Origin IGS: tagccgaccgcgagattttagaaaaataaccatataaaactagaaataaattttctaaatttatatggttttaaattaagtaacactacgtaaattttacacatcaccaacaactaacaaccctcaaatttaacggagaatcatcatataaacataaacaaaaacgacgggtattaccccgccgtttttgtctgcctgttcggcagtgaataagtagaacttaactactattttctaagctgcctgttcggcagtgaactttcagtaagagctaccattttctaagctgcttattcagcagttaagctttgtttgcttcaacactcagcctttcaggctgcataaaaccgctagattgctctggcgttttaaatcttactccttttaattgccggcagccaacttatttttaactgtcatta .........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 taatgacagttaaaaataagttggctgccggcaattaaaaggagtaagatttaaaacgccagagcaatctagcggttttatgcagcctgaaaggctgagtgttgaagcaaacaaagcttaactgctgaataagcagcttagaaaatggtagctcttactgaaagttcactgccgaacaggcagcttagaaaatagtagttaagttctacttattcactgccgaacaggcagacaaaaacggcggggtaatacccgtcgtttttgtttatgtttatatgatgattctccgttaaatttgagggttgttagttgttggtgatgtgtaaaatttacgtagtgttacttaatttaaaaccatataaatttagaaaatttatttctagttttatatggttatttttctaaaatctcgcggtcggcta Mask Tandem Repeat Region ================================================ tagccgaccgcgagattttagaaaaataaccatataaaactagaaataaattttctaaatttatatggttttaaattaagtaacactacgtaaattttacacatcaccaacaactaacaaccctcaaatttaacggagaatcatcatataaacataaacaaaaacgacgggtattaccccgccgtttttgtctgcctgttcggcagtgaataagtagaacttaactactattttctaagctgcctgttcggcagtgaactttcagtaagagctaccattttctaagctgcttattcagcagttaagctttgtttgcttcaacactcagcctttcaggctgcataaaaccgctagattgctctggcgttttaaatcttactccttttaattgccggcagccaacttatttttaactgtcatta Find is-nt database================================================ Query_seq: AA01317:AA01318|AA01317:AA01318:probable DNA repair protein:hypothetical protein:->->:891800..892221 422 tagccgaccgcgagattttagaaaaataaccatataaaactagaaataaattttctaaatttatatggttttaaattaagtaacactacgtaaattttacacatcaccaacaactaacaaccctcaaatttaacggagaatcatcatataaacataaacaaaaacgacgggtattaccccgccgtttttgtctgcctgttcggcagtgaataagtagaacttaactactattttctaagctgcctgttcggcagtgaactttcagtaagagctaccattttctaagctgcttattcagcagttaagctttgtttgcttcaacactcagcctttcaggctgcataaaaccgctagattgctctggcgttttaaatcttactccttttaattgccggcagccaacttatttttaactgtcatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01317:AA01318|AA01317:AA01318:probable DNA repair protein:hypothetical protein:->->:891800..892221 422 tagccgaccgcgagattttagaaaaataaccatataaaactagaaataaattttctaaatttatatggttttaaattaagtaacactacgtaaattttacacatcaccaacaactaacaaccctcaaatttaacggagaatcatcatataaacataaacaaaaacgacgggtattaccccgccgtttttgtctgcctgttcggcagtgaataagtagaacttaactactattttctaagctgcctgttcggcagtgaactttcagtaagagctaccattttctaagctgcttattcagcagttaagctttgtttgcttcaacactcagcctttcaggctgcataaaaccgctagattgctctggcgttttaaatcttactccttttaattgccggcagccaacttatttttaactgtcatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01317:AA01318|AA01317:AA01318:probable DNA repair protein:hypothetical protein:->->:891800..892221 422 tagccgaccgcgagattttagaaaaataaccatataaaactagaaataaattttctaaatttatatggttttaaattaagtaacactacgtaaattttacacatcaccaacaactaacaaccctcaaatttaacggagaatcatcatataaacataaacaaaaacgacgggtattaccccgccgtttttgtctgcctgttcggcagtgaataagtagaacttaactactattttctaagctgcctgttcggcagtgaactttcagtaagagctaccattttctaagctgcttattcagcagttaagctttgtttgcttcaacactcagcctttcaggctgcataaaaccgctagattgctctggcgttttaaatcttactccttttaattgccggcagccaacttatttttaactgtcatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagccgaccgcgagattttagaaaaataaccatataaaactagaaataaattttctaaatttatatggttttaaattaagtaacactacgtaaattttacacatcaccaacaactaacaaccctcaaatttaacggagaatcatcatataaacataaacaaaaacgacgggtattaccccgccgtttttgtctgcctgttcggcagtgaataagtagaacttaactactattttctaagctgcctgttcggcagtgaactttcagtaagagctaccattttctaagctgcttattcagcagttaagctttgtttgcttcaacactcagcctttcaggctgcataaaaccgctagattgctctggcgttttaaatcttactccttttaattgccggcagccaacttatttttaactgtcatta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 287 End: 385 .............................................................................................................................................................................................................................................................................................. M L I Q Q L S F V C F N T Q P F R L H K T A R L L W R F K S Y S F ..................................... Protein_Len: 34 Strand: + Start: 309 End: 410 .................................................................................................................................................................................................................................................................................................................... M F A S T L S L S G C I K P L D C S G V L N L T P F N C R Q P T Y F ............ Protein_Len: 33 Strand: - Start: 133 End: 231 .................................................................................................................................... R L I M M Y V Y V F V V P I V G G N K D A Q E A T F L Y F K V V M ............................................................................................................................................................................................... Protein_Len: 35 Strand: - Start: 107 End: 211 .......................................................................................................... W C S V V R L N L P S D D Y L C L C F R R T N G R R K Q R G T R C H M ................................................................................................................................................................................................................... Protein_Len: 31 Strand: - Start: 21 End: 113 .................... F F L W I F S S I F K R F K Y P K L N L L V V Y I K C M V L M ..................................................................................................................................................................................................................................................................................................................... tagccgaccgcgagattttagaaaaataaccatataaaactagaaataaattttctaaatttatatggttttaaattaagtaacactacgtaaattttacacatcaccaacaactaacaaccctcaaatttaacggagaatcatcatataaacataaacaaaaacgacgggtattaccccgccgtttttgtctgcctgttcggcagtgaataagtagaacttaactactattttctaagctgcctgttcggcagtgaactttcagtaagagctaccattttctaagctgcttattcagcagttaagctttgtttgcttcaacactcagcctttcaggctgcataaaaccgctagattgctctggcgttttaaatcttactccttttaattgccggcagccaacttatttttaactgtcatta 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================================================ tagccgaccgcgagattttagaaaaataaccatataaaactagaaataaattttctaaatttatatggttttaaattaagtaacactacgtaaattttacacatcaccaacaactaacaaccctcaaatttaacggagaatcatcatataaacataaacaaaaacgacgggtattaccccgccgtttttgtctgcctgttcggcagtgaataagtagaacttaactactattttctaagctgcctgttcggcagtgaactttcagtaagagctaccattttctaagctgcttattcagcagttaagctttgtttgcttcaacactcagcctttcaggctgcataaaaccgctagattgctctggcgttttaaatcttactccttttaattgccggcagccaacttatttttaactgtcatta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 95 HP_score: -8.2 Tail_Score: -4.8667 Start: 27 End: 71 Full_Region: gtgttacttaattta aaaccatataaatttagaaa attta tttctagttttatatggtta tttttctaaaatctc ..........................aaaccatataaatttagaaaatttatttctagttttatatggtta............................................................................................................................................