Origin IGS: tattcaatcctcctataatttaatgttctttttttttgaagtccggctcatcattcttacttatgattcccgacctttttggagatcgttgtcaccgtatctgctgaatcgacttcatcagataagacacaaaacgcataccatcgtatgctttgtgtcaaaatggcgcattctgcgctaaataagtaatagatatatgacaaaatggcgctttgattggctgcccgtaatgcgtgtcaacatacttgcatccgcatcgcagagcgacctcttgccattctttcaagggaaagaatatcaagggggccagacacgaagaaataaaaaaaaagagttgtctcagtatgagacaactcttttgatct .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 agatcaaaagagttgtctcatactgagacaactctttttttttatttcttcgtgtctggcccccttgatattctttcccttgaaagaatggcaagaggtcgctctgcgatgcggatgcaagtatgttgacacgcattacgggcagccaatcaaagcgccattttgtcatatatctattacttatttagcgcagaatgcgccattttgacacaaagcatacgatggtatgcgttttgtgtcttatctgatgaagtcgattcagcagatacggtgacaacgatctccaaaaaggtcgggaatcataagtaagaatgatgagccggacttcaaaaaaaaagaacattaaattataggaggattgaata Mask Tandem Repeat Region ================================================ tattcaatcctcctataatttaatgttctttttttttgaagtccggctcatcattcttacttatgattcccgacctttttggagatcgttgtcaccgtatctgctgaatcgacttcatcagataagacacaaaacgcataccatcgtatgctttgtgtcaaaatggcgcattctgcgctaaataagtaatagatatatgacaaaatggcgctttgattggctgcccgtaatgcgtgtcaacatacttgcatccgcatcgcagagcgacctcttgccattctttcaagggaaagaatatcaagggggccagacacgaagaaataaaaaaaaagagttgtctcagtatgagacaactcttttgatct Find is-nt database================================================ Query_seq: TF2697:TF2698|TF2697:TF2698:small heat shock protein:hypothetical protein:->->:2872250..2872614 365 tattcaatcctcctataatttaatgttctttttttttgaagtccggctcatcattcttacttatgattcccgacctttttggagatcgttgtcaccgtatctgctgaatcgacttcatcagataagacacaaaacgcataccatcgtatgctttgtgtcaaaatggcgcattctgcgctaaataagtaatagatatatgacaaaatggcgctttgattggctgcccgtaatgcgtgtcaacatacttgcatccgcatcgcagagcgacctcttgccattctttcaagggaaagaatatcaagggggccagacacgaagaaataaaaaaaaagagttgtctcagtatgagacaactcttttgatct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2697:TF2698|TF2697:TF2698:small heat shock protein:hypothetical protein:->->:2872250..2872614 365 tattcaatcctcctataatttaatgttctttttttttgaagtccggctcatcattcttacttatgattcccgacctttttggagatcgttgtcaccgtatctgctgaatcgacttcatcagataagacacaaaacgcataccatcgtatgctttgtgtcaaaatggcgcattctgcgctaaataagtaatagatatatgacaaaatggcgctttgattggctgcccgtaatgcgtgtcaacatacttgcatccgcatcgcagagcgacctcttgccattctttcaagggaaagaatatcaagggggccagacacgaagaaataaaaaaaaagagttgtctcagtatgagacaactcttttgatct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2697:TF2698|TF2697:TF2698:small heat shock protein:hypothetical protein:->->:2872250..2872614 365 tattcaatcctcctataatttaatgttctttttttttgaagtccggctcatcattcttacttatgattcccgacctttttggagatcgttgtcaccgtatctgctgaatcgacttcatcagataagacacaaaacgcataccatcgtatgctttgtgtcaaaatggcgcattctgcgctaaataagtaatagatatatgacaaaatggcgctttgattggctgcccgtaatgcgtgtcaacatacttgcatccgcatcgcagagcgacctcttgccattctttcaagggaaagaatatcaagggggccagacacgaagaaataaaaaaaaagagttgtctcagtatgagacaactcttttgatct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tattcaatcctcctataatttaatgttctttttttttgaagtccggctcatcattcttacttatgattcccgacctttttggagatcgttgtcaccgtatctgctgaatcgacttcatcagataagacacaaaacgcataccatcgtatgctttgtgtcaaaatggcgcattctgcgctaaataagtaatagatatatgacaaaatggcgctttgattggctgcccgtaatgcgtgtcaacatacttgcatccgcatcgcagagcgacctcttgccattctttcaagggaaagaatatcaagggggccagacacgaagaaataaaaaaaaagagttgtctcagtatgagacaactcttttgatct Predict ORF larger than 30AA ================================================ Protein_Len: 59 Strand: + Start: 2 End: 178 . M Q S S Y N L M F F F F E V R L I I L T Y D S R P F W R S L S P Y L L N R L H Q I R H K T H T I V C F V S K W R I L R ........................................................................................................................................................................................... Protein_Len: 