Origin IGS: taatgagccctcatttacattcgtaatcttccatacacaggtctctaaagacaaggcaaacgctccccctccctccaaattccagttacacgtaacatatgttggaagacctcgcgaaactatatattagttgccaacacaagaaatttatttacccacatgaaaaagattttattcgacttttgcaagttcaataaatgattgattatagaaaaaaacgcacatttagcgagcctctgttattcatcattctacagtacttaacaaaaaaggtcaaacttcacagtctgacctttttccaaatcaactaaaacaaacaacta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagttgtttgttttagttgatttggaaaaaggtcagactgtgaagtttgaccttttttgttaagtactgtagaatgatgaataacagaggctcgctaaatgtgcgtttttttctataatcaatcatttattgaacttgcaaaagtcgaataaaatctttttcatgtgggtaaataaatttcttgtgttggcaactaatatatagtttcgcgaggtcttccaacatatgttacgtgtaactggaatttggagggagggggagcgtttgccttgtctttagagacctgtgtatggaagattacgaatgtaaatgagggctcatta Mask Tandem Repeat Region ================================================ taatgagccctcatttacattcgtaatcttccatacacaggtctctaaagacaaggcaaacgctccccctccctccaaattccagttacacgtaacatatgttggaagacctcgcgaaactatatattagttgccaacacaagaaatttatttacccacatgaaaaagattttattcgacttttgcaagttcaataaatgattgattatagaaaaaaacgcacatttagcgagcctctgttattcatcattctacagtacttaacaaaaaaggtcaaacttcacagtctgacctttttccaaatcaactaaaacaaacaacta Find is-nt database================================================ Query_seq: TF1797:TF1798|TF1797:TF1798:SNF family transporter:aldose 1-epimerase:->->:1938632..1938954 323 taatgagccctcatttacattcgtaatcttccatacacaggtctctaaagacaaggcaaacgctccccctccctccaaattccagttacacgtaacatatgttggaagacctcgcgaaactatatattagttgccaacacaagaaatttatttacccacatgaaaaagattttattcgacttttgcaagttcaataaatgattgattatagaaaaaaacgcacatttagcgagcctctgttattcatcattctacagtacttaacaaaaaaggtcaaacttcacagtctgacctttttccaaatcaactaaaacaaacaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1797:TF1798|TF1797:TF1798:SNF family transporter:aldose 1-epimerase:->->:1938632..1938954 323 taatgagccctcatttacattcgtaatcttccatacacaggtctctaaagacaaggcaaacgctccccctccctccaaattccagttacacgtaacatatgttggaagacctcgcgaaactatatattagttgccaacacaagaaatttatttacccacatgaaaaagattttattcgacttttgcaagttcaataaatgattgattatagaaaaaaacgcacatttagcgagcctctgttattcatcattctacagtacttaacaaaaaaggtcaaacttcacagtctgacctttttccaaatcaactaaaacaaacaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1797:TF1798|TF1797:TF1798:SNF family transporter:aldose 1-epimerase:->->:1938632..1938954 323 taatgagccctcatttacattcgtaatcttccatacacaggtctctaaagacaaggcaaacgctccccctccctccaaattccagttacacgtaacatatgttggaagacctcgcgaaactatatattagttgccaacacaagaaatttatttacccacatgaaaaagattttattcgacttttgcaagttcaataaatgattgattatagaaaaaaacgcacatttagcgagcctctgttattcatcattctacagtacttaacaaaaaaggtcaaacttcacagtctgacctttttccaaatcaactaaaacaaacaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatgagccctcatttacattcgtaatcttccatacacaggtctctaaagacaaggcaaacgctccccctccctccaaattccagttacacgtaacatatgttggaagacctcgcgaaactatatattagttgccaacacaagaaatttatttacccacatgaaaaagattttattcgacttttgcaagttcaataaatgattgattatagaaaaaaacgcacatttagcgagcctctgttattcatcattctacagtacttaacaaaaaaggtcaaacttcacagtctgacctttttccaaatcaactaaaacaaacaacta Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 26 End: 127 ......................... M F H T Q V S K D K A N A P P P S K F Q L H V T Y V G R P R E T I Y .................................................................................................................................................................................................... Protein_Len: 