Origin IGS: tgaatttgccttgtccccacgggcatgacgcgataagccccccactcgtggggtatcatcgtactccacgagtgacttgccgggatatcccacggatggggtgcaaaaggcacgattacagaacaaaagtcataaactgataaacgagacctgatttgcttggaaaattccccaaattaggcgttttaggctctaaaaaggtattttagtatctcctttctccctttttgaaaaaaacatttacctttgtaaagtcgggtaacagcatgtacccgttattttttagtaataaacaaaaattattct .........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 agaataatttttgtttattactaaaaaataacgggtacatgctgttacccgactttacaaaggtaaatgtttttttcaaaaagggagaaaggagatactaaaatacctttttagagcctaaaacgcctaatttggggaattttccaagcaaatcaggtctcgtttatcagtttatgacttttgttctgtaatcgtgccttttgcaccccatccgtgggatatcccggcaagtcactcgtggagtacgatgataccccacgagtggggggcttatcgcgtcatgcccgtggggacaaggcaaattca Mask Tandem Repeat Region ================================================ tgaatttgccttgtccccacgggcatgacgcgataagccccccactcgtggggtatcatcgtactccacgagtgacttgccgggatatcccacggatggggtgcaaaaggcacgattacagaacaaaagtcataaactgataaacgagacctgatttgcttggaaaattccccaaattaggcgttttaggctctaaaaaggtattttagtatctcctttctccctttttgaaaaaaacatttacctttgtaaagtcgggtaacagcatgtacccgttattttttagtaataaacaaaaattattct Find is-nt database================================================ Query_seq: TF0419:TF0421|TF0419:TF0421:conserved hypothetical protein:alpha-L-fucosidase:->->:435855..436160 306 tgaatttgccttgtccccacgggcatgacgcgataagccccccactcgtggggtatcatcgtactccacgagtgacttgccgggatatcccacggatggggtgcaaaaggcacgattacagaacaaaagtcataaactgataaacgagacctgatttgcttggaaaattccccaaattaggcgttttaggctctaaaaaggtattttagtatctcctttctccctttttgaaaaaaacatttacctttgtaaagtcgggtaacagcatgtacccgttattttttagtaataaacaaaaattattct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0419:TF0421|TF0419:TF0421:conserved hypothetical protein:alpha-L-fucosidase:->->:435855..436160 306 tgaatttgccttgtccccacgggcatgacgcgataagccccccactcgtggggtatcatcgtactccacgagtgacttgccgggatatcccacggatggggtgcaaaaggcacgattacagaacaaaagtcataaactgataaacgagacctgatttgcttggaaaattccccaaattaggcgttttaggctctaaaaaggtattttagtatctcctttctccctttttgaaaaaaacatttacctttgtaaagtcgggtaacagcatgtacccgttattttttagtaataaacaaaaattattct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0419:TF0421|TF0419:TF0421:conserved hypothetical protein:alpha-L-fucosidase:->->:435855..436160 306 tgaatttgccttgtccccacgggcatgacgcgataagccccccactcgtggggtatcatcgtactccacgagtgacttgccgggatatcccacggatggggtgcaaaaggcacgattacagaacaaaagtcataaactgataaacgagacctgatttgcttggaaaattccccaaattaggcgttttaggctctaaaaaggtattttagtatctcctttctccctttttgaaaaaaacatttacctttgtaaagtcgggtaacagcatgtacccgttattttttagtaataaacaaaaattattct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaatttgccttgtccccacgggcatgacgcgataagccccccactcgtggggtatcatcgtactccacgagtgacttgccgggatatcccacggatggggtgcaaaaggcacgattacagaacaaaagtcataaactgataaacgagacctgatttgcttggaaaattccccaaattaggcgttttaggctctaaaaaggtattttagtatctcctttctccctttttgaaaaaaacatttacctttgtaaagtcgggtaacagcatgtacccgttattttttagtaataaacaaaaattattct Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 6 End: 137 ..... M P C P H G H D A I S P P L V G Y H R T P R V T C R D I P R M G C K R H D Y R T K V I N ......................................................................................................................................................................... Protein_Len: 