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 78 HP_score: -7.7 Tail_Score: -4.28774 Start: 30 End: 68 Full_Region: ATTTTAGAAAAATAA CCATATAAAACTAGAAA TAAAT TTTCTAAATTTATATGG TTTTAAATTAAGTAA .............................CCATATAAAACTAGAAATAAATTTTCTAAATTTATATGG.................................................................................................................................................................................................................................................................................................................................................................. TransTerm Strand: - Conf: 91 HP_score: -9.9 Tail_Score: -4.53475 Start: 30 End: 68 Full_Region: ttacttaatttaaaa ccatataaatttagaaa attta tttctagttttatatgg ttatttttctaaaat .............................ccatataaatttagaaaatttatttctagttttatatgg.................................................................................................................................................................................................................................................................................................................................................................. TransTerm Strand: - Conf: 100 HP_score: -15.3 Tail_Score: -4.43283 Start: 159 End: 190 Full_Region: tgccgaacaggcaga caaaaacggcggg gtaata cccgtcgtttttg tttatgtttatatga ..............................................................................................................................................................caaaaacggcggggtaatacccgtcgtttttg........................................................................................................................................................................................................................................ TransTerm Strand: + Conf: 80 HP_score: -6.3 Tail_Score: -4.99638 Start: 165 End: 184 Full_Region: AAACATAAACAAAAA CGACGGG TATTAC CCCGCCG TTTTTGTCTGCCTGT ....................................................................................................................................................................CGACGGGTATTACCCCGCCG.............................................................................................................................................................................................................................................. TransTerm Strand: - Conf: 100 HP_score: -8.5 Tail_Score: -5.48623 Start: 165 End: 184 Full_Region: acaggcagacaaaaa cggcggg gtaata cccgtcg tttttgtttatgttt ....................................................................................................................................................................cggcggggtaatacccgtcg.............................................................................................................................................................................................................................................. TransTerm Strand: + Conf: 55 HP_score: -5.0 Tail_Score: -3.33298 Start: 282 End: 306 Full_Region: AAGAGCTACCATTTT CTAAGCTGCT TATTC AGCAGTTAAG CTTTGTTTGCTTCAA .........................................................................................................................................................................................................................................................................................CTAAGCTGCTTATTCAGCAGTTAAG.................................................................................................................... TransTerm Strand: + Conf: 78 HP_score: -7.7 Tail_Score: -4.29325 Start: 349 End: 366 Full_Region: CAGGCTGCATAAAAC CGCTAGA TTGC TCTGGCG TTTTAAATCTTACTC ............................................................................................................................................................................................................................................................................................................................................................CGCTAGATTGCTCTGGCG........................................................ Find igs database================================================ Query_seq: AA01317:AA01318|AA01317:AA01318:probable DNA repair protein:hypothetical protein:->->:891800..892221 422 tagccgaccgcgagattttagaaaaataaccatataaaactagaaataaattttctaaatttatatggttttaaattaagtaacactacgtaaattttacacatcaccaacaactaacaaccctcaaatttaacggagaatcatcatataaacataaacaaaaacgacgggtattaccccgccgtttttgtctgcctgttcggcagtgaataagtagaacttaactactattttctaagctgcctgttcggcagtgaactttcagtaagagctaccattttctaagctgcttattcagcagttaagctttgtttgcttcaacactcagcctttcaggctgcataaaaccgctagattgctctggcgttttaaatcttactccttttaattgccggcagccaacttatttttaactgtcatta Intra-Species Hit: Count: 1 Min: 1 Max: 422 Len: 422 Subject: aact_AA01317_AA01318|probable DNA repair protein:hypothetical protein|POSITIVE:POSITIVE|[891800,892221]|422 HSP 1 e-value: 0.0 bit: 837.0 Len: 422 Query Start:1 Query End:422 Subject Strand: POSITIVE Subject Start: 1 Subject End: 422 tagccgaccgcgagattttagaaaaataaccatataaaactagaaataaattttctaaatttatatggttttaaattaagtaacactacgtaaattttacacatcaccaacaactaacaaccctcaaatttaacggagaatcatcatataaacataaacaaaaacgacgggtattaccccgccgtttttgtctgcctgttcggcagtgaataagtagaacttaactactattttctaagctgcctgttcggcagtgaactttcagtaagagctaccattttctaagctgcttattcagcagttaagctttgtttgcttcaacactcagcctttcaggctgcataaaaccgctagattgctctggcgttttaaatcttactccttttaattgccggcagccaacttatttttaactgtcatta tagccgaccgcgagattttagaaaaataaccatataaaactagaaataaattttctaaatttatatggttttaaattaagtaacactacgtaaattttacacatcaccaacaactaacaaccctcaaatttaacggagaatcatcatataaacataaacaaaaacgacgggtattaccccgccgtttttgtctgcctgttcggcagtgaataagtagaacttaactactattttctaagctgcctgttcggcagtgaactttcagtaagagctaccattttctaagctgcttattcagcagttaagctttgtttgcttcaacactcagcctttcaggctgcataaaaccgctagattgctctggcgttttaaatcttactccttttaattgccggcagccaacttatttttaactgtcatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGCCGACCGCGAGAUUUUAGAAAAAUAACCAUAUAAAACUAGAAAUAAAUUUUCUAAAUUUAUAUGGUUUUAAAUUAAGUAACACUACGUAAAUUUUACACAUCACCAACAACUAACAACCCUCAAAUUUAACGGAGAAUCAUCAUAUAAACAUAAACAAAAACGACGGGUAUUACCCCGCCGUUUUUGUCUGCCUGUUCGGCAGUGAAUAAGUAGAACUUAACUACUAUUUUCUAAGCUGCCUGUUCGGCAGUGAACUUUCAGUAAGAGCUACCAUUUUCUAAGCUGCUUAUUCAGCAGUUAAGCUUUGUUUGCUUCAACACUCAGCCUUUCAGGCUGCAUAAAACCGCUAGAUUGCUCUGGCGUUUUAAAUCUUACUCCUUUUAAUUGCCGGCAGCCAACUUAUUUUUAACUGUCAUUA ..((...(((..((((((.((......(((((((((((..((((((.....))))))..))))))))))).........(((....))).................................)).))))))..))).....................(((((((((.((((......)))).)))))))))..))......((((((((((((((((((..((.....))..))))..((((((.....((((((........(((((((((...((....((.(((((((.....))))))).))...))...)).........(((((.....)))))..((((((.((((((....))))))))))))..))))))).......))))))))))))..))))))))...)))))).... (-108.16) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUGACAGUUAAAAAUAAGUUGGCUGCCGGCAAUUAAAAGGAGUAAGAUUUAAAACGCCAGAGCAAUCUAGCGGUUUUAUGCAGCCUGAAAGGCUGAGUGUUGAAGCAAACAAAGCUUAACUGCUGAAUAAGCAGCUUAGAAAAUGGUAGCUCUUACUGAAAGUUCACUGCCGAACAGGCAGCUUAGAAAAUAGUAGUUAAGUUCUACUUAUUCACUGCCGAACAGGCAGACAAAAACGGCGGGGUAAUACCCGUCGUUUUUGUUUAUGUUUAUAUGAUGAUUCUCCGUUAAAUUUGAGGGUUGUUAGUUGUUGGUGAUGUGUAAAAUUUACGUAGUGUUACUUAAUUUAAAACCAUAUAAAUUUAGAAAAUUUAUUUCUAGUUUUAUAUGGUUAUUUUUCUAAAAUCUCGCGGUCGGCUA ..................((((((((((.((...(((((..((((((.(((.....(((.(((....))).))).((((((((((((((...(((..((((...(((.......(((((((((((((..((((.((((...........))))))))...........(((((.....))))).........)))))))))))))...)))...)))))))...))))).(((((((((((((((......)))))))))))))))..........(((..((((((.(......).))))))..)))...........))))))))).......))).))))))..)))))(((((((((((.(((((((.....))))))).))))))))))).............)).)))))))))). (-129.