32 Strand: + Start: 99 End: 194 .................................................................................................. M L E D L A K L Y I S C Q H K K F I Y P H E K D F I R L L Q V Q ................................................................................................................................. Protein_Len: 40 Strand: + Start: 79 End: 198 .............................................................................. M P V T R N I C W K T S R N Y I L V A N T R N L F T H M K K I L F D F C K F N K ............................................................................................................................. Protein_Len: 37 Strand: + Start: 198 End: 308 ..................................................................................................................................................................................................... M I D Y R K K R T F S E P L L F I I L Q Y L T K K V K L H S L T F F Q I N ............... Protein_Len: 41 Strand: - Start: 1 End: 123 L S G E N V N T I K W V C T E L S L A F A G G G E L N W N C T V Y T P L G R S V M ........................................................................................................................................................................................................ taatgagccctcatttacattcgtaatcttccatacacaggtctctaaagacaaggcaaacgctccccctccctccaaattccagttacacgtaacatatgttggaagacctcgcgaaactatatattagttgccaacacaagaaatttatttacccacatgaaaaagattttattcgacttttgcaagttcaataaatgattgattatagaaaaaaacgcacatttagcgagcctctgttattcatcattctacagtacttaacaaaaaaggtcaaacttcacagtctgacctttttccaaatcaactaaaacaaacaacta Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 87 Start: 249 End: 278 ........................................................................................................................................................................................................................................................TTTGACCTTTTTTGTTAAGTACTGTAGAAT............................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taatgagccctcatttacattcgtaatcttccatacacaggtctctaaagacaaggcaaacgctccccctccctccaaattccagttacacgtaacatatgttggaagacctcgcgaaactatatattagttgccaacacaagaaatttatttacccacatgaaaaagattttattcgacttttgcaagttcaataaatgattgattatagaaaaaaacgcacatttagcgagcctctgttattcatcattctacagtacttaacaaaaaaggtcaaacttcacagtctgacctttttccaaatcaactaaaacaaacaacta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 45 HP_score: -2.9 Tail_Score: -3.28712 Start: 191 End: 205 Full_Region: TCGACTTTTGCAAGT TCAAT AAATG ATTGA TTATAGAAAAAAACG ..............................................................................................................................................................................................TCAATAAATGATTGA...................................................................................................................... TransTerm Strand: + Conf: 81 HP_score: -7.3 Tail_Score: -4.59773 Start: 272 End: 293 Full_Region: GTACTTAACAAAAAA GGTCAAACT TCAC AGTCTGACC TTTTTCCAAATCAAC ...............................................................................................................................................................................................................................................................................GGTCAAACTTCACAGTCTGACC.............................. Find