Origin IGS: tccttatgaataaaattaaggtacaaagatagtgcttttctgtaaataacaacgaccgtatgccataaaaatcgggggcggcacggtcgattttcagtggtccaatcaatattttgtggcatgagactttttcgagactatacgcattgcatgattgccgtagcacgcgaaatgtcggatgaacctttttgcaggcaaagtttggaagactgtttagggtaaaataaccattaaatggcaagcaatatccctattacattaaactca .........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 tgagtttaatgtaatagggatattgcttgccatttaatggttattttaccctaaacagtcttccaaactttgcctgcaaaaaggttcatccgacatttcgcgtgctacggcaatcatgcaatgcgtatagtctcgaaaaagtctcatgccacaaaatattgattggaccactgaaaatcgaccgtgccgcccccgatttttatggcatacggtcgttgttatttacagaaaagcactatctttgtaccttaattttattcataagga Mask Tandem Repeat Region ================================================ tccttatgaataaaattaaggtacaaagatagtgcttttctgtaaataacaacgaccgtatgccataaaaatcgggggcggcacggtcgattttcagtggtccaatcaatattttgtggcatgagactttttcgagactatacgcattgcatgattgccgtagcacgcgaaatgtcggatgaacctttttgcaggcaaagtttggaagactgtttagggtaaaataaccattaaatggcaagcaatatccctattacattaaactca Find is-nt database================================================ Query_seq: TF1139:TF1140|TF1139:TF1140:adenylosuccinate lyase:transcriptional regulator, AraC family:->->:1216728..1216994 267 tccttatgaataaaattaaggtacaaagatagtgcttttctgtaaataacaacgaccgtatgccataaaaatcgggggcggcacggtcgattttcagtggtccaatcaatattttgtggcatgagactttttcgagactatacgcattgcatgattgccgtagcacgcgaaatgtcggatgaacctttttgcaggcaaagtttggaagactgtttagggtaaaataaccattaaatggcaagcaatatccctattacattaaactca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1139:TF1140|TF1139:TF1140:adenylosuccinate lyase:transcriptional regulator, AraC family:->->:1216728..1216994 267 tccttatgaataaaattaaggtacaaagatagtgcttttctgtaaataacaacgaccgtatgccataaaaatcgggggcggcacggtcgattttcagtggtccaatcaatattttgtggcatgagactttttcgagactatacgcattgcatgattgccgtagcacgcgaaatgtcggatgaacctttttgcaggcaaagtttggaagactgtttagggtaaaataaccattaaatggcaagcaatatccctattacattaaactca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1139:TF1140|TF1139:TF1140:adenylosuccinate lyase:transcriptional regulator, AraC family:->->:1216728..1216994 267 tccttatgaataaaattaaggtacaaagatagtgcttttctgtaaataacaacgaccgtatgccataaaaatcgggggcggcacggtcgattttcagtggtccaatcaatattttgtggcatgagactttttcgagactatacgcattgcatgattgccgtagcacgcgaaatgtcggatgaacctttttgcaggcaaagtttggaagactgtttagggtaaaataaccattaaatggcaagcaatatccctattacattaaactca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tccttatgaataaaattaaggtacaaagatagtgcttttctgtaaataacaacgaccgtatgccataaaaatcgggggcggcacggtcgattttcagtggtccaatcaatattttgtggcatgagactttttcgagactatacgcattgcatgattgccgtagcacgcgaaatgtcggatgaacctttttgcaggcaaagtttggaagactgtttagggtaaaataaccattaaatggcaagcaatatccctattacattaaactca Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 90 End: 179 ......................................................................................... M F S G P I N I L W H E T F S R L Y A L H D C R S T R N V G ........................................................................................ Protein_Len: 58 Strand: + Start: 46 End: 219 ............................................. M T T T V C H K N R G R H G R F S V V Q S I F C G M R L F R D Y T H C M I A V A R E M S D E P F C R Q S L E D C L G ................................................ Protein_Len: 30 Strand: - Start: 109 End: 198 ............................................................................................................ Y K T A H S K K S V I R M A H N G Y C A F H R I F R K A P M ..................................................................... Protein_Len: 40 Strand: - Start: 3 End: 122 .. K H I F N L Y L S L A K R Y I V V V T H W L F R P R C P R N E T T W D I N Q P M ................................................................................................................................................. Protein_Len: 60 Strand: - Start: 2 End: 241 . G Y F D P A A R D I K L P G I L I K H C S V K E L S Y A N C S Q R L V R F T P H V K K C A F N P L S N L T F Y G N F P M .......................... tccttatgaataaaattaaggtacaaagatagtgcttttctgtaaataacaacgaccgtatgccataaaaatcgggggcggcacggtcgattttcagtggtccaatcaatattttgtggcatgagactttttcgagactatacgcattgcatgattgccgtagcacgcgaaatgtcggatgaacctttttgcaggcaaagtttggaagactgtttagggtaaaataaccattaaatggcaagcaatatccctattacattaaactca 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================================================ tccttatgaataaaattaaggtacaaagatagtgcttttctgtaaataacaacgaccgtatgccataaaaatcgggggcggcacggtcgattttcagtggtccaatcaatattttgtggcatgagactttttcgagactatacgcattgcatgattgccgtagcacgcgaaatgtcggatgaacctttttgcaggcaaagtttggaagactgtttagggtaaaataaccattaaatggcaagcaatatccctattacattaaactca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1139:TF1140|TF1139:TF1140:adenylosuccinate lyase:transcriptional regulator, AraC family:->->:1216728..1216994 267 tccttatgaataaaattaaggtacaaagatagtgcttttctgtaaataacaacgaccgtatgccataaaaatcgggggcggcacggtcgattttcagtggtccaatcaatattttgtggcatgagactttttcgagactatacgcattgcatgattgccgtagcacgcgaaatgtcggatgaacctttttgcaggcaaagtttggaagactgtttagggtaaaataaccattaaatggcaagcaatatccctattacattaaactca Intra-Species Hit: Count: 1 Min: 1 Max: 267 Len: 267 Subject: tfor_TF1139_TF1140|adenylosuccinate lyase:transcriptional regulator, AraC family|POSITIVE:POSITIVE|[1216728,1216994]|267 HSP 1 e-value: 1.0E-149 bit: 529.0 Len: 267 Query Start:1 Query End:267 Subject Strand: POSITIVE Subject Start: 1 Subject End: 267 tccttatgaataaaattaaggtacaaagatagtgcttttctgtaaataacaacgaccgtatgccataaaaatcgggggcggcacggtcgattttcagtggtccaatcaatattttgtggcatgagactttttcgagactatacgcattgcatgattgccgtagcacgcgaaatgtcggatgaacctttttgcaggcaaagtttggaagactgtttagggtaaaataaccattaaatggcaagcaatatccctattacattaaactca tccttatgaataaaattaaggtacaaagatagtgcttttctgtaaataacaacgaccgtatgccataaaaatcgggggcggcacggtcgattttcagtggtccaatcaatattttgtggcatgagactttttcgagactatacgcattgcatgattgccgtagcacgcgaaatgtcggatgaacctttttgcaggcaaagtttggaagactgtttagggtaaaataaccattaaatggcaagcaatatccctattacattaaactca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCCUUAUGAAUAAAAUUAAGGUACAAAGAUAGUGCUUUUCUGUAAAUAACAACGACCGUAUGCCAUAAAAAUCGGGGGCGGCACGGUCGAUUUUCAGUGGUCCAAUCAAUAUUUUGUGGCAUGAGACUUUUUCGAGACUAUACGCAUUGCAUGAUUGCCGUAGCACGCGAAAUGUCGGAUGAACCUUUUUGCAGGCAAAGUUUGGAAGACUGUUUAGGGUAAAAUAACCAUUAAAUGGCAAGCAAUAUCCCUAUUACAUUAAACUCA .(((((..........)))))......((((.(((((.((((((((......(((((((.((((............))))..))))))).........(((.((.((.((((((((((((..((((...)))).......((((....(((....))))))))).)))))))))).)).)).)))..))))))))..............(((((((((((......))).)))))))).))))).)))).................. (-62.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAGUUUAAUGUAAUAGGGAUAUUGCUUGCCAUUUAAUGGUUAUUUUACCCUAAACAGUCUUCCAAACUUUGCCUGCAAAAAGGUUCAUCCGACAUUUCGCGUGCUACGGCAAUCAUGCAAUGCGUAUAGUCUCGAAAAAGUCUCAUGCCACAAAAUAUUGAUUGGACCACUGAAAAUCGACCGUGCCGCCCCCGAUUUUUAUGGCAUACGGUCGUUGUUAUUUACAGAAAAGCACUAUCUUUGUACCUUAAUUUUAUUCAUAAGGA (((((((((.(((.((((((((.(((((..(.......(((......))).....((((..(((((..((((....))))..(((......(((.(((((..(((....)))...((((...)))).......)))))..)))....)))............)))))..)))).....((((((((..(((............))).))))))))............)..))))).))))))))))).))))....)))))...... (-58.