Origin IGS: tagtaatagatacttcagcttctgactacgcgcaaccctttttctttcaccatattatcctccctgtagttatgtagtaagataatatcggtgaaagagaaaagcatatca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgatatgcttttctctttcaccgatattatcttactacataactacagggaggataatatggtgaaagaaaaagggttgcgcgtagtcagaagctgaagtatctattacta Mask Tandem Repeat Region ================================================ tagtaatagatacttcagcttctgactacgcgcaaccctttttctttcaccatattatcctccctgtagttatgtagtaagataatatcggtgaaagagaaaagcatatca Find is-nt database================================================ Query_seq: TF1648:TF1649|TF1648:TF1649:hypothetical protein:hypothetical protein:->->:1759667..1759777 111 tagtaatagatacttcagcttctgactacgcgcaaccctttttctttcaccatattatcctccctgtagttatgtagtaagataatatcggtgaaagagaaaagcatatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1648:TF1649|TF1648:TF1649:hypothetical protein:hypothetical protein:->->:1759667..1759777 111 tagtaatagatacttcagcttctgactacgcgcaaccctttttctttcaccatattatcctccctgtagttatgtagtaagataatatcggtgaaagagaaaagcatatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1648:TF1649|TF1648:TF1649:hypothetical protein:hypothetical protein:->->:1759667..1759777 111 tagtaatagatacttcagcttctgactacgcgcaaccctttttctttcaccatattatcctccctgtagttatgtagtaagataatatcggtgaaagagaaaagcatatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagtaatagatacttcagcttctgactacgcgcaaccctttttctttcaccatattatcctccctgtagttatgtagtaagataatatcggtgaaagagaaaagcatatca Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 18 End: 107 ................. S R V V R L G K E K V M N D E R Y N H L L I I D T F S F L M .... tagtaatagatacttcagcttctgactacgcgcaaccctttttctttcaccatattatcctccctgtagttatgtagtaagataatatcggtgaaagagaaaagcatatca 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================================================ tagtaatagatacttcagcttctgactacgcgcaaccctttttctttcaccatattatcctccctgtagttatgtagtaagataatatcggtgaaagagaaaagcatatca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1648:TF1649|TF1648:TF1649:hypothetical protein:hypothetical protein:->->:1759667..1759777 111 tagtaatagatacttcagcttctgactacgcgcaaccctttttctttcaccatattatcctccctgtagttatgtagtaagataatatcggtgaaagagaaaagcatatca Intra-Species Hit: Count: 1 Min: 1 Max: 111 Len: 111 Subject: tfor_TF1648_TF1649|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1759667,1759777]|111 HSP 1 e-value: 7.0E-57 bit: 220.0 Len: 111 Query Start:1 Query End:111 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 tagtaatagatacttcagcttctgactacgcgcaaccctttttctttcaccatattatcctccctgtagttatgtagtaagataatatcggtgaaagagaaaagcatatca tagtaatagatacttcagcttctgactacgcgcaaccctttttctttcaccatattatcctccctgtagttatgtagtaagataatatcggtgaaagagaaaagcatatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUAAUAGAUACUUCAGCUUCUGACUACGCGCAACCCUUUUUCUUUCACCAUAUUAUCCUCCCUGUAGUUAUGUAGUAAGAUAAUAUCGGUGAAAGAGAAAAGCAUAUCA ........((((..((((...))))......((.....(((((((((((((((((((((.(..(((((....)))))..))))))))).))))))))))))).)).)))). (-27.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUAUGCUUUUCUCUUUCACCGAUAUUAUCUUACUACAUAACUACAGGGAGGAUAAUAUGGUGAAAGAAAAAGGGUUGCGCGUAGUCAGAAGCUGAAGUAUCUAUUACUA .......(((((.(((((((((.((((((((((.((...........)).))))))))))))))))))).))))).......(((((.(((.((....)).)))))))).. (-31.