Origin IGS: taatcgatacgatagcataagcgcaaaaaggggctgcctgaagaaaaacggaccgtccttttttgtgctgtcattttagtccccctctcctacctcctttcaattcaccaccctgatccttgtatattccactccacgaaaagggaacaacatatccgatatttttcttacctttacctcttcaaaaaaataatgt .........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 acattatttttttgaagaggtaaaggtaagaaaaatatcggatatgttgttcccttttcgtggagtggaatatacaaggatcagggtggtgaattgaaaggaggtaggagagggggactaaaatgacagcacaaaaaaggacggtccgtttttcttcaggcagcccctttttgcgcttatgctatcgtatcgatta Mask Tandem Repeat Region ================================================ taatcgatacgatagcataagcgcaaaaaggggctgcctgaagaaaaacggaccgtccttttttgtgctgtcattttagtccccctctcctacctcctttcaattcaccaccctgatccttgtatattccactccacgaaaagggaacaacatatccgatatttttcttacctttacctcttcaaaaaaataatgt Find is-nt database================================================ Query_seq: TF0985:TF0987|TF0985:TF0987:fructose-bisphosphate aldolase:DNA repair protein:->->:1043034..1043229 196 taatcgatacgatagcataagcgcaaaaaggggctgcctgaagaaaaacggaccgtccttttttgtgctgtcattttagtccccctctcctacctcctttcaattcaccaccctgatccttgtatattccactccacgaaaagggaacaacatatccgatatttttcttacctttacctcttcaaaaaaataatgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0985:TF0987|TF0985:TF0987:fructose-bisphosphate aldolase:DNA repair protein:->->:1043034..1043229 196 taatcgatacgatagcataagcgcaaaaaggggctgcctgaagaaaaacggaccgtccttttttgtgctgtcattttagtccccctctcctacctcctttcaattcaccaccctgatccttgtatattccactccacgaaaagggaacaacatatccgatatttttcttacctttacctcttcaaaaaaataatgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0985:TF0987|TF0985:TF0987:fructose-bisphosphate aldolase:DNA repair protein:->->:1043034..1043229 196 taatcgatacgatagcataagcgcaaaaaggggctgcctgaagaaaaacggaccgtccttttttgtgctgtcattttagtccccctctcctacctcctttcaattcaccaccctgatccttgtatattccactccacgaaaagggaacaacatatccgatatttttcttacctttacctcttcaaaaaaataatgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatcgatacgatagcataagcgcaaaaaggggctgcctgaagaaaaacggaccgtccttttttgtgctgtcattttagtccccctctcctacctcctttcaattcaccaccctgatccttgtatattccactccacgaaaagggaacaacatatccgatatttttcttacctttacctcttcaaaaaaataatgt Predict ORF larger than 30AA ================================================ Protein_Len: 54 Strand: + Start: 34 End: 195 ................................. M P E E K R T V L F C A V I L V P L S Y L L S I H H P D P C I F H S T K R E Q H I R Y F S Y L Y L F K K I M . taatcgatacgatagcataagcgcaaaaaggggctgcctgaagaaaaacggaccgtccttttttgtgctgtcattttagtccccctctcctacctcctttcaattcaccaccctgatccttgtatattccactccacgaaaagggaacaacatatccgatatttttcttacctttacctcttcaaaaaaataatgt 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================================================ taatcgatacgatagcataagcgcaaaaaggggctgcctgaagaaaaacggaccgtccttttttgtgctgtcattttagtccccctctcctacctcctttcaattcaccaccctgatccttgtatattccactccacgaaaagggaacaacatatccgatatttttcttacctttacctcttcaaaaaaataatgt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 50 HP_score: -4.4 Tail_Score: -3.13504 Start: 19 End: 70 Full_Region: TCGATACGATAGCAT AAGCGCAAAAAGGGGCTGCCTG AAGAAAAA CGGACCGTCCTTTTTTGTGCTG TCATTTTAGTCCCCC ..................AAGCGCAAAAAGGGGCTGCCTGAAGAAAAACGGACCGTCCTTTTTTGTGCTG.............................................................................................................................. Find igs database================================================ Query_seq: TF0985:TF0987|TF0985:TF0987:fructose-bisphosphate aldolase:DNA repair protein:->->:1043034..1043229 196 taatcgatacgatagcataagcgcaaaaaggggctgcctgaagaaaaacggaccgtccttttttgtgctgtcattttagtccccctctcctacctcctttcaattcaccaccctgatccttgtatattccactccacgaaaagggaacaacatatccgatatttttcttacctttacctcttcaaaaaaataatgt Intra-Species Hit: Count: 1 Min: 1 Max: 183 Len: 183 Subject: tfor_TF0985_TF0987|fructose-bisphosphate aldolase:DNA repair protein|POSITIVE:POSITIVE|[1043034,1043229]|196 HSP 1 e-value: 1.0E-99 bit: 363.0 Len: 183 Query Start:1 Query End:183 Subject Strand: POSITIVE Subject Start: 1 Subject End: 183 taatcgatacgatagcataagcgcaaaaaggggctgcctgaagaaaaacggaccgtccttttttgtgctgtcattttagtccccctctcctacctcctttcaattcaccaccctgatccttgtatattccactccacgaaaagggaacaacatatccgatatttttcttacctttacctcttc............. taatcgatacgatagcataagcgcaaaaaggggctgcctgaagaaaaacggaccgtccttttttgtgctgtcattttagtccccctctcctacctcctttcaattcaccaccctgatccttgtatattccactccacgaaaagggaacaacatatccgatatttttcttacctttacctcttc............. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCGAUACGAUAGCAUAAGCGCAAAAAGGGGCUGCCUGAAGAAAAACGGACCGUCCUUUUUUGUGCUGUCAUUUUAGUCCCCCUCUCCUACCUCCUUUCAAUUCACCACCCUGAUCCUUGUAUAUUCCACUCCACGAAAAGGGAACAACAUAUCCGAUAUUUUUCUUACCUUUACCUCUUC ..((((....((((.....(((((((((((((((.(.(((........))).).))))))))))))))).........................................((((..((...((.......)).....))..)))).......))))))))....................... (-32.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAGAGGUAAAGGUAAGAAAAAUAUCGGAUAUGUUGUUCCCUUUUCGUGGAGUGGAAUAUACAAGGAUCAGGGUGGUGAAUUGAAAGGAGGUAGGAGAGGGGGACUAAAAUGACAGCACAAAAAAGGACGGUCCGUUUUUCUUCAGGCAGCCCCUUUUUGCGCUUAUGCUAUCGUAUCGAUUA .......................(((((...(((((((((((((....)))).)))))).)))..(((.((.((((((....((((((.(((((((((((.(((((.......................))))).))))))))......)))))))))..))).))).)))))...))))).. (-41.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 388 63 25 111 72 tfor:TF3118|5end_conserved_hypothetical_protein_3352373..3352603_POSITIVE 370 58 19 196 145 tfor:TF1555|5end_hypothetical_protein_1661061..1661291_POSITIVE 345 109 64 155 101 tfor:TF0662|5end_hypothetical_protein_708316..708546_POSITIVE 330 72 31 200 147 tfor:TF0241|5end_UDP-N-acetyl_glucosamine_-2-epimerase_271321..271551_POSITIVE 328 58 16 70 16 tfor:TF2272|5end_conserved_hypothetical_protein_2436156..2436386_POSITIVE 327 131 94 52 19 tfor:TF1068|5end_conserved_hypothetical_protein;_possible_N-acetylglucosamine_kinase_1138036..1138266_POSITIVE 323 60 22 41 2 tfor:TF2547|5end_hypothetical_protein_2730664..2730894_POSITIVE 322 55 15 87 39 tfor:TF1742|5end_TPR_repeat-containing_protein_1873129..1873359_POSITIVE 