Origin IGS: tgtttctttgtttgaatttgttattaaacagtttatccttaatcgtttttgagattcctcactgcgttcggaatgacaaggaacgggggcaggtcaaacgtgcaggttcgaacccacccccgttcgcgcttcacttgttagttagtcggctgcctcgccgcctttctttccactgcatgcagcactcaaggtcaaggcaccggtcatgatgatcatcataaaaaggcttctgttcataatgaattgaatttaaacgtttatcattgcgtttagcctgtttattctatggctctgacggagttcatca .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgatgaactccgtcagagccatagaataaacaggctaaacgcaatgataaacgtttaaattcaattcattatgaacagaagcctttttatgatgatcatcatgaccggtgccttgaccttgagtgctgcatgcagtggaaagaaaggcggcgaggcagccgactaactaacaagtgaagcgcgaacgggggtgggttcgaacctgcacgtttgacctgcccccgttccttgtcattccgaacgcagtgaggaatctcaaaaacgattaaggataaactgtttaataacaaattcaaacaaagaaaca Mask Tandem Repeat Region ================================================ tgtttctttgtttgaatttgttattaaacagtttatccttaatcgtttttgagattcctcactgcgttcggaatgacaaggaacgggggcaggtcaaacgtgcaggttcgaacccacccccgttcgcgcttcacttgttagttagtcggctgcctcgccgcctttctttccactgcatgcagcactcaaggtcaaggcaccggtcatgatgatcatcataaaaaggcttctgttcataatgaattgaatttaaacgtttatcattgcgtttagcctgtttattctatggctctgacggagttcatca Find is-nt database================================================ Query_seq: TF2913:TF2914|TF2913:TF2914:conserved hypothetical protein:hypothetical protein:->->:3109178..3109484 307 tgtttctttgtttgaatttgttattaaacagtttatccttaatcgtttttgagattcctcactgcgttcggaatgacaaggaacgggggcaggtcaaacgtgcaggttcgaacccacccccgttcgcgcttcacttgttagttagtcggctgcctcgccgcctttctttccactgcatgcagcactcaaggtcaaggcaccggtcatgatgatcatcataaaaaggcttctgttcataatgaattgaatttaaacgtttatcattgcgtttagcctgtttattctatggctctgacggagttcatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2913:TF2914|TF2913:TF2914:conserved hypothetical protein:hypothetical protein:->->:3109178..3109484 307 tgtttctttgtttgaatttgttattaaacagtttatccttaatcgtttttgagattcctcactgcgttcggaatgacaaggaacgggggcaggtcaaacgtgcaggttcgaacccacccccgttcgcgcttcacttgttagttagtcggctgcctcgccgcctttctttccactgcatgcagcactcaaggtcaaggcaccggtcatgatgatcatcataaaaaggcttctgttcataatgaattgaatttaaacgtttatcattgcgtttagcctgtttattctatggctctgacggagttcatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2913:TF2914|TF2913:TF2914:conserved hypothetical protein:hypothetical protein:->->:3109178..3109484 307 tgtttctttgtttgaatttgttattaaacagtttatccttaatcgtttttgagattcctcactgcgttcggaatgacaaggaacgggggcaggtcaaacgtgcaggttcgaacccacccccgttcgcgcttcacttgttagttagtcggctgcctcgccgcctttctttccactgcatgcagcactcaaggtcaaggcaccggtcatgatgatcatcataaaaaggcttctgttcataatgaattgaatttaaacgtttatcattgcgtttagcctgtttattctatggctctgacggagttcatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgtttctttgtttgaatttgttattaaacagtttatccttaatcgtttttgagattcctcactgcgttcggaatgacaaggaacgggggcaggtcaaacgtgcaggttcgaacccacccccgttcgcgcttcacttgttagttagtcggctgcctcgccgcctttctttccactgcatgcagcactcaaggtcaaggcaccggtcatgatgatcatcataaaaaggcttctgttcataatgaattgaatttaaacgtttatcattgcgtttagcctgtttattctatggctctgacggagttcatca Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 49 End: 138 ................................................ M R F L T A F G M T R N G G R S N V Q V R T H P R S R F T C ......................................................................................................................................................................... Protein_Len: 60 Strand: + Start: 12 End: 206 ........... M N L L L N S L S L I V F E I P H C V R N D K E R G Q V K R A G S N P P P F A L H L L V S R L P R R L S F H C M Q H S R ..................................................................................................... Protein_Len: 35 Strand: - Start: 145 End: 249 ................................................................................................................................................ D A A E G G K K G S C A A S L T L A G T M I I M M F L S R N M I F Q M .......................................................... Protein_Len: 37 Strand: - Start: 134 End: 244 ..................................................................................................................................... K N T L R S G R R R E K W Q M C C E L D L C R D H H D D Y F P K Q E Y H M ............................................................... Protein_Len: 31 Strand: - Start: 42 End: 134 ......................................... D N K L N R V A N P I V L F P P L D F T C T R V W G R E R K M ............................................................................................................................................................................. tgtttctttgtttgaatttgttattaaacagtttatccttaatcgtttttgagattcctcactgcgttcggaatgacaaggaacgggggcaggtcaaacgtgcaggttcgaacccacccccgttcgcgcttcacttgttagttagtcggctgcctcgccgcctttctttccactgcatgcagcactcaaggtcaaggcaccggtcatgatgatcatcataaaaaggcttctgttcataatgaattgaatttaaacgtttatcattgcgtttagcctgtttattctatggctctgacggagttcatca 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================================================ tgtttctttgtttgaatttgttattaaacagtttatccttaatcgtttttgagattcctcactgcgttcggaatgacaaggaacgggggcaggtcaaacgtgcaggttcgaacccacccccgttcgcgcttcacttgttagttagtcggctgcctcgccgcctttctttccactgcatgcagcactcaaggtcaaggcaccggtcatgatgatcatcataaaaaggcttctgttcataatgaattgaatttaaacgtttatcattgcgtttagcctgtttattctatggctctgacggagttcatca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 93 HP_score: -12.4 Tail_Score: -3.50853 Start: 80 End: 126 Full_Region: ctaacaagtgaagcg cgaacgggggtgggttcgaac ctgcac gtttgacctgcccccgttcc ttgtcattccgaacg ...............................................................................cgaacgggggtgggttcgaacctgcacgtttgacctgcccccgttcc..................................................................................................................................................................................... TransTerm Strand: - Conf: 100 HP_score: -15.9 Tail_Score: -2.70298 Start: 81 End: 125 Full_Region: taacaagtgaagcgc gaacgggggtgggttcgaac ctgcac gtttgacctgcccccgttc cttgtcattccgaac ................................................................................gaacgggggtgggttcgaacctgcacgtttgacctgcccccgttc...................................................................................................................................................................................... TransTerm Strand: + Conf: 74 HP_score: -7.0 Tail_Score: -4.44046 Start: 148 End: 162 Full_Region: ACTTGTTAGTTAGTC GGCTGC CTC GCCGCC TTTCTTTCCACTGCA ...................................................................................................................................................GGCTGCCTCGCCGCC................................................................................................................................................. Find