Origin IGS: taaatgttgaaataatcatttgattcaatattaagatgaggagggttgccctatgagggtaaccctcttttttttagactactttacgactcatctcaccttccttgtcggctcaccgcccgaggcccaaggacgaacgccgaaatgaatggtca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgaccattcatttcggcgttcgtccttgggcctcgggcggtgagccgacaaggaaggtgagatgagtcgtaaagtagtctaaaaaaaagagggttaccctcatagggcaaccctcctcatcttaatattgaatcaaatgattatttcaacattta Mask Tandem Repeat Region ================================================ taaatgttgaaataatcatttgattcaatattaagatgaggagggttgccctatgagggtaaccctcttttttttagactactttacgactcatctcaccttccttgtcggctcaccgcccgaggcccaaggacgaacgccgaaatgaatggtca Find is-nt database================================================ Query_seq: TF2663:TF2664|TF2663:TF2664:hypothetical protein:hypothetical protein:->->:2841384..2841538 155 taaatgttgaaataatcatttgattcaatattaagatgaggagggttgccctatgagggtaaccctcttttttttagactactttacgactcatctcaccttccttgtcggctcaccgcccgaggcccaaggacgaacgccgaaatgaatggtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2663:TF2664|TF2663:TF2664:hypothetical protein:hypothetical protein:->->:2841384..2841538 155 taaatgttgaaataatcatttgattcaatattaagatgaggagggttgccctatgagggtaaccctcttttttttagactactttacgactcatctcaccttccttgtcggctcaccgcccgaggcccaaggacgaacgccgaaatgaatggtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2663:TF2664|TF2663:TF2664:hypothetical protein:hypothetical protein:->->:2841384..2841538 155 taaatgttgaaataatcatttgattcaatattaagatgaggagggttgccctatgagggtaaccctcttttttttagactactttacgactcatctcaccttccttgtcggctcaccgcccgaggcccaaggacgaacgccgaaatgaatggtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaatgttgaaataatcatttgattcaatattaagatgaggagggttgccctatgagggtaaccctcttttttttagactactttacgactcatctcaccttccttgtcggctcaccgcccgaggcccaaggacgaacgccgaaatgaatggtca Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 53 End: 145 .................................................... M R V T L F F L D Y F T T H L T F L V G S P P E A Q G R T P K .......... Protein_Len: 36 Strand: + Start: 46 End: 153 ............................................. M P Y E G N P L F F R L L Y D S S H L P C R L T A R G P R T N A E M N G .. taaatgttgaaataatcatttgattcaatattaagatgaggagggttgccctatgagggtaaccctcttttttttagactactttacgactcatctcaccttccttgtcggctcaccgcccgaggcccaaggacgaacgccgaaatgaatggtca 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================================================ taaatgttgaaataatcatttgattcaatattaagatgaggagggttgccctatgagggtaaccctcttttttttagactactttacgactcatctcaccttccttgtcggctcaccgcccgaggcccaaggacgaacgccgaaatgaatggtca Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -17.4 Tail_Score: -5.78622 Start: 41 End: 67 Full_Region: CAATATTAAGATGAG GAGGGTTGCCCT ATG AGGGTAACCCTC TTTTTTTTAGACTAC ........................................GAGGGTTGCCCTATGAGGGTAACCCTC........................................................................................ Find igs database================================================ Query_seq: TF2663:TF2664|TF2663:TF2664:hypothetical protein:hypothetical protein:->->:2841384..2841538 155 taaatgttgaaataatcatttgattcaatattaagatgaggagggttgccctatgagggtaaccctcttttttttagactactttacgactcatctcaccttccttgtcggctcaccgcccgaggcccaaggacgaacgccgaaatgaatggtca Intra-Species Hit: Count: 1 Min: 1 Max: 155 Len: 155 Subject: tfor_TF2663_TF2664|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2841384,2841538]|155 HSP 1 e-value: 1.0E-68 bit: 260.0 Len: 155 Query Start:1 Query End:155 Subject Strand: POSITIVE Subject Start: 1 Subject End: 155 taaatgttgaaataatcatttgattcaatattaagatgaggagggttgccctatgagggtaaccctcnnnnnnnnagactactttacgactcatctcaccttccttgtcggctcaccgcccgaggcccaaggacgaacgccgaaatgaatggtca taaatgttgaaataatcatttgattcaatattaagatgaggagggttgccctatgagggtaaccctcttttttttagactactttacgactcatctcaccttccttgtcggctcaccgcccgaggcccaaggacgaacgccgaaatgaatggtca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUGUUGAAAUAAUCAUUUGAUUCAAUAUUAAGAUGAGGAGGGUUGCCCUAUGAGGGUAACCCUCUUUUUUUUAGACUACUUUACGACUCAUCUCACCUUCCUUGUCGGCUCACCGCCCGAGGCCCAAGGACGAACGCCGAAAUGAAUGGUCA ...((((((((.(((....))).))))))))(((((.((((((((((((((.....)))))))))))))).)))))...........(((.(((.((((((((((((..(((.....))))))))...)))).