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 309 108 61 186 133 tfor:TF1328|5end_possible_cytidylyltransferase_1407434..1407664_POSITIVE 284 53 11 152 97 tfor:TF3119|5end_conserved_hypothetical_protein_3352723..3352953_POSITIVE 282 38 2 176 137 tfor:TF3020|5end_possible_sulfatase_3243559..3243789_POSITIVE 282 51 14 46 8 tfor:TF2939|5end_transcription_antiterminator_3140763..3140993_POSITIVE 266 54 16 219 180 tfor:TF1348|5end_conserved_hypothetical_protein_1428170..1428400_POSITIVE 257 100 51 183 134 tfor:TF2131|5end_conserved_hypothetical_protein_2306867..2307097_POSITIVE 256 60 13 59 4 tfor:TF0168|5end_hypothetical_protein_178160..178390_POSITIVE 255 52 17 196 161 tfor:TF1329|5end_glucose-1-phosphate_thymidyltransferase_1408578..1408808_POSITIVE 252 70 22 95 45 tfor:TF3055|5end_hypothetical_protein_3278775..3279005_POSITIVE 250 52 13 198 143 tfor:TF1703|5end_conserved_hypothetical_protein_1822065..1822295_POSITIVE 248 100 59 116 71 tfor:TF1428|5end_conserved_hypothetical_protein_1513566..1513796_POSITIVE 245 93 54 231 180 tfor:TF2525|5end_conserved_hypothetical_protein_2704027..2704257_POSITIVE 243 57 20 95 62 tfor:TF2120|5end_holliday_junction_endonuclease_2292108..2292338_POSITIVE 242 49 3 194 140 tfor:TF3124|5end_dTDP-glucose_4,6-dehydratase_3358655..3358885_POSITIVE 241 53 14 200 152 tfor:TF1758|5end_conserved_hypothetical_protein_1894769..1894999_POSITIVE 239 45 13 71 37 tfor:TF2441|5end_10_kDa_chaperonin_2618239..2618469_POSITIVE 238 49 13 111 68 tfor:TF0679|5end_hypothetical_protein_721155..721385_POSITIVE 238 49 13 59 16 tfor:TF0678|5end_hypothetical_protein_721103..721333_POSITIVE 237 70 22 209 146 tfor:TF2788|5end_hypothetical_protein_2972201..2972431_POSITIVE 236 60 14 68 9 tfor:TF2228|5end_CTn_excision_protein_2395899..2396129_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 282 38 2 124 85 tfor:TF3019|3end_tRNA_and_rRNA_cytosine-C5-methylase_3243587..3243737_POSITIVE 272 70 25 60 12 tfor:TF1696|3end_conserved_hypothetical_protein_1818175..1818325_POSITIVE 254 97 51 149 103 tfor:TF2130|3end_conserved_hypothetical_protein;_possible_permease_2306916..2307066_POSITIVE 253 52 25 34 7 tfor:TF1297|3end_hypothetical_protein_1379523..1379673_POSITIVE 252 70 22 129 79 tfor:TF3053|3end_conserved_hypothetical_protein_3278889..3279039_POSITIVE 252 49 8 143 104 tfor:TF0202|3end_folylpolyglutamate_synthase_229104..229254_POSITIVE 251 60 13 53 7 tfor:TF0167|3end_conserved_hypothetical_protein_178234..178384_POSITIVE 250 52 13 128 73 tfor:TF1702|3end_conserved_hypothetical_protein_1822075..1822225_POSITIVE 248 100 59 82 37 tfor:TF1427|3end_penicillin-binding_protein_2_1513612..1513762_POSITIVE 243 57 20 95 62 tfor:TF2119|3end_conserved_hypothetical_protein_2292188..2292338_POSITIVE 236 100 52 50 3 tfor:TF1648|3end_hypothetical_protein_1759606..1759756_POSITIVE 233 49 13 116 71 tfor:TF2656|3end_valyl-tRNA_synthetase_2829822..2829972_POSITIVE 233 51 11 141 103 tfor:TF1862|3end_hypothetical_protein_2018784..2018934_POSITIVE 230 49 23 119 94 tfor:TF2880|3end_phenylalanyl-tRNA_synthetase,_beta_subunit_3071630..3071780_POSITIVE 224 65 31 123 89 tfor:TF0154|3end_conserved_hypothetical_protein_164264..164414_POSITIVE 222 49 6 134 81 tfor:TF2943|3end_50S_ribosomal_protein_L7/L12_3143567..3143717_POSITIVE 221 48 18 74 46 tfor:TF2031|3end_conserved_hypothetical_protein_2188346..2188496_POSITIVE 220 70 29 52 2 tfor:TF3118|3end_conserved_hypothetical_protein_3352824..3352974_POSITIVE 220 64 21 85 58 tfor:TF2556|3end_conserved_hypothetical_protein_2737095..2737245_POSITIVE 220 56 13 150 94 tfor:TF1779|3end_conserved_hypothetical_protein_1921048..1921198_POSITIVE