320 70 22 142 77 tfor:TF2223|5end_CTn_excision__protein_2394247..2394477_POSITIVE 320 66 22 67 17 tfor:TF0693|5end_sigma-54_dependent_transcriptional_regulator_736902..737132_POSITIVE 316 58 13 215 153 tfor:TF0786|5end_pyridoxal_phosphate_biosynthetic_protein_838563..838793_POSITIVE 313 68 21 51 11 tfor:TF2380|5end_hemagglutinin_2545012..2545242_POSITIVE 308 58 13 205 160 tfor:TF3112|5end_Na+/H+_anitporter_3346775..3347005_POSITIVE 308 76 33 93 42 tfor:TF2603|5end_transcriptional_regulator,_AraC_family_2776578..2776808_POSITIVE 303 130 81 142 95 tfor:TF2951|5end_O-succinylbenzoic_acid--CoA_ligase_3158496..3158726_POSITIVE 301 69 34 230 189 tfor:TF1293|5end_ATPase,_possible_AAA_superfamily_1374579..1374809_POSITIVE 301 68 22 72 11 tfor:TF0070|5end_possible_regulatory_element_76942..77172_POSITIVE 301 70 30 220 164 tfor:TF0027|5end_conserved_hypothetical_protein_22866..23096_POSITIVE 300 57 21 82 44 tfor:TF2048|5end_conserved_hypothetical_protein_2210643..2210873_POSITIVE 300 119 77 214 172 tfor:TF1594|5end_hypothetical_protein_1709903..1710133_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 388 63 25 71 32 tfor:TF3116|3end_conserved_hypothetical_protein_3352413..3352563_POSITIVE 370 58 19 68 17 tfor:TF1554|3end_UDP-glucose_dehydrogenase_1661013..1661163_POSITIVE 327 72 34 129 84 tfor:TF1292|3end_sensor_histidine_protein_kinase_1374554..1374704_POSITIVE 327 131 94 52 19 tfor:TF1067|3end_conserved_hypothetical_protein_1138116..1138266_POSITIVE 320 66 22 77 27 tfor:TF0692|3end_conserved_hypothetical_protein_736992..737142_POSITIVE 316 69 21 71 23 tfor:TF0985|3end_fructose-bisphosphate_aldolase_1042973..1043123_POSITIVE 313 68 21 51 11 tfor:TF2379|3end_phosphoribosylformylglycinamidine_cyclo-ligase_(AIR_synthase)_2545092..2545242_POSITIVE 303 130 81 115 68 tfor:TF2950|3end_chloromuconate_cycloisomerase_3158549..3158699_POSITIVE 303 75 34 53 11 tfor:TF2020|3end_muconate_cycloisomerase_2177552..2177702_POSITIVE 300 75 31 149 112 tfor:TF0456|3end_conserved_hypothetical_protein_474172..474322_POSITIVE 298 41 3 52 8 tfor:TF0548|3end_TPR-repeat-containing_protein_581417..581567_POSITIVE 295 70 21 82 16 tfor:TF2656|3end_valyl-tRNA_synthetase_2829822..2829972_POSITIVE 294 83 42 62 16 tfor:TF2655|3end_DNA_topoisomerase_I_2826962..2827112_POSITIVE 294 39 1 91 51 tfor:TF0177|3end_hypothetical_protein_187154..187304_POSITIVE 292 69 27 82 40 tfor:TF0541|3end_conserved_hypothetical_protein_571858..572008_POSITIVE 291 70 25 76 21 tfor:TF0277|3end_outer_membrane_protein_305647..305797_POSITIVE 290 62 26 52 12 tfor:TF0193|3end_conserved_hypothetical_protein;_possible_internalin-like_protein_(LPXTG_motif)_215240..215390_POSITIVE 289 50 4 48 1 tfor:TF2850|3end_endoribonuclease_L-PSP_3038871..3039021_POSITIVE 288 57 11 49 4 tfor:TF2760|3end_MarR__family_transcriptional_regulator_2945449..2945599_POSITIVE 288 56 15 55 19 tfor:TF1644|3end_conserved_hypothetical_protein_1755503..1755653_POSITIVE