igs database================================================ Query_seq: TF2913:TF2914|TF2913:TF2914:conserved hypothetical protein:hypothetical protein:->->:3109178..3109484 307 tgtttctttgtttgaatttgttattaaacagtttatccttaatcgtttttgagattcctcactgcgttcggaatgacaaggaacgggggcaggtcaaacgtgcaggttcgaacccacccccgttcgcgcttcacttgttagttagtcggctgcctcgccgcctttctttccactgcatgcagcactcaaggtcaaggcaccggtcatgatgatcatcataaaaaggcttctgttcataatgaattgaatttaaacgtttatcattgcgtttagcctgtttattctatggctctgacggagttcatca Intra-Species Hit: Count: 1 Min: 1 Max: 307 Len: 307 Subject: tfor_TF2913_TF2914|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[3109178,3109484]|307 HSP 1 e-value: 1.0E-173 bit: 609.0 Len: 307 Query Start:1 Query End:307 Subject Strand: POSITIVE Subject Start: 1 Subject End: 307 tgtttctttgtttgaatttgttattaaacagtttatccttaatcgtttttgagattcctcactgcgttcggaatgacaaggaacgggggcaggtcaaacgtgcaggttcgaacccacccccgttcgcgcttcacttgttagttagtcggctgcctcgccgcctttctttccactgcatgcagcactcaaggtcaaggcaccggtcatgatgatcatcataaaaaggcttctgttcataatgaattgaatttaaacgtttatcattgcgtttagcctgtttattctatggctctgacggagttcatca tgtttctttgtttgaatttgttattaaacagtttatccttaatcgtttttgagattcctcactgcgttcggaatgacaaggaacgggggcaggtcaaacgtgcaggttcgaacccacccccgttcgcgcttcacttgttagttagtcggctgcctcgccgcctttctttccactgcatgcagcactcaaggtcaaggcaccggtcatgatgatcatcataaaaaggcttctgttcataatgaattgaatttaaacgtttatcattgcgtttagcctgtttattctatggctctgacggagttcatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUUCUUUGUUUGAAUUUGUUAUUAAACAGUUUAUCCUUAAUCGUUUUUGAGAUUCCUCACUGCGUUCGGAAUGACAAGGAACGGGGGCAGGUCAAACGUGCAGGUUCGAACCCACCCCCGUUCGCGCUUCACUUGUUAGUUAGUCGGCUGCCUCGCCGCCUUUCUUUCCACUGCAUGCAGCACUCAAGGUCAAGGCACCGGUCAUGAUGAUCAUCAUAAAAAGGCUUCUGUUCAUAAUGAAUUGAAUUUAAACGUUUAUCAUUGCGUUUAGCCUGUUUAUUCUAUGGCUCUGACGGAGUUCAUCA .......((((((((........))))))))......(((((......)))))........((((((.(((..((((((((((((((((..((((.(((......))).).)))..)))))))))........)))))))(..((.((((......)))).))..)......))).)))))).((((...((((..((...((((.....))))...(((((.((((.((.((((.....)))).))...(((((((........))))))))))).)))))......))..)))).))))...... (-83.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUGAACUCCGUCAGAGCCAUAGAAUAAACAGGCUAAACGCAAUGAUAAACGUUUAAAUUCAAUUCAUUAUGAACAGAAGCCUUUUUAUGAUGAUCAUCAUGACCGGUGCCUUGACCUUGAGUGCUGCAUGCAGUGGAAAGAAAGGCGGCGAGGCAGCCGACUAACUAACAAGUGAAGCGCGAACGGGGGUGGGUUCGAACCUGCACGUUUGACCUGCCCCCGUUCCUUGUCAUUCCGAACGCAGUGAGGAAUCUCAAAAACGAUUAAGGAUAAACUGUUUAAUAACAAAUUCAAACAAAGAAACA (((((.....)))))...........(((((((..((..((.((((((((.(((((.........((((((((((.((....)).))))))))))..........((((((((((.((((.....(..(.....)..).....))))...))))))).)))...............))))).(((((((((..(((.(((((......))))))))..))))))))).)))))))).))..((...((((....))))....))........))..)))))))........................ (-89.