36 Strand: + Start: 79 End: 186 .............................................................................. M E I V V T V S A E S T S S D K T Q N A Y H R M L C V K M A H S A L N K ................................................................................................................................................................................... Protein_Len: 35 Strand: + Start: 217 End: 321 ........................................................................................................................................................................................................................ M A A R N A C Q H T C I R I A E R P L A I L S R E R I S R G P D T K K ............................................ Protein_Len: 42 Strand: + Start: 234 End: 359 ......................................................................................................................................................................................................................................... M S T Y L H P H R R A T S C H S F K G K N I K G A R H E E I K K K S C L S M R Q L F ...... Protein_Len: 60 Strand: + Start: 182 End: 364 ..................................................................................................................................................................................... M S N R Y M T K W R F D W L P V M R V N I L A S A S Q S D L L P F F Q G K E Y Q G G Q T R R N K K K E L S Q Y E T T L L . Protein_Len: 38 Strand: - Start: 240 End: 353 ............................................................................................................................................................................................................................................... C V Q M R M A S R G R A M R E L S L I D L P G S V F F Y F F L T T E T H S M ............ Protein_Len: 60 Strand: - Start: 161 End: 346 ................................................................................................................................................................ A N Q A L Y T I S I H C F P A K I P Q G Y H T D V Y K C G C R L A V E Q W E K L P F F I L P A L C S S I F F F L Q R L M ................... Protein_Len: 49 Strand: - Start: 60 End: 206 ........................................................... K H N G V K K S I T T V T D A S D V E D S L V C F A Y W R I S Q T L I A C E A S F L Y Y I Y S L M ............................................................................................................................................................... tattcaatcctcctataatttaatgttctttttttttgaagtccggctcatcattcttacttatgattcccgacctttttggagatcgttgtcaccgtatctgctgaatcgacttcatcagataagacacaaaacgcataccatcgtatgctttgtgtcaaaatggcgcattctgcgctaaataagtaatagatatatgacaaaatggcgctttgattggctgcccgtaatgcgtgtcaacatacttgcatccgcatcgcagagcgacctcttgccattctttcaagggaaagaatatcaagggggccagacacgaagaaataaaaaaaaagagttgtctcagtatgagacaactcttttgatct 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================================================ tattcaatcctcctataatttaatgttctttttttttgaagtccggctcatcattcttacttatgattcccgacctttttggagatcgttgtcaccgtatctgctgaatcgacttcatcagataagacacaaaacgcataccatcgtatgctttgtgtcaaaatggcgcattctgcgctaaataagtaatagatatatgacaaaatggcgctttgattggctgcccgtaatgcgtgtcaacatacttgcatccgcatcgcagagcgacctcttgccattctttcaagggaaagaatatcaagggggccagacacgaagaaataaaaaaaaagagttgtctcagtatgagacaactcttttgatct Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 73 HP_score: -7.6 Tail_Score: -4.04206 Start: 136 End: 151 Full_Region: GATAAGACACAAAAC GCATAC CATC GTATGC TTTGTGTCAAAATGG .......................................................................................................................................GCATACCATCGTATGC...................................................................................................................................................................................................................... Find igs database================================================ Query_seq: TF2697:TF2698|TF2697:TF2698:small heat shock protein:hypothetical protein:->->:2872250..2872614 365 tattcaatcctcctataatttaatgttctttttttttgaagtccggctcatcattcttacttatgattcccgacctttttggagatcgttgtcaccgtatctgctgaatcgacttcatcagataagacacaaaacgcataccatcgtatgctttgtgtcaaaatggcgcattctgcgctaaataagtaatagatatatgacaaaatggcgctttgattggctgcccgtaatgcgtgtcaacatacttgcatccgcatcgcagagcgacctcttgccattctttcaagggaaagaatatcaagggggccagacacgaagaaataaaaaaaaagagttgtctcagtatgagacaactcttttgatct Intra-Species Hit: Count: 1 Min: 1 Max: 365 Len: 365 Subject: tfor_TF2697_TF2698|small heat shock protein:hypothetical protein|POSITIVE:POSITIVE|[2872250,2872614]|365 HSP 1 e-value: 1.0E-175 bit: 617.0 Len: 365 Query Start:1 Query End:365 Subject Strand: POSITIVE Subject Start: 1 Subject End: 365 tattcaatcctcctataatttaatgttcnnnnnnnnngaagtccggctcatcattcttacttatgattcccgacctttttggagatcgttgtcaccgtatctgctgaatcgacttcatcagataagacacaaaacgcataccatcgtatgctttgtgtcaaaatggcgcattctgcgctaaataagtaatagatatatgacaaaatggcgctttgattggctgcccgtaatgcgtgtcaacatacttgcatccgcatcgcagagcgacctcttgccattctttcaagggaaagaatatcaagggggccagacacgaagaaatnnnnnnnnngagttgtctcagtatgagacaactcttttgatct tattcaatcctcctataatttaatgttctttttttttgaagtccggctcatcattcttacttatgattcccgacctttttggagatcgttgtcaccgtatctgctgaatcgacttcatcagataagacacaaaacgcataccatcgtatgctttgtgtcaaaatggcgcattctgcgctaaataagtaatagatatatgacaaaatggcgctttgattggctgcccgtaatgcgtgtcaacatacttgcatccgcatcgcagagcgacctcttgccattctttcaagggaaagaatatcaagggggccagacacgaagaaataaaaaaaaagagttgtctcagtatgagacaactcttttgatct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUCAAUCCUCCUAUAAUUUAAUGUUCUUUUUUUUUGAAGUCCGGCUCAUCAUUCUUACUUAUGAUUCCCGACCUUUUUGGAGAUCGUUGUCACCGUAUCUGCUGAAUCGACUUCAUCAGAUAAGACACAAAACGCAUACCAUCGUAUGCUUUGUGUCAAAAUGGCGCAUUCUGCGCUAAAUAAGUAAUAGAUAUAUGACAAAAUGGCGCUUUGAUUGGCUGCCCGUAAUGCGUGUCAACAUACUUGCAUCCGCAUCGCAGAGCGACCUCUUGCCAUUCUUUCAAGGGAAAGAAUAUCAAGGGGGCCAGACACGAAGAAAUAAAAAAAAAGAGUUGUCUCAGUAUGAGACAACUCUUUUGAUCU ..............................((((((((..(((.(((((.(((((((((((((((((..((((.....))))..)))..........((((((.((((.....)))).)))))).((((((((..((((((....))))))))))))))....((((((.....)))))).)))))))..)))...))))......(((((((((.((((((((.......))).)))))......(((....)))...))))))).)).((((..((((((((....))))))))..)))).))))).))).))))))))......((((((((((((((.....))))))))))))))..... (-113.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAUCAAAAGAGUUGUCUCAUACUGAGACAACUCUUUUUUUUUAUUUCUUCGUGUCUGGCCCCCUUGAUAUUCUUUCCCUUGAAAGAAUGGCAAGAGGUCGCUCUGCGAUGCGGAUGCAAGUAUGUUGACACGCAUUACGGGCAGCCAAUCAAAGCGCCAUUUUGUCAUAUAUCUAUUACUUAUUUAGCGCAGAAUGCGCCAUUUUGACACAAAGCAUACGAUGGUAUGCGUUUUGUGUCUUAUCUGAUGAAGUCGAUUCAGCAGAUACGGUGACAACGAUCUCCAAAAAGGUCGGGAAUCAUAAGUAAGAAUGAUGAGCCGGACUUCAAAAAAAAAGAACAUUAAAUUAUAGGAGGAUUGAAUA .....((((((((((((((.....))))))))))))))..((((.((((((..(((((((...((((.(((((((((....))))))))).)))).(((.((.(((..(((((...(((....))).....)))))..))))).)))...............(..((((...(((..(((((((...((((.....))))......(((((((.((((((....))))))...))))))).((((((.((((.....)))).)))))).(....)..((((((......))))))......))))))))))))))..)))))))).((.........)).............)))))).)))).. (-116.