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 539 187 143 71 29 tfor:TF1713|5end_hypothetical_protein_1833442..1833672_POSITIVE 402 108 63 211 157 tfor:TF2970|5end_hypothetical_protein_3178410..3178640_POSITIVE 397 196 151 219 178 tfor:TF1667|5end_biotin_acetyl-CoA_carboxylase_ligase/biotin_operon_repressor_bifunctional_protein_1779809..1780039_POSITIVE 389 189 143 212 169 tfor:TF2991|5end_conserved_hypothetical_protein_3206316..3206546_POSITIVE 386 100 53 194 140 tfor:TF2775|5end_conserved_hypothetical_protein;_possible_mucoidy_inhibitor-related_protein_2959668..2959898_POSITIVE 383 120 72 179 130 tfor:TF2788|5end_hypothetical_protein_2972201..2972431_POSITIVE 383 170 121 147 97 tfor:TF2276|5end_conserved_hypothetical_protein_2438226..2438456_POSITIVE 371 107 61 228 179 tfor:TF2620|5end_conserved_hypothetical_protein_2796121..2796351_POSITIVE 369 178 137 206 158 tfor:TF2820|5end_argininosuccinate_synthetase_3009876..3010106_POSITIVE 358 99 57 50 6 tfor:TF2380|5end_hemagglutinin_2545012..2545242_POSITIVE 354 118 73 73 29 tfor:TF1665|5end_conserved_hypothetical_protein_1779148..1779378_POSITIVE 353 179 132 189 128 tfor:TF0602|5end_aminotripeptidase;_peptidase_T_632169..632399_POSITIVE 352 178 133 49 1 tfor:TF2849|5end_histidinol-phosphate_transaminase_3037288..3037518_POSITIVE 352 97 51 168 116 tfor:TF1278|5end_hypothetical_protein_1364050..1364280_POSITIVE 349 160 115 166 119 tfor:TF0302|5end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_328641..328871_POSITIVE 348 190 142 74 22 tfor:TF3037|5end_galactokinase_3263050..3263280_POSITIVE 346 197 155 216 176 tfor:TF2596|5end_conserved_hypothetical_protein;_possible_lipoprotein_2766667..2766897_POSITIVE 346 120 74 183 129 tfor:TF1015|5end_conserved_hypothetical_protein_1072512..1072742_POSITIVE 345 176 133 216 177 tfor:TF0033|5end_outer_membrane_protein_29191..29421_POSITIVE 344 179 135 189 138 tfor:TF0859|5end_conserved_hypothetical_protein_911753..911983_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 539 187 143 73 31 tfor:TF1712|3end_conserved_hypothetical_protein_1833524..1833674_POSITIVE 383 170 121 141 91 tfor:TF2275|3end_conserved_hypothetical_protein_2438300..2438450_POSITIVE 373 106 72 142 107 tfor:TF2787|3end_30S_ribosomal_protein_S1_2972258..2972408_POSITIVE 371 107 61 140 91 tfor:TF2618|3end_integral_membrane_protein,_possible_zinc_transporter_2796113..2796263_POSITIVE 358 99 57 50 6 tfor:TF2379|3end_phosphoribosylformylglycinamidine_cyclo-ligase_(AIR_synthase)_2545092..2545242_POSITIVE 354 118 73 51 7 tfor:TF1664|3end_conserved_hypothetical_protein_1779206..1779356_POSITIVE 353 184 148 151 105 tfor:TF0983|3end_nitroreductase_family_protein,__possible_NADH_dehydrogenase/NAD(P)H_nitroreductase_1040034..1040184_POSITIVE 352 178 133 70 22 tfor:TF2848|3end_cobalamin_biosynthesis_protein_3037389..3037539_POSITIVE 352 97 51 146 94 tfor:TF1277|3end_electron_transfer_flavoprotein,_alpha_subunit_1364108..1364258_POSITIVE 346 120 74 65 11 tfor:TF1014|3end_glucose-6-phosphate_isomerase_1072474..1072624_POSITIVE 342 94 53 95 51 tfor:TF1362|3end_hypothetical_protein_1444059..1444209_POSITIVE 335 90 55 42 3 tfor:TF1799|3end_quinolinate_synthetase_1941294..1941444_POSITIVE 333 189 152 151 107 tfor:TF1062|3end_glycosyltransferase_1132739..1132889_POSITIVE 326 170 122 148 89 tfor:TF0380|3end_conserved_hypothetical_protein_401633..401783_POSITIVE 322 100 52 145 98 tfor:TF0027|3end_conserved_hypothetical_protein_24199..24349_POSITIVE 321 195 156 66 21 tfor:TF1834|3end_3-isopropylmalate_dehydrogenase_1984311..1984461_POSITIVE 318 99 71 146 118 tfor:TF1199|3end_dephospho-CoA_kinase_1282797..1282947_POSITIVE 318 102 71 31 5 tfor:TF0201|3end_permease,_major_facilitator_superfamily_227773..227923_POSITIVE 317 89 53 149 111 tfor:TF2774|3end_2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_pyrophosphokinase_2959719..2959869_POSITIVE 316 184 143 58 15 tfor:TF3140|3end_Na+-translocating_NADH-quinone_reductase,_subunit_B_3374573..3374723_POSITIVE