Origin IGS: taaaaaatacagcttcgcttaaagccttgtgaaaggccagaaactgtcaggtgtttaatggagagaggggggatgtcaaaacgacatcccccctcttttttccgttgttaaagtgctgatttaattgtcggcaatggttatgcgcggtgcatgccgaatcgtgtacccggaatttgtgttcccgccttttcggtcaatca .........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 tgattgaccgaaaaggcgggaacacaaattccgggtacacgattcggcatgcaccgcgcataaccattgccgacaattaaatcagcactttaacaacggaaaaaagaggggggatgtcgttttgacatcccccctctctccattaaacacctgacagtttctggcctttcacaaggctttaagcgaagctgtatttttta Mask Tandem Repeat Region ================================================ taaaaaatacagcttcgcttaaagccttgtgaaaggccagaaactgtcaggtgtttaatggagagaggggggatgtcaaaacgacatcccccctcttttttccgttgttaaagtgctgatttaattgtcggcaatggttatgcgcggtgcatgccgaatcgtgtacccggaatttgtgttcccgccttttcggtcaatca Find is-nt database================================================ Query_seq: TF1259:TF1260|TF1259:TF1260:hypothetical protein:chaperone protein DnaJ:->->:1345265..1345464 200 taaaaaatacagcttcgcttaaagccttgtgaaaggccagaaactgtcaggtgtttaatggagagaggggggatgtcaaaacgacatcccccctcttttttccgttgttaaagtgctgatttaattgtcggcaatggttatgcgcggtgcatgccgaatcgtgtacccggaatttgtgttcccgccttttcggtcaatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1259:TF1260|TF1259:TF1260:hypothetical protein:chaperone protein DnaJ:->->:1345265..1345464 200 taaaaaatacagcttcgcttaaagccttgtgaaaggccagaaactgtcaggtgtttaatggagagaggggggatgtcaaaacgacatcccccctcttttttccgttgttaaagtgctgatttaattgtcggcaatggttatgcgcggtgcatgccgaatcgtgtacccggaatttgtgttcccgccttttcggtcaatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1259:TF1260|TF1259:TF1260:hypothetical protein:chaperone protein DnaJ:->->:1345265..1345464 200 taaaaaatacagcttcgcttaaagccttgtgaaaggccagaaactgtcaggtgtttaatggagagaggggggatgtcaaaacgacatcccccctcttttttccgttgttaaagtgctgatttaattgtcggcaatggttatgcgcggtgcatgccgaatcgtgtacccggaatttgtgttcccgccttttcggtcaatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaaaatacagcttcgcttaaagccttgtgaaaggccagaaactgtcaggtgtttaatggagagaggggggatgtcaaaacgacatcccccctcttttttccgttgttaaagtgctgatttaattgtcggcaatggttatgcgcggtgcatgccgaatcgtgtacccggaatttgtgttcccgccttttcggtcaatca Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 7 End: 108 ...... M Q L R L K P C E R P E T V R C L M E R G G M S K R H P P S F F R C ............................................................................................ taaaaaatacagcttcgcttaaagccttgtgaaaggccagaaactgtcaggtgtttaatggagagaggggggatgtcaaaacgacatcccccctcttttttccgttgttaaagtgctgatttaattgtcggcaatggttatgcgcggtgcatgccgaatcgtgtacccggaatttgtgttcccgccttttcggtcaatca 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================================================ taaaaaatacagcttcgcttaaagccttgtgaaaggccagaaactgtcaggtgtttaatggagagaggggggatgtcaaaacgacatcccccctcttttttccgttgttaaagtgctgatttaattgtcggcaatggttatgcgcggtgcatgccgaatcgtgtacccggaatttgtgttcccgccttttcggtcaatca Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -21.3 Tail_Score: -5.2166 Start: 65 End: 95 Full_Region: GGTGTTTAATGGAGA GAGGGGGGATGTC AAAAC GACATCCCCCCTC TTTTTTCCGTTGTTA ................................................................GAGGGGGGATGTCAAAACGACATCCCCCCTC......................................................................................................... TransTerm Strand: - Conf: 100 HP_score: -18.8 Tail_Score: -2.94912 Start: 67 End: 93 Full_Region: acaacggaaaaaaga ggggggatgtcg ttt tgacatcccccc tctctccattaaaca ..................................................................ggggggatgtcgttttgacatcccccc........................................................................................................... Find igs database================================================ Query_seq: TF1259:TF1260|TF1259:TF1260:hypothetical protein:chaperone protein DnaJ:->->:1345265..1345464 200 taaaaaatacagcttcgcttaaagccttgtgaaaggccagaaactgtcaggtgtttaatggagagaggggggatgtcaaaacgacatcccccctcttttttccgttgttaaagtgctgatttaattgtcggcaatggttatgcgcggtgcatgccgaatcgtgtacccggaatttgtgttcccgccttttcggtcaatca Intra-Species Hit: Count: 1 Min: 1 Max: 200 Len: 200 Subject: tfor_TF1259_TF1260|hypothetical protein:chaperone protein DnaJ|POSITIVE:POSITIVE|[1345265,1345464]|200 HSP 1 e-value: 1.0E-109 bit: 396.0 Len: 200 Query Start:1 Query End:200 Subject Strand: POSITIVE Subject Start: 1 Subject End: 200 taaaaaatacagcttcgcttaaagccttgtgaaaggccagaaactgtcaggtgtttaatggagagaggggggatgtcaaaacgacatcccccctcttttttccgttgttaaagtgctgatttaattgtcggcaatggttatgcgcggtgcatgccgaatcgtgtacccggaatttgtgttcccgccttttcggtcaatca taaaaaatacagcttcgcttaaagccttgtgaaaggccagaaactgtcaggtgtttaatggagagaggggggatgtcaaaacgacatcccccctcttttttccgttgttaaagtgctgatttaattgtcggcaatggttatgcgcggtgcatgccgaatcgtgtacccggaatttgtgttcccgccttttcggtcaatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAAAUACAGCUUCGCUUAAAGCCUUGUGAAAGGCCAGAAACUGUCAGGUGUUUAAUGGAGAGAGGGGGGAUGUCAAAACGACAUCCCCCCUCUUUUUUCCGUUGUUAAAGUGCUGAUUUAAUUGUCGGCAAUGGUUAUGCGCGGUGCAUGCCGAAUCGUGUACCCGGAAUUUGUGUUCCCGCCUUUUCGGUCAAUCA .......((((((((......))))..))))...((((.((((.....(((((..((((((((((((((((((((((.....)))))))))))))))...)))))))......(((((((......)))))))............((((((((......)))))))).(((((....))))))))))))))))))..... (-74.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUUGACCGAAAAGGCGGGAACACAAAUUCCGGGUACACGAUUCGGCAUGCACCGCGCAUAACCAUUGCCGACAAUUAAAUCAGCACUUUAACAACGGAAAAAAGAGGGGGGAUGUCGUUUUGACAUCCCCCCUCUCUCCAUUAAACACCUGACAGUUUCUGGCCUUUCACAAGGCUUUAAGCGAAGCUGUAUUUUUUA ((((((..........(((((.......)))))..........(((((((((.....))).......))))))))))))...((((...........(((....((((((((((((((.....)))))))))))))).)))...............((((..((((((....))))))..))))...))))......... (-64.71) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 675 170 130 163 122 tfor:TF2202|5end_hypothetical_protein_2378682..2378912_POSITIVE 653 170 128 156 113 tfor:TF1516|5end_transposase_fragment_1626407..1626637_POSITIVE 606 170 121 153 100 tfor:TF2994|5end_hypothetical_protein_3210605..3210835_POSITIVE 591 170 122 180 135 tfor:TF0469|5end_hypothetical_protein_486960..487190_POSITIVE 591 170 122 149 104 tfor:TF0468|5end_hypothetical_protein_486929..487159_POSITIVE 527 165 121 230 182 tfor:TF2668|5end_hypothetical_protein_2842471..2842701_POSITIVE 