51 Strand: - Start: 3 End: 155 .. I Q R T G V P M V R Y A G W E H P I M T S W S H S A P I D W P H P A F P V I V S C F D Y V S L R S R M ....................................................................................................................................................... Protein_Len: 42 Strand: - Start: 1 End: 126 S N A K D G R A H R S L G G V R P T D D Y E V L S K G P Y G V S P T C F A R N C F M .................................................................................................................................................................................... tgaatttgccttgtccccacgggcatgacgcgataagccccccactcgtggggtatcatcgtactccacgagtgacttgccgggatatcccacggatggggtgcaaaaggcacgattacagaacaaaagtcataaactgataaacgagacctgatttgcttggaaaattccccaaattaggcgttttaggctctaaaaaggtattttagtatctcctttctccctttttgaaaaaaacatttacctttgtaaagtcgggtaacagcatgtacccgttattttttagtaataaacaaaaattattct 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================================================ tgaatttgccttgtccccacgggcatgacgcgataagccccccactcgtggggtatcatcgtactccacgagtgacttgccgggatatcccacggatggggtgcaaaaggcacgattacagaacaaaagtcataaactgataaacgagacctgatttgcttggaaaattccccaaattaggcgttttaggctctaaaaaggtattttagtatctcctttctccctttttgaaaaaaacatttacctttgtaaagtcgggtaacagcatgtacccgttattttttagtaataaacaaaaattattct Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 56 HP_score: -5.9 Tail_Score: -3.34043 Start: 37 End: 80 Full_Region: ccgtgggatatcccg gcaagtcactcgtggagta cgatga taccccacgagtggggggc ttatcgcgtcatgcc ....................................gcaagtcactcgtggagtacgatgataccccacgagtggggggc.................................................................................................................................................................................................................................. TransTerm Strand: + Conf: 81 HP_score: -12.8 Tail_Score: -2.52676 Start: 45 End: 72 Full_Region: GCGATAAGCCCCCCA CTCGTGGGGTAT CATC GTACTCCACGAG TGACTTGCCGGGATA ............................................CTCGTGGGGTATCATCGTACTCCACGAG.......................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 47 HP_score: -3.8 Tail_Score: -3.08467 Start: 193 End: 209 Full_Region: TAGGCGTTTTAGGCT CTAAAA AGGTA TTTTAG TATCTCCTTTCTCCC ................................................................................................................................................................................................CTAAAAAGGTATTTTAG................................................................................................. TransTerm Strand: + Conf: 82 HP_score: -7.2 Tail_Score: -4.68456 Start: 256 End: 275 Full_Region: TTACCTTTGTAAAGT CGGGTAACA GCA TGTACCCG TTATTTTTTAGTAAT ...............................................................................................................................................................................................................................................................CGGGTAACAGCATGTACCCG............................... Find igs database================================================ Query_seq: TF0419:TF0421|TF0419:TF0421:conserved hypothetical protein:alpha-L-fucosidase:->->:435855..436160 306 tgaatttgccttgtccccacgggcatgacgcgataagccccccactcgtggggtatcatcgtactccacgagtgacttgccgggatatcccacggatggggtgcaaaaggcacgattacagaacaaaagtcataaactgataaacgagacctgatttgcttggaaaattccccaaattaggcgttttaggctctaaaaaggtattttagtatctcctttctccctttttgaaaaaaacatttacctttgtaaagtcgggtaacagcatgtacccgttattttttagtaataaacaaaaattattct Intra-Species Hit: Count: 1 Min: 1 Max: 306 Len: 306 Subject: tfor_TF0419_TF0421|conserved hypothetical protein:alpha-L-fucosidase|POSITIVE:POSITIVE|[435855, 436160]|306 HSP 1 e-value: 1.0E-160 bit: 565.0 Len: 306 Query Start:1 Query End:306 Subject Strand: POSITIVE Subject Start: 1 Subject End: 306 tgaatttgccttgtccccacgggcatgacgcgataagccccccactcgtggggtatcatcgtactccacgagtgacttgccgggatatcccacggatggggtgcaaaaggcacgattacagaacaaaagtcataaactgataaacgagacctgatttgcttggaaaattccccaaattaggcgttttaggctctaaaaaggtattttagtatctcctttctccctttttgnnnnnnncatttacctttgtaaagtcgggtaacagcatgtacccgttattttttagtaataaacaaaaattattct tgaatttgccttgtccccacgggcatgacgcgataagccccccactcgtggggtatcatcgtactccacgagtgacttgccgggatatcccacggatggggtgcaaaaggcacgattacagaacaaaagtcataaactgataaacgagacctgatttgcttggaaaattccccaaattaggcgttttaggctctaaaaaggtattttagtatctcctttctccctttttgaaaaaaacatttacctttgtaaagtcgggtaacagcatgtacccgttattttttagtaataaacaaaaattattct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAUUUGCCUUGUCCCCACGGGCAUGACGCGAUAAGCCCCCCACUCGUGGGGUAUCAUCGUACUCCACGAGUGACUUGCCGGGAUAUCCCACGGAUGGGGUGCAAAAGGCACGAUUACAGAACAAAAGUCAUAAACUGAUAAACGAGACCUGAUUUGCUUGGAAAAUUCCCCAAAUUAGGCGUUUUAGGCUCUAAAAAGGUAUUUUAGUAUCUCCUUUCUCCCUUUUUGAAAAAAACAUUUACCUUUGUAAAGUCGGGUAACAGCAUGUACCCGUUAUUUUUUAGUAAUAAACAAAAAUUAUUCU .((((.(((((((((((((.((((............))))..((((((((((((((....)))))))))))))).....(((((.....)).))).))))).)))..)))))..(((((...(((((.((......((((..((((...(((((((((...(((....))).)))))))))))))))))....((((((((......((......)).....))))))))............)).))))).....((((((........))))))..........)))))...........)))). (-86.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAAUAAUUUUUGUUUAUUACUAAAAAAUAACGGGUACAUGCUGUUACCCGACUUUACAAAGGUAAAUGUUUUUUUCAAAAAGGGAGAAAGGAGAUACUAAAAUACCUUUUUAGAGCCUAAAACGCCUAAUUUGGGGAAUUUUCCAAGCAAAUCAGGUCUCGUUUAUCAGUUUAUGACUUUUGUUCUGUAAUCGUGCCUUUUGCACCCCAUCCGUGGGAUAUCCCGGCAAGUCACUCGUGGAGUACGAUGAUACCCCACGAGUGGGGGGCUUAUCGCGUCAUGCCCGUGGGGACAAGGCAAAUUCA .((((...............(((((((....((((((........))))))..........((((..(.((((((((......)))))))).)..))))........))))))).((((......((((...(((((..........(((((..((((..((.(((.(((..((.......))..)))))).)).))))))))).)))))....))))...((((.((...((((((((((.(((......))).)))))))))).((((............)))))).))))..))))..)))). (-87.