Origin IGS: tagacgcggatggggggtggttcagcagcggaattttgggggaagcggccggtaaggcttgactgcaaacggcggtgaagaatcctatccacaagatccacagcaaaacgcgagttgtgttctttttcattggtttgtcggtcgggctgttggcacttttttttaaaattaaacatatttaaacgttta .........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 taaacgtttaaatatgtttaattttaaaaaaaagtgccaacagcccgaccgacaaaccaatgaaaaagaacacaactcgcgttttgctgtggatcttgtggataggattcttcaccgccgtttgcagtcaagccttaccggccgcttcccccaaaattccgctgctgaaccaccccccatccgcgtcta Mask Tandem Repeat Region ================================================ tagacgcggatggggggtggttcagcagcggaattttgggggaagcggccggtaaggcttgactgcaaacggcggtgaagaatcctatccacaagatccacagcaaaacgcgagttgtgttctttttcattggtttgtcggtcgggctgttggcacttttttttaaaattaaacatatttaaacgttta Find is-nt database================================================ Query_seq: TF2366:TF2367|TF2366:TF2367:conserved hypothetical protein:delta-1-pyrroline-5-carboxylate dehydrogenase:->->:2531953..2532141 189 tagacgcggatggggggtggttcagcagcggaattttgggggaagcggccggtaaggcttgactgcaaacggcggtgaagaatcctatccacaagatccacagcaaaacgcgagttgtgttctttttcattggtttgtcggtcgggctgttggcacttttttttaaaattaaacatatttaaacgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2366:TF2367|TF2366:TF2367:conserved hypothetical protein:delta-1-pyrroline-5-carboxylate dehydrogenase:->->:2531953..2532141 189 tagacgcggatggggggtggttcagcagcggaattttgggggaagcggccggtaaggcttgactgcaaacggcggtgaagaatcctatccacaagatccacagcaaaacgcgagttgtgttctttttcattggtttgtcggtcgggctgttggcacttttttttaaaattaaacatatttaaacgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2366:TF2367|TF2366:TF2367:conserved hypothetical protein:delta-1-pyrroline-5-carboxylate dehydrogenase:->->:2531953..2532141 189 tagacgcggatggggggtggttcagcagcggaattttgggggaagcggccggtaaggcttgactgcaaacggcggtgaagaatcctatccacaagatccacagcaaaacgcgagttgtgttctttttcattggtttgtcggtcgggctgttggcacttttttttaaaattaaacatatttaaacgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagacgcggatggggggtggttcagcagcggaattttgggggaagcggccggtaaggcttgactgcaaacggcggtgaagaatcctatccacaagatccacagcaaaacgcgagttgtgttctttttcattggtttgtcggtcgggctgttggcacttttttttaaaattaaacatatttaaacgttta Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 59 End: 163 .......................................................... M T A N G G E E S Y P Q D P Q Q N A S C V L F H W F V G R A V G T F F .......................... Protein_Len: 39 Strand: + Start: 63 End: 179 .............................................................. M Q T A V K N P I H K I H S K T R V V F F F I G L S V G L L A L F F K I K H I .......... Protein_Len: 36 Strand: + Start: 82 End: 189 ................................................................................. M L S T R S T A K R E L C S F S L V C R S G C W H F F L K L N I F K R L Protein_Len: 58 Strand: - Start: 3 End: 176 .. V R I P P P E A A S N Q P F R G T L S S Q L R R H L I R D V L D V A F R S N H E K E N T Q R D P Q Q C K K K F N F M ............. Protein_Len: 59 Strand: - Start: 2 End: 178 . S A S P P H N L L P I K P S A A P L A Q S C V A T F F G I W L I W L L V R T T N K K M P K D T P S