Origin IGS: taaatccgtttaacacagaaaataaaaggaggacatttttcatttgaaaatgccctcttttttgatggttcgcctgtcgaaatgcgaccttttccccaccacttcgctttgggctgactca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgagtcagcccaaagcgaagtggtggggaaaaggtcgcatttcgacaggcgaaccatcaaaaaagagggcattttcaaatgaaaaatgtcctccttttattttctgtgttaaacggattta Mask Tandem Repeat Region ================================================ taaatccgtttaacacagaaaataaaaggaggacatttttcatttgaaaatgccctcttttttgatggttcgcctgtcgaaatgcgaccttttccccaccacttcgctttgggctgactca Find is-nt database================================================ Query_seq: TF2738:TF2739|TF2738:TF2739:30S ribosomal protein S16:thioredoxin:->->:2920145..2920265 121 taaatccgtttaacacagaaaataaaaggaggacatttttcatttgaaaatgccctcttttttgatggttcgcctgtcgaaatgcgaccttttccccaccacttcgctttgggctgactca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2738:TF2739|TF2738:TF2739:30S ribosomal protein S16:thioredoxin:->->:2920145..2920265 121 taaatccgtttaacacagaaaataaaaggaggacatttttcatttgaaaatgccctcttttttgatggttcgcctgtcgaaatgcgaccttttccccaccacttcgctttgggctgactca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2738:TF2739|TF2738:TF2739:30S ribosomal protein S16:thioredoxin:->->:2920145..2920265 121 taaatccgtttaacacagaaaataaaaggaggacatttttcatttgaaaatgccctcttttttgatggttcgcctgtcgaaatgcgaccttttccccaccacttcgctttgggctgactca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaatccgtttaacacagaaaataaaaggaggacatttttcatttgaaaatgccctcttttttgatggttcgcctgtcgaaatgcgaccttttccccaccacttcgctttgggctgactca Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 4 End: 114 ... M R L T Q K I K G G H F S F E N A L F F D G S P V E M R P F P H H F A L G ....... taaatccgtttaacacagaaaataaaaggaggacatttttcatttgaaaatgccctcttttttgatggttcgcctgtcgaaatgcgaccttttccccaccacttcgctttgggctgactca 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================================================ taaatccgtttaacacagaaaataaaaggaggacatttttcatttgaaaatgccctcttttttgatggttcgcctgtcgaaatgcgaccttttccccaccacttcgctttgggctgactca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 70 HP_score: -4.9 Tail_Score: -4.67943 Start: 23 End: 63 Full_Region: gacaggcgaaccatc aaaaaagagggcatttt caaatga aaaatgtcctcctttta ttttctgtgttaaac ......................aaaaaagagggcattttcaaatgaaaaatgtcctcctttta.......................................................... TransTerm Strand: - Conf: 79 HP_score: -4.8 Tail_Score: -5.24647 Start: 28 End: 58 Full_Region: gcgaaccatcaaaaa agagggcatttt caaatga aaaatgtcctcc ttttattttctgtgt ...........................agagggcattttcaaatgaaaaatgtcctcc............................................................... TransTerm Strand: - Conf: 75 HP_score: -8.3 Tail_Score: -3.72348 Start: 29 End: 57 Full_Region: cgaaccatcaaaaaa gagggcatttt caaatga aaaatgtcctc cttttattttctgtg ............................gagggcattttcaaatgaaaaatgtcctc................................................................ Find igs database================================================ Query_seq: TF2738:TF2739|TF2738:TF2739:30S ribosomal protein S16:thioredoxin:->->:2920145..2920265 121 taaatccgtttaacacagaaaataaaaggaggacatttttcatttgaaaatgccctcttttttgatggttcgcctgtcgaaatgcgaccttttccccaccacttcgctttgggctgactca Intra-Species Hit: Count: 1 Min: 1 Max: 121 Len: 121 Subject: tfor_TF2738_TF2739|30S ribosomal protein S16:thioredoxin|POSITIVE:POSITIVE|[2920145,2920265]|121 HSP 1 e-value: 8.0E-63 bit: 240.0 Len: 121 Query Start:1 Query End:121 Subject Strand: POSITIVE Subject Start: 1 Subject End: 121 taaatccgtttaacacagaaaataaaaggaggacatttttcatttgaaaatgccctcttttttgatggttcgcctgtcgaaatgcgaccttttccccaccacttcgctttgggctgactca taaatccgtttaacacagaaaataaaaggaggacatttttcatttgaaaatgccctcttttttgatggttcgcctgtcgaaatgcgaccttttccccaccacttcgctttgggctgactca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUCCGUUUAACACAGAAAAUAAAAGGAGGACAUUUUUCAUUUGAAAAUGCCCUCUUUUUUGAUGGUUCGCCUGUCGAAAUGCGACCUUUUCCCCACCACUUCGCUUUGGGCUGACUCA ....((.((((((....(((...(((((((((.