igs database================================================ Query_seq: TF1797:TF1798|TF1797:TF1798:SNF family transporter:aldose 1-epimerase:->->:1938632..1938954 323 taatgagccctcatttacattcgtaatcttccatacacaggtctctaaagacaaggcaaacgctccccctccctccaaattccagttacacgtaacatatgttggaagacctcgcgaaactatatattagttgccaacacaagaaatttatttacccacatgaaaaagattttattcgacttttgcaagttcaataaatgattgattatagaaaaaaacgcacatttagcgagcctctgttattcatcattctacagtacttaacaaaaaaggtcaaacttcacagtctgacctttttccaaatcaactaaaacaaacaacta Intra-Species Hit: Count: 1 Min: 1 Max: 323 Len: 323 Subject: tfor_TF1797_TF1798|SNF family transporter:aldose 1-epimerase|POSITIVE:POSITIVE|[1938632,1938954]|323 HSP 1 e-value: 1.0E-170 bit: 599.0 Len: 323 Query Start:1 Query End:323 Subject Strand: POSITIVE Subject Start: 1 Subject End: 323 taatgagccctcatttacattcgtaatcttccatacacaggtctctaaagacaaggcaaacgctccccctccctccaaattccagttacacgtaacatatgttggaagacctcgcgaaactatatattagttgccaacacaagaaatttatttacccacatgaaaaagattttattcgacttttgcaagttcaataaatgattgattatagnnnnnnncgcacatttagcgagcctctgttattcatcattctacagtacttaacaaaaaaggtcaaacttcacagtctgacctttttccaaatcaactaaaacaaacaacta taatgagccctcatttacattcgtaatcttccatacacaggtctctaaagacaaggcaaacgctccccctccctccaaattccagttacacgtaacatatgttggaagacctcgcgaaactatatattagttgccaacacaagaaatttatttacccacatgaaaaagattttattcgacttttgcaagttcaataaatgattgattatagaaaaaaacgcacatttagcgagcctctgttattcatcattctacagtacttaacaaaaaaggtcaaacttcacagtctgacctttttccaaatcaactaaaacaaacaacta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUGAGCCCUCAUUUACAUUCGUAAUCUUCCAUACACAGGUCUCUAAAGACAAGGCAAACGCUCCCCCUCCCUCCAAAUUCCAGUUACACGUAACAUAUGUUGGAAGACCUCGCGAAACUAUAUAUUAGUUGCCAACACAAGAAAUUUAUUUACCCACAUGAAAAAGAUUUUAUUCGACUUUUGCAAGUUCAAUAAAUGAUUGAUUAUAGAAAAAAACGCACAUUUAGCGAGCCUCUGUUAUUCAUCAUUCUACAGUACUUAACAAAAAAGGUCAAACUUCACAGUCUGACCUUUUUCCAAAUCAACUAAAACAAACAACUA .(((((....)))))....(((((..(((((((.(((...((((....))))..(((....)))....................((((....))))...))))))))))....)))))........(((((((........((((.........................((((((.(((((....))))).)))))).(((.(((.(((((......(((.......)))....))))).))).))).)))).............((((((((((.(((....))).))))))))))......)))))))............ (-55.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUUGUUUGUUUUAGUUGAUUUGGAAAAAGGUCAGACUGUGAAGUUUGACCUUUUUUGUUAAGUACUGUAGAAUGAUGAAUAACAGAGGCUCGCUAAAUGUGCGUUUUUUUCUAUAAUCAAUCAUUUAUUGAACUUGCAAAAGUCGAAUAAAAUCUUUUUCAUGUGGGUAAAUAAAUUUCUUGUGUUGGCAACUAAUAUAUAGUUUCGCGAGGUCUUCCAACAUAUGUUACGUGUAACUGGAAUUUGGAGGGAGGGGGAGCGUUUGCCUUGUCUUUAGAGACCUGUGUAUGGAAGAUUACGAAUGUAAAUGAGGGCUCAUUA ..((((((..((.((((.......(((((((((((((((....))))))))))))))).......))))......))..)))))).(((.(.(((.......))).................((((((((...(((..((((((...........))))....))..)))....(((((...(((((((....).)))))).)))))..((..((((((((((((..((((....)))).((..((((((((.((((.((....)).)))).))))))))..)).)))).))))))))..))