtcgcattcagtagaagaacgctaattttacacgcgaaattaacaaatgactgatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF3034:TF3035|TF3034:TF3035:conserved hypothetical protein:aldose 1-epimerase:->->:3260495..3260677 183 gccttttcaaaaaaacgagtgcaaacataaaaaaattacgccgaactatgtatgctaatgtcagaaatttagccgacacgtccgaaaaactttgataaaaacatgctatataacatctttttaagttgtcgcattcagtagaagaacgctaattttacacgcgaaattaacaaatgactgatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF3034:TF3035|TF3034:TF3035:conserved hypothetical protein:aldose 1-epimerase:->->:3260495..3260677 183 gccttttcaaaaaaacgagtgcaaacataaaaaaattacgccgaactatgtatgctaatgtcagaaatttagccgacacgtccgaaaaactttgataaaaacatgctatataacatctttttaagttgtcgcattcagtagaagaacgctaattttacacgcgaaattaacaaatgactgatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gccttttcaaaaaaacgagtgcaaacataaaaaaattacgccgaactatgtatgctaatgtcagaaatttagccgacacgtccgaaaaactttgataaaaacatgctatataacatctttttaagttgtcgcattcagtagaagaacgctaattttacacgcgaaattaacaaatgactgatt Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: - Start: 2 End: 109 . R K L F V L A F M F F N R R V I Y A L T L F K A S V D S F S Q Y F C A M .......................................................................... gccttttcaaaaaaacgagtgcaaacataaaaaaattacgccgaactatgtatgctaatgtcagaaatttagccgacacgtccgaaaaactttgataaaaacatgctatataacatctttttaagttgtcgcattcagtagaagaacgctaattttacacgcgaaattaacaaatgactgatt 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================================================ gccttttcaaaaaaacgagtgcaaacataaaaaaattacgccgaactatgtatgctaatgtcagaaatttagccgacacgtccgaaaaactttgataaaaacatgctatataacatctttttaagttgtcgcattcagtagaagaacgctaattttacacgcgaaattaacaaatgactgatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF3034:TF3035|TF3034:TF3035:conserved hypothetical protein:aldose 1-epimerase:->->:3260495..3260677 183 gccttttcaaaaaaacgagtgcaaacataaaaaaattacgccgaactatgtatgctaatgtcagaaatttagccgacacgtccgaaaaactttgataaaaacatgctatataacatctttttaagttgtcgcattcagtagaagaacgctaattttacacgcgaaattaacaaatgactgatt Intra-Species Hit: Count: 1 Min: 36 Max: 183 Len: 148 Subject: tfor_TF3034_TF3035|conserved hypothetical protein:aldose 1-epimerase|POSITIVE:POSITIVE|[3260495,3260677]|183 HSP 1 e-value: 1.0E-78 bit: 293.0 Len: 148 Query Start:36 Query End:183 Subject Strand: POSITIVE Subject Start: 36 Subject End: 183 ...................................ttacgccgaactatgtatgctaatgtcagaaatttagccgacacgtccgaaaaactttgataaaaacatgctatataacatctttttaagttgtcgcattcagtagaagaacgctaattttacacgcgaaattaacaaatgactgatt ...................................ttacgccgaactatgtatgctaatgtcagaaatttagccgacacgtccgaaaaactttgataaaaacatgctatataacatctttttaagttgtcgcattcagtagaagaacgctaattttacacgcgaaattaacaaatgactgatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUACGCCGAACUAUGUAUGCUAAUGUCAGAAAUUUAGCCGACACGUCCGAAAAACUUUGAUAAAAACAUGCUAUAUAACAUCUUUUUAAGUUGUCGCAUUCAGUAGAAGAACGCUAAUUUUACACGCGAAAUUAACAAAUGACUGAUU ...(((.(((...(((..(((((..........)))))..)))....(((..((((....((((((.(((........))).)))))))))).)))..))).((((((.........))))))..))).................... (-17.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUCAGUCAUUUGUUAAUUUCGCGUGUAAAAUUAGCGUUCUUCUACUGAAUGCGACAACUUAAAAAGAUGUUAUAUAGCAUGUUUUUAUCAAAGUUUUUCGGACGUGUCGGCUAAAUUUCUGACAUUAGCAUACAUAGUUCGGCGUAA ..(((((....(((((((((........))))))))).......))))).((((..((((((((((.(((((....))))).))))))....))))...(((((((((..(((((..........)))))..)))).))))).)))). (-30.