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 689 99 51 67 17 tfor:TF1844|5end_hypothetical_protein_1996389..1996619_POSITIVE 689 100 51 197 153 tfor:TF0542|5end_hypothetical_protein_571918..572148_POSITIVE 672 98 51 206 164 tfor:TF1842|5end_hypothetical_protein_1992571..1992801_POSITIVE 643 100 51 201 157 tfor:TF1182|5end_hypothetical_protein_1268565..1268795_POSITIVE 588 89 43 115 73 tfor:TF2816|5end_hypothetical_protein_3006925..3007155_POSITIVE 538 87 43 81 40 tfor:TF3105|5end_hypothetical_protein_3338068..3338298_POSITIVE 538 87 43 81 40 tfor:TF1187|5end_hypothetical_protein_1269625..1269855_POSITIVE 538 87 43 47 6 tfor:TF1184|5end_hypothetical_protein_1269004..1269234_POSITIVE 485 90 43 68 25 tfor:TF1846|5end_hypothetical_protein_1996726..1996956_POSITIVE 459 79 36 47 11 tfor:TF1660|5end_hypothetical_protein_1775269..1775499_POSITIVE 456 86 46 183 142 tfor:TF1841|5end_hypothetical_protein_1991936..1992166_POSITIVE 453 86 51 183 149 tfor:TF2745|5end_hypothetical_protein_2927562..2927792_POSITIVE 448 187 147 64 7 tfor:TF0496|5end_conserved_hypothetical_protein_522332..522562_POSITIVE 439 157 113 41 5 tfor:TF1600|5end_uroporphyrinogen-III_synthase_1713964..1714194_POSITIVE 424 87 46 177 135 tfor:TF2777|5end_hypothetical_protein_2961595..2961825_POSITIVE 424 87 46 52 10 tfor:TF2776|5end_hypothetical_protein_2961470..2961700_POSITIVE 417 129 84 198 148 tfor:TF0677|5end_ATP-binding_protein,_Mrp/Nbp35_family,_involved_in_chromosome_partitioning_719799..720029_POSITIVE 415 129 85 193 139 tfor:TF0374|5end_glycerophosphoryl_diester_phosphodiesterase_392527..392757_POSITIVE 408 130 84 205 156 tfor:TF0601|5end_aminomethyltransferase_(glycine_cleavage_system_T_protein)_631081..631311_POSITIVE 406 128 84 175 128 tfor:TF3088|5end_conserved_hypothetical_protein_3322512..3322742_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 689 100 51 57 13 tfor:TF0541|3end_conserved_hypothetical_protein_571858..572008_POSITIVE 625 97 51 91 46 tfor:TF0369|3end_hypothetical_protein_386186..386336_POSITIVE 589 86 46 87 46 tfor:TF1841|3end_hypothetical_protein_1992267..1992417_POSITIVE 439 157 113 51 15 tfor:TF1599|3end_ribonuclease_P_protein_component_1714054..1714204_POSITIVE 417 160 119 73 30 tfor:TF0616|3end_conserved_hypothetical_protein_650658..650808_POSITIVE 392 93 51 120 73 tfor:TF2971|3end_possible_transposase_3179354..3179504_POSITIVE 392 93 51 120 73 tfor:TF1770|3end_hypothetical_protein_1908812..1908962_POSITIVE 382 129 84 143 101 tfor:TF1918|3end_hypothetical_protein_2070105..2070255_POSITIVE 376 128 84 146 92 tfor:TF0764|3end_conserved_hypothetical_protein;_possible_exopolyphosphatase-related_protein_811371..811521_POSITIVE 374 160 113 39 3 tfor:TF2874|3end_conserved_hypothetical_protein_3065224..3065374_POSITIVE 367 110 61 64 27 tfor:TF0537|3end_conserved_hypothetical_protein_566836..566986_POSITIVE 363 126 81 89 44 tfor:TF2556|3end_conserved_hypothetical_protein_2737095..2737245_POSITIVE 363 219 173 58 15 tfor:TF2029|3end_conserved_hypothetical_protein_2185813..2185963_POSITIVE 362 96 57 60 20 tfor:TF1298|3end_possible_membrane_protein_1381197..1381347_POSITIVE 356 150 101 114 50 tfor:TF0744|3end_DNA_polymerase_III_subunit,_gamma/tau_792308..792458_POSITIVE 353 130 85 129 73 tfor:TF0419|3end_conserved_hypothetical_protein_435794..435944_POSITIVE 350 170 122 77 29 tfor:TF2260|3end_transfer_region-related_protein,_TraL_2430592..2430742_POSITIVE 348 110 63 69 18 tfor:TF1931|3end_ATPase/GTPase_2078622..2078772_POSITIVE 348 129 84 71 39 tfor:TF1683|3end_conserved_hypothetical_protein_1796511..1796661_POSITIVE 347 128 90 67 25 tfor:TF1342|3end_possible_lipoprotein_1424620..1424770_POSITIVE