((.....))...))))))))). (-49.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACCAUUCAUUUCGGCGUUCGUCCUUGGGCCUCGGGCGGUGAGCCGACAAGGAAGGUGAGAUGAGUCGUAAAGUAGUCUAAAAAAAAGAGGGUUACCCUCAUAGGGCAACCCUCCUCAUCUUAAUAUUGAAUCAAAUGAUUAUUUCAACAUUUA ..(((.(((...(((((..((((((.........))))))...)))))....))))))((((((((......((....))........(((((((.(((.....))).))))))))))))))).......((((....))))............. (-46.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 935 150 101 85 39 tfor:TF2817|5end_hypothetical_protein_3007358..3007588_POSITIVE 839 143 101 143 104 tfor:TF1182|5end_hypothetical_protein_1268565..1268795_POSITIVE 748 140 95 230 186 tfor:TF1185|5end_hypothetical_protein_1269238..1269468_POSITIVE 741 140 95 231 186 tfor:TF1845|5end_hypothetical_protein_1996620..1996850_POSITIVE 731 143 111 33 1 tfor:TF1187|5end_hypothetical_protein_1269625..1269855_POSITIVE 670 137 95 79 38 tfor:TF1841|5end_hypothetical_protein_1991936..1992166_POSITIVE 658 143 112 33 1 tfor:TF3105|5end_hypothetical_protein_3338068..3338298_POSITIVE 654 139 95 48 5 tfor:TF0538|5end_hypothetical_protein_566891..567121_POSITIVE 638 139 95 231 188 tfor:TF0543|5end_glycine_cleavage_system_p-protein_572251..572481_POSITIVE 634 139 100 41 5 tfor:TF0539|5end_hypothetical_protein_566884..567114_POSITIVE 441 147 108 150 112 tfor:TF3088|5end_conserved_hypothetical_protein_3322512..3322742_POSITIVE 441 142 103 130 81 tfor:TF0595|5end_hypothetical_protein_627820..628050_POSITIVE 409 147 104 72 28 tfor:TF1298|5end_possible_membrane_protein_1380107..1380337_POSITIVE 402 137 91 147 96 tfor:TF2373|5end_UDP-3-O-acyl-GlcNAc_deacetylase_2538344..2538574_POSITIVE 402 139 105 217 191 tfor:TF1444|5end_conserved_hypothetical_protein;_possible_hemin_receptor_1528223..1528453_POSITIVE 387 133 92 140 95 tfor:TF2039|5end_possible_cell-cycle_regulation_histidine_triad_(HIT)_protein_2199318..2199548_POSITIVE 387 148 103 63 16 tfor:TF0462|5end_possible_cobalamin_biosynthesis_precorrin-3_methylase_477600..477830_POSITIVE 383 150 103 71 13 tfor:TF1189|5end_outer_membrane_protein,_TonB_dependent_receptor_1270586..1270816_POSITIVE 383 147 106 64 15 tfor:TF0311|5end_conserved_hypothetical_protein_335977..336207_POSITIVE 379 142 107 53 17 tfor:TF2337|5end_conserved_hypothetical_protein_2497997..2498227_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 839 143 101 143 104 tfor:TF1186|3end_hypothetical_protein_1269815..1269965_POSITIVE 442 76 33 59 18 tfor:TF2663|3end_hypothetical_protein_2841323..2841473_POSITIVE 441 147 108 140 102 tfor:TF3087|3end_conserved_hypothetical_protein_3322582..3322732_POSITIVE 421 148 102 103 50 tfor:TF0629|3end_hypothetical_protein_666710..666860_POSITIVE 419 121 82 151 114 tfor:TF2795|3end_hypothetical_protein_2980909..2981059_POSITIVE 405 138 92 151 96 tfor:TF0594|3end_conserved_hypothetical_protein;_possible_PAP2_superfamily_protein_627926..628076_POSITIVE 402 137 91 140 89 tfor:TF2372|3end_acyl-(acyl-carrier-protein)-UDP-N-acetylglucosami_ne_acyltransferase_2538417..2538567_POSITIVE 402 139 105 117 91 tfor:TF1443|3end_hypothetical_protein_1528203..1528353_POSITIVE 379 142 107 135 99 tfor:TF2336|3end_conserved_hypothetical_protein_2498159..2498309_POSITIVE 368 128 88 62 20 tfor:TF2703|3end_conserved_hypothetical_protein_2876317..2876467_POSITIVE 366 141 101 138 91 tfor:TF2787|3end_30S_ribosomal_protein_S1_2972258..2972408_POSITIVE 366 143 104 122 77 tfor:TF1048|3end_permease_1110217..1110367_POSITIVE 363 128 87 85 20 tfor:TF0599|3end_hypothetical_protein_630130..630280_POSITIVE 358 150 108 149 96 tfor:TF0448|3end_hypothetical_protein_467911..468061_POSITIVE 355 141 106 138 92 tfor:TF0813|3end_glycosyl_hydrolase,_secreted_872181..872331_POSITIVE 354 136 91 106 47 tfor:TF1295|3end_conserved_hypothetical_protein_1377256..1377406_POSITIVE 351 140 96 67 24 tfor:TF0529|3end_transposase_556193..556343_POSITIVE 349 127 87 147 99 tfor:TF1944|3end_conserved_hypothetical_protein_2093309..2093459_POSITIVE 345 70 38 56 23 tfor:TF2804|3end_conserved_hypothetical_protein_2994449..2994599_POSITIVE 339 127 90 53 3 tfor:TF2874|3end_conserved_hypothetical_protein_3065224..3065374_POSITIVE