(((((((.....))))))).)))))))))((.(((.......((((.....)))).......))).)).)))...)))))).)).... (-24.74) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAGUCAGCCCAAAGCGAAGUGGUGGGGAAAAGGUCGCAUUUCGACAGGCGAACCAUCAAAAAAGAGGGCAUUUUCAAAUGAAAAAUGUCCUCCUUUUAUUUUCUGUGUUAAACGGAUUUA ((.((..(((.....(((((((.(((........))))))))))...)))..))))...((((.((((((((((((....).))))))))))).))))....(((((.....))))).... (-32.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 568 120 73 179 122 tfor:TF1186|5end_hypothetical_protein_1269568..1269798_POSITIVE 559 117 73 228 179 tfor:TF1187|5end_hypothetical_protein_1269625..1269855_POSITIVE 559 117 73 167 118 tfor:TF1183|5end_hypothetical_protein_1268391..1268621_POSITIVE 542 117 72 56 6 tfor:TF0821|5end_hypothetical_protein_879879..880109_POSITIVE 521 120 73 202 145 tfor:TF1184|5end_hypothetical_protein_1269004..1269234_POSITIVE 458 120 72 207 150 tfor:TF2036|5end_possible_pyruvate_formate-lyase_activating_enzyme_2196302..2196532_POSITIVE 456 120 73 73 26 tfor:TF3107|5end_hypothetical_protein_3338459..3338689_POSITIVE 431 117 71 101 26 tfor:TF0538|5end_hypothetical_protein_566891..567121_POSITIVE 431 117 71 94 19 tfor:TF0539|5end_hypothetical_protein_566884..567114_POSITIVE 408 117 72 197 143 tfor:TF2478|5end_hypothetical_protein_2655375..2655605_POSITIVE 398 117 72 167 119 tfor:TF2824|5end_nucleoside-transporting_protein_nupG_3014701..3014931_POSITIVE 381 88 52 199 159 tfor:TF2747|5end_heat_shock_protein,_HSP90_family_2928279..2928509_POSITIVE 377 105 66 126 77 tfor:TF0346|5end_hypothetical_protein_367048..367278_POSITIVE 376 120 71 135 80 tfor:TF2043|5end_fructokinase_2202267..2202497_POSITIVE 375 118 79 81 35 tfor:TF0093|5end_outer_membrane_protein,_TonB_dependent_receptor_100497..100727_POSITIVE 370 120 72 102 44 tfor:TF2191|5end_hypothetical_protein_2365934..2366164_POSITIVE 370 100 52 129 74 tfor:TF2172|5end_hypothetical_protein_2345822..2346052_POSITIVE 370 100 52 123 68 tfor:TF2173|5end_hypothetical_protein_2345816..2346046_POSITIVE 370 100 52 123 68 tfor:TF2171|5end_hypothetical_protein_2345485..2345715_POSITIVE 370 100 52 123 68 tfor:TF2166|5end_hypothetical_protein_2342115..2342345_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 577 120 74 132 78 tfor:TF2547|3end_hypothetical_protein_2730947..2731097_POSITIVE 568 120 73 94 37 tfor:TF1185|3end_hypothetical_protein_1269563..1269713_POSITIVE 495 120 71 56 3 tfor:TF1182|3end_hypothetical_protein_1268938..1269088_POSITIVE 456 120 73 142 95 tfor:TF3106|3end_hypothetical_protein_3338608..3338758_POSITIVE 425 117 82 39 2 tfor:TF0820|3end_hypothetical_protein_879942..880092_POSITIVE 420 117 72 60 1 tfor:TF2840|3end_hypothetical_protein_3031289..3031439_POSITIVE 381 88 52 86 46 tfor:TF2746|3end_hypothetical_protein_2928246..2928396_POSITIVE 376 120 71 144 89 tfor:TF2042|3end_sugar_phosphate_isomerase,_polysialic_acid_capsule_expression_protein_2202356..2202506_POSITIVE 375 118 79 53 7 tfor:TF0092|3end_outer_membrane_protein_100549..100699_POSITIVE 350 118 71 100 49 tfor:TF2640|3end_hypothetical_protein_2809533..2809683_POSITIVE 334 98 52 55 3 tfor:TF1771|3end_prolipoprotein_diacylglyceryl_transferase_1910607..1910757_POSITIVE 332 107 61 139 87 tfor:TF2940|3end_50S_ribosomal_protein_L11_3141890..3142040_POSITIVE 313 116 71 146 92 tfor:TF0970|3end_2-keto-3-deoxygluconate_kinase_1021540..1021690_POSITIVE 311 97 62 66 23 tfor:TF0960|3end_beta-galactosidase_1010506..1010656_POSITIVE 310 120 72 72 26 tfor:TF2031|3end_conserved_hypothetical_protein_2188346..2188496_POSITIVE 308 118 75 107 52 tfor:TF0351|3end_hypothetical_protein_371226..371376_POSITIVE 305 114 73 47 3 tfor:TF2874|3end_conserved_hypothetical_protein_3065224..3065374_POSITIVE 305 90 49 121 72 tfor:TF2627|3end_SAM-dependent_methyltransferase_2800754..2800904_POSITIVE 305 114 72 75 28 tfor:TF1342|3end_possible_lipoprotein_1424620..1424770_POSITIVE 305 116 76 151 113 tfor:TF1274|3end_hypothetical_protein_1357895..1358045_POSITIVE