Origin IGS: taaagagtcgtatccaggcgaaatgttaatgatgagattttttagtgtcgataaaaatgattcgattatattttccccgaacatttttataacttaaattaagaacaac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gttgttcttaatttaagttataaaaatgttcggggaaaatataatcgaatcatttttatcgacactaaaaaatctcatcattaacatttcgcctggatacgactcttta Mask Tandem Repeat Region ================================================ taaagagtcgtatccaggcgaaatgttaatgatgagattttttagtgtcgataaaaatgattcgattatattttccccgaacatttttataacttaaattaagaacaac Find is-nt database================================================ Query_seq: TF0955:TF0957|TF0955:TF0957:conserved hypothetical protein:hypothetical protein:->->:1002784..1002892 109 taaagagtcgtatccaggcgaaatgttaatgatgagattttttagtgtcgataaaaatgattcgattatattttccccgaacatttttataacttaaattaagaacaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0955:TF0957|TF0955:TF0957:conserved hypothetical protein:hypothetical protein:->->:1002784..1002892 109 taaagagtcgtatccaggcgaaatgttaatgatgagattttttagtgtcgataaaaatgattcgattatattttccccgaacatttttataacttaaattaagaacaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0955:TF0957|TF0955:TF0957:conserved hypothetical protein:hypothetical protein:->->:1002784..1002892 109 taaagagtcgtatccaggcgaaatgttaatgatgagattttttagtgtcgataaaaatgattcgattatattttccccgaacatttttataacttaaattaagaacaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaagagtcgtatccaggcgaaatgttaatgatgagattttttagtgtcgataaaaatgattcgattatattttccccgaacatttttataacttaaattaagaacaac Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 1 End: 90 L S D Y G P S I N I I L N K L T S L F S E I I N E G F M K M ................... taaagagtcgtatccaggcgaaatgttaatgatgagattttttagtgtcgataaaaatgattcgattatattttccccgaacatttttataacttaaattaagaacaac 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================================================ taaagagtcgtatccaggcgaaatgttaatgatgagattttttagtgtcgataaaaatgattcgattatattttccccgaacatttttataacttaaattaagaacaac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0955:TF0957|TF0955:TF0957:conserved hypothetical protein:hypothetical protein:->->:1002784..1002892 109 taaagagtcgtatccaggcgaaatgttaatgatgagattttttagtgtcgataaaaatgattcgattatattttccccgaacatttttataacttaaattaagaacaac Intra-Species Hit: Count: 1 Min: 1 Max: 109 Len: 109 Subject: tfor_TF0955_TF0957|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1002784,1002892]|109 HSP 1 e-value: 1.0E-55 bit: 216.0 Len: 109 Query Start:1 Query End:109 Subject Strand: POSITIVE Subject Start: 1 Subject End: 109 taaagagtcgtatccaggcgaaatgttaatgatgagattttttagtgtcgataaaaatgattcgattatattttccccgaacatttttataacttaaattaagaacaac taaagagtcgtatccaggcgaaatgttaatgatgagattttttagtgtcgataaaaatgattcgattatattttccccgaacatttttataacttaaattaagaacaac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGAGUCGUAUCCAGGCGAAAUGUUAAUGAUGAGAUUUUUUAGUGUCGAUAAAAAUGAUUCGAUUAUAUUUUCCCCGAACAUUUUUAUAACUUAAAUUAAGAACAAC (((((((((.((((..(((.....)))...)))).)))))))))......(((((((((.((((.............)))))))))))))................... (-17.22) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUGUUCUUAAUUUAAGUUAUAAAAAUGUUCGGGGAAAAUAUAAUCGAAUCAUUUUUAUCGACACUAAAAAAUCUCAUCAUUAACAUUUCGCCUGGAUACGACUCUUUA ((((((((........(((((((((((((((((...........))))).))))))))).))).......(((......)))............))).)))))...... (-14.