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 425 260 218 201 159 tfor:TF3022|5end_chorismate_synthase_3246136..3246366_POSITIVE 385 299 254 69 29 tfor:TF0409|5end_conserved_hypothetical_protein_426240..426470_POSITIVE 383 360 328 144 112 tfor:TF2699|5end_hypothetical_protein_2872490..2872720_POSITIVE 382 268 223 203 162 tfor:TF0949|5end_conserved_hypothetical_protein_993863..994093_POSITIVE 381 178 136 176 127 tfor:TF2375|5end_conserved_hypothetical_protein_2540953..2541183_POSITIVE 378 269 221 166 116 tfor:TF1586|5end_hypothetical_protein_1690971..1691201_POSITIVE 376 120 71 175 117 tfor:TF1490|5end_hypothetical_protein_1590238..1590468_POSITIVE 368 265 222 132 79 tfor:TF1391|5end_hypothetical_protein_1463962..1464192_POSITIVE 367 309 261 102 57 tfor:TF1614|5end_conserved_hypothetical_protein_1731187..1731417_POSITIVE 364 290 247 173 130 tfor:TF2330|5end_conserved_hypothetical_protein_2489920..2490150_POSITIVE 364 271 243 52 23 tfor:TF2274|5end_conserved_hypothetical_protein_2436652..2436882_POSITIVE 356 289 245 61 7 tfor:TF2671|5end_dipeptidyl_peptidase_IV_(DPP_IV)_N-terminal_region_2843918..2844148_POSITIVE 356 250 205 179 142 tfor:TF1948|5end_conserved_hypothetical_protein_2095942..2096172_POSITIVE 356 290 248 159 114 tfor:TF1488|5end_conserved_hypothetical_protein_1588464..1588694_POSITIVE 355 108 70 49 3 tfor:TF2398|5end_magnesium_chelatase,_D/I_family_2569549..2569779_POSITIVE 355 276 232 167 117 tfor:TF2229.1|5end_rteR_regulatory_ortholog_(with_internal_stop)_2399454..2399684_POSITIVE 353 180 141 39 5 tfor:TF0228|5end_probable_integral_outer_membrane_protein_253851..254081_POSITIVE 351 276 246 227 199 tfor:TF0926|5end_conserved_hypothetical_protein;_possible_TraB_protein_962435..962665_POSITIVE 346 250 205 229 178 tfor:TF2255|5end_transfer_region-related_protein,_TraH_2427504..2427734_POSITIVE 344 290 248 87 33 tfor:TF2439|5end_conserved_hypothetical_protein_2616380..2616610_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 385 299 254 73 33 tfor:TF0408|3end_possible_gliding_motility-related_lipoprotein_426324..426474_POSITIVE 370 269 223 126 71 tfor:TF2336|3end_conserved_hypothetical_protein_2498159..2498309_POSITIVE 367 309 261 81 36 tfor:TF1613|3end_transposase_1731246..1731396_POSITIVE 364 290 247 139 96 tfor:TF2329|3end_conserved_hypothetical_protein_2489966..2490116_POSITIVE 356 290 248 137 92 tfor:TF1487|3end_orotate_phosphoribosyltransferase_1588522..1588672_POSITIVE 337 271 245 28 1 tfor:TF2273|3end_conserved_hypothetical_protein_2436708..2436858_POSITIVE 336 260 211 98 52 tfor:TF1944|3end_conserved_hypothetical_protein_2093309..2093459_POSITIVE 333 258 215 66 21 tfor:TF1301|3end_hypothetical_protein_1383487..1383637_POSITIVE 332 185 142 149 114 tfor:TF1950|3end_conserved_hypothetical_protein;_possible_transporter_2100780..2100930_POSITIVE 325 268 223 84 34 tfor:TF0247|3end_conserved_hypothetical_protein_278348..278498_POSITIVE 324 239 195 143 96 tfor:TF3031|3end_conserved_hypothetical_protein_3255086..3255236_POSITIVE 322 290 245 66 18 tfor:TF3064|3end_oxidoreductase,_aldo/keto_reductase_family_3290984..3291134_POSITIVE 322 275 231 144 92 tfor:TF0366|3end_hypothetical_protein_383811..383961_POSITIVE 321 267 221 51 6 tfor:TF2256|3end_transfer_region-related_protein,_TraI_2428614..2428764_POSITIVE 321 178 133 129 60 tfor:TF2173|3end_hypothetical_protein_2346063..2346213_POSITIVE 321 178 133 129 60 tfor:TF0346|3end_hypothetical_protein_367316..367466_POSITIVE 320 119 71 92 43 tfor:TF1513|3end_hypothetical_protein_1625450..1625600_POSITIVE 320 284 250 67 37 tfor:TF0705|3end_hypothetical_protein_750789..750939_POSITIVE 319 254 211 143 103 tfor:TF0535|3end_surface_antigen_BspA_561701..561851_POSITIVE 318 260 218 105 59 tfor:TF1249|3end_phosphoglycerate_kinase_(cytosolic_phosphoglycerate_kinase)_1332356..1332506_POSITIVE