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 433 58 11 202 148 tfor:TF2357|5end_collagenase_2522561..2522791_POSITIVE 428 84 45 177 133 tfor:TF0008|5end_hypothetical_protein_4074..4304_POSITIVE 417 49 1 58 9 tfor:TF0970|5end_2-keto-3-deoxygluconate_kinase_1020396..1020626_POSITIVE 401 60 11 227 162 tfor:TF0822|5end_hypothetical_protein_880487..880717_POSITIVE 401 60 11 227 162 tfor:TF0821|5end_hypothetical_protein_879879..880109_POSITIVE 393 52 14 82 39 tfor:TF2225|5end_CTn_excision_protein_2394935..2395165_POSITIVE 391 48 5 215 165 tfor:TF2561|5end_50S_ribosomal_protein_L16_2738693..2738923_POSITIVE 390 60 17 52 2 tfor:TF0987|5end_DNA_repair_protein_1043090..1043320_POSITIVE 388 60 11 213 148 tfor:TF0678|5end_hypothetical_protein_721103..721333_POSITIVE 385 50 7 63 19 tfor:TF0668|5end_inorganic_pyrophosphatase_712493..712723_POSITIVE 383 100 59 175 128 tfor:TF2276|5end_conserved_hypothetical_protein_2438226..2438456_POSITIVE 382 115 72 230 169 tfor:TF1171|5end_ABC_transporter,_ATP-binding_protein_1251850..1252080_POSITIVE 379 51 11 230 166 tfor:TF3152|5end_hypothetical_protein_3386690..3386920_POSITIVE 376 70 22 150 102 tfor:TF1293|5end_ATPase,_possible_AAA_superfamily_1374579..1374809_POSITIVE 374 49 5 45 1 tfor:TF0413|5end_succinyl-diaminopimelate_desuccinylase_430434..430664_POSITIVE 371 69 21 203 151 tfor:TF1932|5end_pigmentation_and_extracellular_proteinase_regulator_2078542..2078772_POSITIVE 369 53 15 162 119 tfor:TF1343|5end_hypothetical_protein_1424630..1424860_POSITIVE 368 99 51 221 157 tfor:TF2578|5end_30S_ribosomal_protein_S11_2746698..2746928_POSITIVE 368 54 15 195 151 tfor:TF1275|5end_transcription-repair_coupling_factor_1357866..1358096_POSITIVE 367 65 21 64 4 tfor:TF2840|5end_hypothetical_protein_3031060..3031290_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 447 80 32 54 2 tfor:TF0419|3end_conserved_hypothetical_protein_435794..435944_POSITIVE 390 100 51 134 73 tfor:TF1432|3end_possible_hemolysin_A_1516990..1517140_POSITIVE 373 58 18 139 84 tfor:TF0643|3end_probable_tRNA_methyltransferase_685690..685840_POSITIVE 369 53 15 72 29 tfor:TF1342|3end_possible_lipoprotein_1424620..1424770_POSITIVE 369 76 31 151 94 tfor:TF0969|3end_oxidoreductase_1020439..1020589_POSITIVE 368 54 15 144 100 tfor:TF1274|3end_hypothetical_protein_1357895..1358045_POSITIVE 352 79 36 70 5 tfor:TF2259|3end_transfer_region-related_protein,_TraK_2430277..2430427_POSITIVE 352 52 20 35 1 tfor:TF2224|3end_CTn_excision_protein_2394968..2395118_POSITIVE 351 46 12 63 19 tfor:TF2657|3end_conserved_hypothetical_protein_2830873..2831023_POSITIVE 350 50 16 68 26 tfor:TF2830|3end_ABC_transporter,_ATP-binding_protein_3021419..3021569_POSITIVE 345 67 23 137 80 tfor:TF2547|3end_hypothetical_protein_2730947..2731097_POSITIVE 343 103 64 52 7 tfor:TF2172|3end_hypothetical_protein_2346135..2346285_POSITIVE 341 90 42 95 38 tfor:TF1132|3end_conserved_hypothetical_protein_1209704..1209854_POSITIVE 340 88 41 68 17 tfor:TF1292|3end_sensor_histidine_protein_kinase_1374554..1374704_POSITIVE 340 58 11 59 2 tfor:TF0328|3end_conserved_hypothetical_protein_355266..355416_POSITIVE 337 59 18 45 1 tfor:TF2289|3end_secretion_protein,_possible_HlyD_family_2444004..2444154_POSITIVE 336 82 43 109 67 tfor:TF3021|3end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_3246194..3246344_POSITIVE 333 67 21 103 47 tfor:TF0541|3end_conserved_hypothetical_protein_571858..572008_POSITIVE 329 54 20 48 6 tfor:TF2344|3end_ATP/GTP_binding_protein_2508434..2508584_POSITIVE 329 34 7 61 27 tfor:TF2263|3end_transfer_region-related_protein,_TraN_2432964..2433114_POSITIVE