N A S K K L I L C M ........... tagacgcggatggggggtggttcagcagcggaattttgggggaagcggccggtaaggcttgactgcaaacggcggtgaagaatcctatccacaagatccacagcaaaacgcgagttgtgttctttttcattggtttgtcggtcgggctgttggcacttttttttaaaattaaacatatttaaacgttta 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================================================ tagacgcggatggggggtggttcagcagcggaattttgggggaagcggccggtaaggcttgactgcaaacggcggtgaagaatcctatccacaagatccacagcaaaacgcgagttgtgttctttttcattggtttgtcggtcgggctgttggcacttttttttaaaattaaacatatttaaacgttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2366:TF2367|TF2366:TF2367:conserved hypothetical protein:delta-1-pyrroline-5-carboxylate dehydrogenase:->->:2531953..2532141 189 tagacgcggatggggggtggttcagcagcggaattttgggggaagcggccggtaaggcttgactgcaaacggcggtgaagaatcctatccacaagatccacagcaaaacgcgagttgtgttctttttcattggtttgtcggtcgggctgttggcacttttttttaaaattaaacatatttaaacgttta Intra-Species Hit: Count: 1 Min: 1 Max: 189 Len: 189 Subject: tfor_TF2366_TF2367|conserved hypothetical protein:delta-1-pyrroline-5-carboxylate dehydrogenase|POSITIVE:POSITIVE|[2531953,2532141]|189 HSP 1 e-value: 8.0E-89 bit: 327.0 Len: 189 Query Start:1 Query End:189 Subject Strand: POSITIVE Subject Start: 1 Subject End: 189 tagacgcggatggggggtggttcagcagcggaattttgggggaagcggccggtaaggcttgactgcaaacggcggtgaagaatcctatccacaagatccacagcaaaacgcgagttgtgttctttttcattggtttgtcggtcgggctgttggcacnnnnnnnnaaaattaaacatatttaaacgttta tagacgcggatggggggtggttcagcagcggaattttgggggaagcggccggtaaggcttgactgcaaacggcggtgaagaatcctatccacaagatccacagcaaaacgcgagttgtgttctttttcattggtttgtcggtcgggctgttggcacttttttttaaaattaaacatatttaaacgttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGACGCGGAUGGGGGGUGGUUCAGCAGCGGAAUUUUGGGGGAAGCGGCCGGUAAGGCUUGACUGCAAACGGCGGUGAAGAAUCCUAUCCACAAGAUCCACAGCAAAACGCGAGUUGUGUUCUUUUUCAUUGGUUUGUCGGUCGGGCUGUUGGCACUUUUUUUUAAAAUUAAACAUAUUUAAACGUUUA ....(((...((((......))))...))).((((((((((((((..(((((...(((((((((((((((..((((((((((....(((.....)))....((((.(((....))).)))).))))))))))))))).)))))))))).)))))..))))))))))))))................... (-52.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACGUUUAAAUAUGUUUAAUUUUAAAAAAAAGUGCCAACAGCCCGACCGACAAACCAAUGAAAAAGAACACAACUCGCGUUUUGCUGUGGAUCUUGUGGAUAGGAUUCUUCACCGCCGUUUGCAGUCAAGCCUUACCGGCCGCUUCCCCCAAAAUUCCGCUGCUGAACCACCCCCCAUCCGCGUCUA (((((((......)))))))...........(((..(((.((((..((((((........................))).)))..)))))))..)))((((((.((...(((.((.((.....)).)).)))......((((.((...............)).))))........)).))))))..... (-34.92) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 485 50 6 196 154 tfor:TF0712|5end_TPR-repeat-containing_protein_761348..761578_POSITIVE 439 60 11 134 92 tfor:TF2017|5end_conserved_hypothetical_protein_2173504..2173734_POSITIVE 437 149 110 51 10 tfor:TF2261|5end_transfer_region-related_protein,_TraM_2430496..2430726_POSITIVE 436 59 12 79 20 tfor:TF2640|5end_hypothetical_protein_2809106..2809336_POSITIVE 433 49 1 173 111 tfor:TF2410|5end_possible_endo-1,4-beta-xylanase_2584000..2584230_POSITIVE 433 80 32 150 103 tfor:TF1312|5end_hypothetical_protein_1388465..1388695_POSITIVE 