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 444 208 161 156 112 aact:AA00409|5end_methionyl-tRNA_formyltransferase_273611..273841_POSITIVE 426 208 164 55 2 aact:AA01598|5end_conserved_hypothetical_protein_1078954..1079184_POSITIVE 368 208 176 173 137 aact:AA00202|5end_conserved_hypothetical_protein_(possible_membrane_protein)_140546..140776_POSITIVE 367 210 165 151 106 aact:AA01418|5end_conserved_hypothetical_protein_953951..954181_POSITIVE 367 208 169 228 175 aact:AA01286|5end_5,10-methylenetetrahydrofolate_dehydrogenase_(bifunctional_protein)_870309..870539_POSITIVE 349 209 167 69 19 aact:AA02697|5end_hydrogenase_3_maturation_protease_1879870..1880100_POSITIVE 349 420 374 142 94 aact:AA01922|5end_translation_initiation_factor_IF2_1294710..1294940_POSITIVE 345 225 181 53 6 aact:AA02367|5end_conserved_hypothetical_protein_1623174..1623404_POSITIVE 333 196 151 171 129 aact:AA02409|5end_DNA_ligase_1653315..1653545_POSITIVE 328 207 166 218 166 aact:AA01457|5end_D-xylose_ABC_transporter,_membrane_spanning_protein_977604..977834_POSITIVE 327 208 165 64 21 aact:AA02425|5end_glutamate-1-semialdehyde_aminotransferase_1670301..1670531_POSITIVE 327 210 166 55 6 aact:AA01339|5end_transcriptional_regulator,_AcrR/TetR_family_905154..905384_POSITIVE 326 210 164 66 17 aact:AA02886|5end_OBG-related_GTP-binding_protein_2023382..2023612_POSITIVE 326 206 168 231 186 aact:AA00895|5end_hypothetical_protein_621285..621515_POSITIVE 317 204 165 107 44 aact:AA00634|5end_DNA_polymerase_IV_(Pol_IV)_435182..435412_POSITIVE 316 355 317 90 45 aact:AA01187|5end_conserved_hypothetical_protein_813331..813561_POSITIVE 314 207 165 76 40 aact:AA02964|5end_opacity_associated_protein_A_2072738..2072968_POSITIVE 314 400 351 181 136 aact:AA01957|5end_conserved_hypothetical_protein_1323211..1323441_POSITIVE 314 205 167 212 173 aact:AA00101|5end_fimbrial_biogenesis_and_twitching_motility_protein_73782..74012_POSITIVE 313 207 168 68 18 aact:AA01567|5end_conserved_hypothetical_protein_(possible_cell-wall-associated_hydrolase)_1054944..1055174_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 405 206 161 151 109 aact:AA00408|3end_SUN_protein_(FMU_protein)_273688..273838_POSITIVE 367 210 165 148 103 aact:AA01417|3end_probable_4-diphosphocytidyl-2C-methyl-D-erthyritol_synthase_(MEP_cytidyltransferase)_(MCT)_954028..954178_POSITIVE 367 208 169 133 80 aact:AA01284|3end_heat_shock_protein_(hsp60)_870294..870444_POSITIVE 349 209 167 76 26 aact:AA02696|3end_formate_hydrogenlyase_maturation_protein_1879957..1880107_POSITIVE 349 420 374 123 75 aact:AA01920|3end_N_utilization_substance_protein_A_1294771..1294921_POSITIVE 345 225 181 51 4 aact:AA02366|3end_hypothetical_protein_1623252..1623402_POSITIVE 324 203 165 67 20 aact:AA01962|3end_recombination_protein_rec2_1328706..1328856_POSITIVE 316 355 317 80 35 aact:AA01185|3end_conserved_hypothetical_protein_(possible_membrane_protein)_813401..813551_POSITIVE 315 366 325 144 97 aact:AA01262|3end_hydrolase_860087..860237_POSITIVE 313 197 168 41 5 aact:AA01220|3end_competence_protein_F;_amidophosphoribosyltransferase_833538..833688_POSITIVE 313 358 311 151 96 aact:AA00377|3end_acetyl-CoA_acetyltransferase_(Beta-ketothiolase,3-ketoacyl-CoA_thiolase)_254300..254450_POSITIVE 313 286 241 151 108 aact:AA00249|3end_cysteinyl-tRNA_synthetase_(cysteine--tRNA_ligase)_175422..175572_POSITIVE 309 367 322 140 94 aact:AA01199|3end_conserved_hypothetical_protein_822486..822636_POSITIVE 307 208 163 76 33 aact:AA01859|3end_hypothetical_protein_1251890..1252040_POSITIVE 307 376 337 79 38 aact:AA01289|3end_hypothetical_protein_872848..872998_POSITIVE 305 399 352 106 69 aact:AA01645|3end_ferric_transport_ABC-related_ATP-binding_protein_1115184..1115334_POSITIVE 304 208 164 133 79 aact:AA00218|3end_argininosuccinate_lyase_152211..152361_POSITIVE 303 210 169 78 39 aact:AA00527|3end_ATP-dependent_DNA_helicase_361463..361613_POSITIVE 302 357 311 149 101 aact:AA01794|3end_glycine_cleavage_system_transcription_activator_1210690..1210840_POSITIVE 298 207 164 73 22 aact:AA00534|3end_hypothetical_protein_365594..365744_POSITIVE