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 258 81 43 54 4 tfor:TF3122|5end_ABC_transporter,_ATP-binding_protein_3356047..3356277_POSITIVE 242 50 4 173 121 tfor:TF0754|5end_GDP-4-keto-6-deoxy-D-mannose-3,5-epimerase-4-redu_ctase_(GDP-L-fucose_synthetase)_801631..801861_POSITIVE 242 48 5 125 85 tfor:TF0248|5end_hypothetical_protein_278249..278479_POSITIVE 241 50 7 80 41 tfor:TF1713|5end_hypothetical_protein_1833442..1833672_POSITIVE 239 80 31 146 101 tfor:TF2689|5end_hypothetical_protein_2864824..2865054_POSITIVE 239 36 6 201 170 tfor:TF0066|5end_conserved_hypothetical_protein_70729..70959_POSITIVE 232 50 2 210 171 tfor:TF2521|5end_TPR-repeat-containing_protein_2699737..2699967_POSITIVE 232 32 4 220 189 tfor:TF0160|5end_conserved_hypothetical_protein;_possible_Fic_family_protein_170327..170557_POSITIVE 231 50 5 178 129 tfor:TF0777|5end_1,4-dihydroxy-2-naphthoate_octaprenyltransferase_826098..826328_POSITIVE 224 33 11 200 177 tfor:TF2563|5end_30S_ribosomal_protein_S17_2739333..2739563_POSITIVE 224 47 3 78 24 tfor:TF2259|5end_transfer_region-related_protein,_TraK_2429577..2429807_POSITIVE 221 49 3 50 1 tfor:TF2620|5end_conserved_hypothetical_protein_2796121..2796351_POSITIVE 217 50 6 135 99 tfor:TF0274|5end_hypothetical_protein_300232..300462_POSITIVE 216 50 16 52 18 tfor:TF0817|5end_ribonuclease,_BN-like_family_874400..874630_POSITIVE 214 49 8 50 9 tfor:TF2461|5end_outer_membrane_protein,_TonB-related_receptor_2638311..2638541_POSITIVE 212 50 4 116 66 tfor:TF1657|5end_lauroyl/myristoyl_acyltransferase_1772425..1772655_POSITIVE 211 47 2 172 121 tfor:TF2739|5end_thioredoxin_2920126..2920356_POSITIVE 209 47 4 53 12 tfor:TF2945|5end_DNA-directed_RNA_polymerase_beta'_subunit_3147448..3147678_POSITIVE 208 48 5 131 93 tfor:TF1203|5end_L-asparaginase_I_1285232..1285462_POSITIVE 207 48 5 77 43 tfor:TF3062|5end_conserved_hypothetical_protein_3286140..3286370_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 258 81 43 51 1 tfor:TF3121|3end_nicotinate_phosphoribosyltransferase_3356124..3356274_POSITIVE 242 48 5 144 104 tfor:TF0247|3end_conserved_hypothetical_protein_278348..278498_POSITIVE 241 50 7 82 43 tfor:TF1712|3end_conserved_hypothetical_protein_1833524..1833674_POSITIVE 241 49 4 111 56 tfor:TF0817|3end_ribonuclease,_BN-like_family_875841..875991_POSITIVE 216 50 16 39 5 tfor:TF0816|3end_hypothetical_protein_874467..874617_POSITIVE 212 50 4 116 66 tfor:TF1656|3end_possible_2-methylthioadenine_synthetase_1772505..1772655_POSITIVE 210 50 5 121 72 tfor:TF0024|3end_conserved_hypothetical_protein;_possible_ATPase_21626..21776_POSITIVE 207 48 5 77 43 tfor:TF3061|3end_conserved_hypothetical_protein_3286220..3286370_POSITIVE 207 50 4 139 94 tfor:TF1900|3end_conserved_hypothetical_protein_2056532..2056682_POSITIVE 206 39 2 132 91 tfor:TF0684|3end_conserved_hypothetical_protein_730564..730714_POSITIVE 204 51 14 71 27 tfor:TF2513|3end_conserved_hypothetical_protein_2691702..2691852_POSITIVE 204 50 3 106 54 tfor:TF0525|3end_conserved_hypothetical_protein_549584..549734_POSITIVE 204 76 34 67 20 tfor:TF0057|3end_conserved_hypothetical_protein_59747..59897_POSITIVE 203 80 31 75 32 tfor:TF0626|3end_hypothetical_protein_662729..662879_POSITIVE 202 90 44 92 34 tfor:TF2008|3end_DNA_polymerase_I_2162183..2162333_POSITIVE 200 64 24 147 111 tfor:TF0973|3end_conserved_hypothetical_protein_1024101..1024251_POSITIVE 199 47 4 136 94 tfor:TF1745|3end_hypothetical_protein_1879602..1879752_POSITIVE 198 50 5 151 114 tfor:TF2243|3end_possible_mobilization_protein_2419470..2419620_POSITIVE 195 50 5 52 6 tfor:TF2088|3end_heptosyltransferase_protein_2258725..2258875_POSITIVE 194 50 10 39 1 tfor:TF2565|3end_50S_ribosomal_protein_L24_2740383..2740533_POSITIVE