527 165 121 154 106 tfor:TF2667|5end_hypothetical_protein_2842395..2842625_POSITIVE 527 165 121 75 27 tfor:TF2664|5end_hypothetical_protein_2841399..2841629_POSITIVE 518 165 121 166 125 tfor:TF0470|5end_hypothetical_protein_487253..487483_POSITIVE 510 172 135 203 166 tfor:TF1537|5end_hypothetical_protein_1642906..1643136_POSITIVE 491 165 121 75 27 tfor:TF2670|5end_hypothetical_protein_2842779..2843009_POSITIVE 491 165 121 230 182 tfor:TF2665|5end_hypothetical_protein_2841973..2842203_POSITIVE 491 165 121 75 27 tfor:TF2666|5end_hypothetical_protein_2841818..2842048_POSITIVE 442 107 61 140 98 tfor:TF1251|5end_riboflavin_synthase,_alpha_subunit_1333744..1333974_POSITIVE 412 170 125 198 124 tfor:TF0140|5end_exodeoxyribonuclease_VII,_small_subunit_148203..148433_POSITIVE 401 169 121 146 91 tfor:TF0822|5end_hypothetical_protein_880487..880717_POSITIVE 401 169 121 146 91 tfor:TF0821|5end_hypothetical_protein_879879..880109_POSITIVE 398 169 121 154 104 tfor:TF2922|5end_surface_antigen_BspA_3119122..3119352_POSITIVE 396 170 125 177 136 tfor:TF2081|5end_phosphopantetheine_adenylyltransferase_2248475..2248705_POSITIVE 396 190 141 188 141 tfor:TF1069|5end_glucokinase_regulatory_protein,_sugar_phosphate_isomerase_domain_1138884..1139114_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 642 169 130 98 58 tfor:TF3003|3end_hypothetical_protein_3220629..3220779_POSITIVE 518 165 121 61 20 tfor:TF0469|3end_hypothetical_protein_487228..487378_POSITIVE 503 165 121 129 81 tfor:TF2997|3end_hypothetical_protein_3211664..3211814_POSITIVE 468 165 121 94 53 tfor:TF1578|3end_hypothetical_protein_1686416..1686566_POSITIVE 461 158 117 132 83 tfor:TF1762|3end_hypothetical_protein_1899648..1899798_POSITIVE 461 158 117 63 14 tfor:TF1761|3end_hypothetical_protein_1899579..1899729_POSITIVE 442 107 61 117 75 tfor:TF1250|3end_possible_cation_efflux_pump_1333801..1333951_POSITIVE 441 106 70 34 1 tfor:TF1259|3end_hypothetical_protein_1345204..1345354_POSITIVE 437 165 137 35 7 tfor:TF2921|3end_hypothetical_protein_3118790..3118940_POSITIVE 409 168 121 129 67 tfor:TF2996|3end_hypothetical_protein_3211121..3211271_POSITIVE 401 169 121 129 74 tfor:TF0820|3end_hypothetical_protein_879942..880092_POSITIVE 399 172 137 45 10 tfor:TF2025|3end_hypothetical_protein_2182180..2182330_POSITIVE 397 169 125 118 72 tfor:TF0027|3end_conserved_hypothetical_protein_24199..24349_POSITIVE 395 176 133 84 34 tfor:TF0724|3end_possible_transcriptional_regulator_776333..776483_POSITIVE 384 187 141 88 40 tfor:TF1852|3end_prtQ_protein_2006546..2006696_POSITIVE 383 164 125 67 32 tfor:TF2148|3end_conserved_hypothetical_protein_2322189..2322339_POSITIVE 379 186 143 62 15 tfor:TF2881|3end_conserved_hypothetical_protein_3072380..3072530_POSITIVE 374 169 128 143 101 tfor:TF1000|3end_sec-independent_protein_translocase_1054169..1054319_POSITIVE 371 170 121 140 87 tfor:TF2639|3end_hypothetical_protein_2809333..2809483_POSITIVE 369 170 125 151 95 tfor:TF3143|3end_conserved_hypothetical_protein;_possible_membrane_protein_3379227..3379377_POSITIVE