...)))))))).).))).... (-82.94) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 372 76 51 47 19 tfor:TF2724|5end_anti-sigma_factor_2898193..2898423_POSITIVE 313 48 3 70 24 tfor:TF0874|5end_transposase_925685..925915_POSITIVE 310 73 38 200 155 tfor:TF3003|5end_hypothetical_protein_3220382..3220612_POSITIVE 307 76 56 21 1 tfor:TF2746|5end_hypothetical_protein_2927996..2928226_POSITIVE 307 97 53 115 66 tfor:TF2120|5end_holliday_junction_endonuclease_2292108..2292338_POSITIVE 303 90 46 139 81 tfor:TF2111|5end_RNA_polymerase_sigma-54_factor_2280506..2280736_POSITIVE 303 90 46 208 150 tfor:TF0717|5end_signal_recognition_particle_767654..767884_POSITIVE 302 76 34 174 123 tfor:TF3002|5end_helicase-related_protein_3217756..3217986_POSITIVE 295 92 52 55 13 tfor:TF2598|5end_conserved_hypothetical_protein_2771032..2771262_POSITIVE 292 76 43 216 169 tfor:TF1168|5end_hypothetical_protein_1248755..1248985_POSITIVE 289 70 21 189 132 tfor:TF1703|5end_conserved_hypothetical_protein_1822065..1822295_POSITIVE 286 67 28 140 101 tfor:TF2912|5end_hypothetical_protein_3106508..3106738_POSITIVE 282 110 61 155 105 tfor:TF0340|5end_hypothetical_protein_363893..364123_POSITIVE 281 104 62 213 177 tfor:TF1152|5end_permease,_major_facilitator_superfamily_1233267..1233497_POSITIVE 280 106 62 95 44 tfor:TF2159|5end_conserved_hypothetical_protein_2334446..2334676_POSITIVE 280 106 61 229 173 tfor:TF2086|5end_transglutaminase-related_protein_2253931..2254161_POSITIVE 279 92 55 199 166 tfor:TF0483|5end_outer_membrane_receptor_504034..504264_POSITIVE 277 75 34 159 112 tfor:TF2357|5end_collagenase_2522561..2522791_POSITIVE 277 74 35 69 22 tfor:TF1661|5end_conserved_hypothetical_protein_1776065..1776295_POSITIVE 276 68 26 224 176 tfor:TF0091|5end_outer_membrane_protein_97701..97931_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 307 97 53 115 66 tfor:TF2119|3end_conserved_hypothetical_protein_2292188..2292338_POSITIVE 303 90 46 79 21 tfor:TF2110|3end_transposase_2280526..2280676_POSITIVE 299 100 51 98 47 tfor:TF2288|3end_hypothetical_protein_2442598..2442748_POSITIVE 292 249 219 122 93 tfor:TF3037|3end_galactokinase_3264266..3264416_POSITIVE 289 70 21 119 62 tfor:TF1702|3end_conserved_hypothetical_protein_1822075..1822225_POSITIVE 283 95 55 77 42 tfor:TF2657|3end_conserved_hypothetical_protein_2830873..2831023_POSITIVE 281 104 62 128 92 tfor:TF1151|3end_conserved_hypothetical_protein_1233262..1233412_POSITIVE 271 94 62 143 102 tfor:TF2158|3end_conserved_hypothetical_protein_2334584..2334734_POSITIVE 269 253 211 137 101 tfor:TF2204|3end_conserved_hypothetical_protein_2379122..2379272_POSITIVE 269 92 61 88 55 tfor:TF0351|3end_hypothetical_protein_371226..371376_POSITIVE 266 62 21 149 101 tfor:TF3147|3end_adenylate_kinase_3383704..3383854_POSITIVE 266 138 91 96 37 tfor:TF1047|3end_tRNA_pseudouridylate_synthetase_A_(pseudouridylate_synthase_I)_1109318..1109468_POSITIVE 263 256 219 148 111 tfor:TF0100|3end_conserved_hypothetical_protein_111703..111853_POSITIVE 260 99 55 104 64 tfor:TF2568|3end_30S_ribosomal_protein_S8_2741679..2741829_POSITIVE 260 92 52 42 1 tfor:TF0189|3end_phosphatidate_cytidylytransferase_(CDP-diglyceride_synthetase)_204090..204240_POSITIVE 259 110 64 51 5 tfor:TF2171|3end_hypothetical_protein_2345792..2345942_POSITIVE 255 90 53 50 1 tfor:TF0716|3end_transposase_767576..767726_POSITIVE 253 256 214 64 16 tfor:TF2992|3end_hexapeptide_transferase_family_protein_3209691..3209841_POSITIVE 253 76 36 102 63 tfor:TF2188|3end_conserved_hypothetical_protein_2363535..2363685_POSITIVE 253 116 72 86 38 tfor:TF1739|3end_possible_sulfatase_1868604..1868754_POSITIVE