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 335 50 15 131 98 tfor:TF1818|5end_conserved_hypothetical_protein_1957967..1958197_POSITIVE 332 50 5 191 154 tfor:TF0983|5end_nitroreductase_family_protein,__possible_NADH_dehydrogenase/NAD(P)H_nitroreductase_1039394..1039624_POSITIVE 303 50 5 91 38 tfor:TF0446|5end_hypothetical_protein_466473..466703_POSITIVE 285 49 5 122 80 tfor:TF3067|5end_conserved_hypothetical_protein_3292432..3292662_POSITIVE 283 49 2 171 120 tfor:TF1550|5end_excinuclease_ABC,_subunit_B_1654841..1655071_POSITIVE 271 114 89 86 62 tfor:TF0832|5end_conserved_hypothetical_protein_888466..888696_POSITIVE 270 49 1 69 18 tfor:TF1789|5end_conserved_hypothetical_protein_1930219..1930449_POSITIVE 268 49 1 166 113 tfor:TF1067|5end_conserved_hypothetical_protein_1136867..1137097_POSITIVE 265 50 1 229 154 tfor:TF2381|5end_muramidase/hemagglutinin_2545757..2545987_POSITIVE 265 45 1 52 16 tfor:TF1520|5end_transaldolase_1628150..1628380_POSITIVE 262 49 1 213 160 tfor:TF2770|5end_conserved_hypothetical_protein_2956308..2956538_POSITIVE 262 50 1 230 181 tfor:TF0230|5end_hydrolase,_haloacid_dehalogenase-like_family_256982..257212_POSITIVE 261 59 14 221 170 tfor:TF2812|5end_hypothetical_protein_3002726..3002956_POSITIVE 261 46 4 64 25 tfor:TF1682|5end_hydrolase_1796409..1796639_POSITIVE 257 49 5 193 142 tfor:TF1475|5end_glucose-6-phosphate_1-dehydrogenase_1568034..1568264_POSITIVE 255 50 3 218 164 tfor:TF0786|5end_pyridoxal_phosphate_biosynthetic_protein_838563..838793_POSITIVE 255 49 4 72 28 tfor:TF0001|5end_hypothetical_protein_-116..114_POSITIVE 254 60 13 178 132 tfor:TF2177|5end_hypothetical_protein_2349281..2349511_POSITIVE 253 50 7 48 3 tfor:TF0057|5end_conserved_hypothetical_protein_59263..59493_POSITIVE 251 49 5 155 103 tfor:TF0866|5end_naphthoate_synthase_916725..916955_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 335 50 15 58 25 tfor:TF1816|3end_hypothetical_protein_1957974..1958124_POSITIVE 335 50 15 75 42 tfor:TF1817|3end_hypothetical_protein_1957991..1958141_POSITIVE 303 50 5 56 3 tfor:TF0444|3end_Na+-translocating_NADH-quinone_oxidoreductase,_subunit_5_466518..466668_POSITIVE 272 46 5 88 45 tfor:TF1517|3end_hypothetical_protein_1626947..1627097_POSITIVE 268 49 1 77 24 tfor:TF1066|3end_hypothetical_protein_1136858..1137008_POSITIVE 261 46 4 86 47 tfor:TF1683|3end_conserved_hypothetical_protein_1796511..1796661_POSITIVE 254 49 4 104 50 tfor:TF2937|3end_translation_elongation_factor_Tu_3140502..3140652_POSITIVE 250 48 7 56 4 tfor:TF2595|3end_conserved_hypothetical_protein_2766717..2766867_POSITIVE 243 50 7 57 3 tfor:TF2848|3end_cobalamin_biosynthesis_protein_3037389..3037539_POSITIVE 242 49 4 148 99 tfor:TF0461|3end_ATP:cob(I)alamin_adenosyltransferase_477642..477792_POSITIVE 238 127 89 37 1 tfor:TF2801|3end_outer_membrane_protein,_TonB_dependent_receptor_2989901..2990051_POSITIVE 238 50 5 81 35 tfor:TF1474|3end_6-phosphogluconolactonase_1568123..1568273_POSITIVE 237 49 1 98 43 tfor:TF2132|3end_TIM-barrel_protein,_NifR3_family_2308769..2308919_POSITIVE 235 50 4 83 21 tfor:TF3139|3end_Na+-translocating_NADH-quinone_reductase,_subunit_C_3373389..3373539_POSITIVE 235 50 5 131 80 tfor:TF1668|3end_possible_glycosylhydrolase_1783615..1783765_POSITIVE 231 50 5 147 101 tfor:TF2896|3end_conserved_hypothetical_protein;_possible_ATPase,_AAA_superfamily_3085687..3085837_POSITIVE 229 59 14 140 90 tfor:TF1197|3end_transcriptional_regulator_1281414..1281564_POSITIVE 228 72 37 101 66 tfor:TF2613|3end_conserved_hypothetical_protein_2789798..2789948_POSITIVE 227 50 5 98 44 tfor:TF3032|3end_thiamin_biosynthesis_protein_3256838..3256988_POSITIVE 226 76 37 91 41 tfor:TF1236|3end_L-rhamnose_isomerase_1322106..1322256_POSITIVE