433 80 32 150 103 tfor:TF1311|5end_hypothetical_protein_1388242..1388472_POSITIVE 433 80 32 150 103 tfor:TF1310|5end_hypothetical_protein_1388019..1388249_POSITIVE 421 52 11 215 175 tfor:TF0745|5end_conserved_hypothetical_protein_790653..790883_POSITIVE 409 77 33 74 27 tfor:TF1822|5end_outer_membrane_lipoprotein_silC_precursor_1967599..1967829_POSITIVE 409 59 11 150 81 tfor:TF1274|5end_hypothetical_protein_1357621..1357851_POSITIVE 408 50 3 79 29 tfor:TF2911|5end_hypothetical_protein_3105871..3106101_POSITIVE 406 67 28 177 130 tfor:TF0529|5end_transposase_554776..555006_POSITIVE 401 50 3 102 29 tfor:TF2273|5end_conserved_hypothetical_protein_2436398..2436628_POSITIVE 401 51 11 148 107 tfor:TF0085|5end_ABC_transporter,_ATP-binding_protein_91517..91747_POSITIVE 399 81 43 225 182 tfor:TF2083|5end_conserved_hypothetical_protein_2250834..2251064_POSITIVE 397 58 13 87 28 tfor:TF0697|5end_glycerol-3-phosphate_cytidyltransferase_740667..740897_POSITIVE 395 59 13 203 132 tfor:TF2631|5end_conserved_hypothetical_protein_2801694..2801924_POSITIVE 395 77 35 216 171 tfor:TF1268|5end_conserved_hypothetical_protein_1354085..1354315_POSITIVE 393 50 2 160 99 tfor:TF1084|5end_transposase_1153310..1153540_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 454 43 6 147 111 tfor:TF0710|3end_two_component_system_histidine_kinase_761385..761535_POSITIVE 437 149 110 67 26 tfor:TF2260|3end_transfer_region-related_protein,_TraL_2430592..2430742_POSITIVE 433 80 32 51 4 tfor:TF1311|3end_hypothetical_protein_1388558..1388708_POSITIVE 433 80 32 51 4 tfor:TF1310|3end_hypothetical_protein_1388335..1388485_POSITIVE 431 58 11 149 104 tfor:TF0815|3end_conserved_hypothetical_protein_873974..874124_POSITIVE 429 70 23 48 10 tfor:TF2016|3end_hypothetical_protein_2173492..2173642_POSITIVE 408 50 3 84 34 tfor:TF2909|3end_GTP-binding_protein,_possible_GTP1/OBG_family_3105956..3106106_POSITIVE 406 67 28 100 53 tfor:TF0528|3end_two-component_system_sensor_histidine_kinase_554779..554929_POSITIVE 405 58 11 146 78 tfor:TF1167|3end_hypothetical_protein_1248932..1249082_POSITIVE 403 59 12 61 5 tfor:TF2922|3end_surface_antigen_BspA_3121538..3121688_POSITIVE 401 50 3 138 65 tfor:TF2272|3end_conserved_hypothetical_protein_2436514..2436664_POSITIVE 401 51 11 148 107 tfor:TF0084|3end_possible_membrane-fusion_protein_91597..91747_POSITIVE 400 75 37 42 2 tfor:TF1474|3end_6-phosphogluconolactonase_1568123..1568273_POSITIVE 399 58 13 99 30 tfor:TF2342|3end_glutathione_peroxidase_2506639..2506789_POSITIVE 397 58 13 81 22 tfor:TF0696|3end_3-oxoacyl-(acyl-carrier-protein)_reductase_740741..740891_POSITIVE 394 43 4 79 41 tfor:TF2092|3end_ribonuclease_III_2261823..2261973_POSITIVE 391 50 2 53 17 tfor:TF3113|3end_hypothetical_protein_3349706..3349856_POSITIVE 385 59 12 135 75 tfor:TF0759|3end_heat_shock_protein_15,_RNA-binding_domain_S4_806366..806516_POSITIVE 381 66 21 74 8 tfor:TF0993|3end_hypothetical_protein_1048782..1048932_POSITIVE 380 59 12 149 99 tfor:TF1312|3end_hypothetical_protein_1388781..1388931_POSITIVE