Origin IGS: taaaaaccattcatctcatccacttttacaagacggtaatgagatcacaataaaagaacggccgccctttttcaggacagggtaaagggtaatctgactgaatgttgaaaacgaaccgcagccacagcaaaaaaacacctgaataattaaactatttatatctcttgattgtttctataaacaagagagtcataaagttgtatggcgttgctatcaaacggagtttatc .........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 gataaactccgtttgatagcaacgccatacaactttatgactctcttgtttatagaaacaatcaagagatataaatagtttaattattcaggtgtttttttgctgtggctgcggttcgttttcaacattcagtcagattaccctttaccctgtcctgaaaaagggcggccgttcttttattgtgatctcattaccgtcttgtaaaagtggatgagatgaatggttttta Mask Tandem Repeat Region ================================================ taaaaaccattcatctcatccacttttacaagacggtaatgagatcacaataaaagaacggccgccctttttcaggacagggtaaagggtaatctgactgaatgttgaaaacgaaccgcagccacagcaaaaaaacacctgaataattaaactatttatatctcttgattgtttctataaacaagagagtcataaagttgtatggcgttgctatcaaacggagtttatc Find is-nt database================================================ Query_seq: TF2020:TF2021|TF2020:TF2021:muconate cycloisomerase:hypothetical protein:->->:2177613..2177841 229 taaaaaccattcatctcatccacttttacaagacggtaatgagatcacaataaaagaacggccgccctttttcaggacagggtaaagggtaatctgactgaatgttgaaaacgaaccgcagccacagcaaaaaaacacctgaataattaaactatttatatctcttgattgtttctataaacaagagagtcataaagttgtatggcgttgctatcaaacggagtttatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2020:TF2021|TF2020:TF2021:muconate cycloisomerase:hypothetical protein:->->:2177613..2177841 229 taaaaaccattcatctcatccacttttacaagacggtaatgagatcacaataaaagaacggccgccctttttcaggacagggtaaagggtaatctgactgaatgttgaaaacgaaccgcagccacagcaaaaaaacacctgaataattaaactatttatatctcttgattgtttctataaacaagagagtcataaagttgtatggcgttgctatcaaacggagtttatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2020:TF2021|TF2020:TF2021:muconate cycloisomerase:hypothetical protein:->->:2177613..2177841 229 taaaaaccattcatctcatccacttttacaagacggtaatgagatcacaataaaagaacggccgccctttttcaggacagggtaaagggtaatctgactgaatgttgaaaacgaaccgcagccacagcaaaaaaacacctgaataattaaactatttatatctcttgattgtttctataaacaagagagtcataaagttgtatggcgttgctatcaaacggagtttatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaaaccattcatctcatccacttttacaagacggtaatgagatcacaataaaagaacggccgccctttttcaggacagggtaaagggtaatctgactgaatgttgaaaacgaaccgcagccacagcaaaaaaacacctgaataattaaactatttatatctcttgattgtttctataaacaagagagtcataaagttgtatggcgttgctatcaaacggagtttatc Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: - Start: 29 End: 130 ............................ L V T I L D C Y F F P R G K E P C P L P Y D S Q I N F V F R L W L M ................................................................................................... Protein_Len: 47 Strand: - Start: 19 End: 159 .................. G S K C S P L S I V I F S R G G K K L V P Y L T I Q S F T S F S G C G C C F F V Q I I L S N M ...................................................................... taaaaaccattcatctcatccacttttacaagacggtaatgagatcacaataaaagaacggccgccctttttcaggacagggtaaagggtaatctgactgaatgttgaaaacgaaccgcagccacagcaaaaaaacacctgaataattaaactatttatatctcttgattgtttctataaacaagagagtcataaagttgtatggcgttgctatcaaacggagtttatc 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================================================ taaaaaccattcatctcatccacttttacaagacggtaatgagatcacaataaaagaacggccgccctttttcaggacagggtaaagggtaatctgactgaatgttgaaaacgaaccgcagccacagcaaaaaaacacctgaataattaaactatttatatctcttgattgtttctataaacaagagagtcataaagttgtatggcgttgctatcaaacggagtttatc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2020:TF2021|TF2020:TF2021:muconate cycloisomerase:hypothetical protein:->->:2177613..2177841 229 taaaaaccattcatctcatccacttttacaagacggtaatgagatcacaataaaagaacggccgccctttttcaggacagggtaaagggtaatctgactgaatgttgaaaacgaaccgcagccacagcaaaaaaacacctgaataattaaactatttatatctcttgattgtttctataaacaagagagtcataaagttgtatggcgttgctatcaaacggagtttatc Intra-Species Hit: Count: 1 Min: 1 Max: 229 Len: 229 Subject: tfor_TF2020_TF2021|muconate cycloisomerase:hypothetical protein|POSITIVE:POSITIVE|[2177613,2177841]|229 HSP 1 e-value: 1.0E-114 bit: 412.0 Len: 229 Query Start:1 Query End:229 Subject Strand: POSITIVE Subject Start: 1 Subject End: 229 taaaaaccattcatctcatccacttttacaagacggtaatgagatcacaataaaagaacggccgccctttttcaggacagggtaaagggtaatctgactgaatgttgaaaacgaaccgcagccacagcnnnnnnncacctgaataattaaactatttatatctcttgattgtttctataaacaagagagtcataaagttgtatggcgttgctatcaaacggagtttatc taaaaaccattcatctcatccacttttacaagacggtaatgagatcacaataaaagaacggccgccctttttcaggacagggtaaagggtaatctgactgaatgttgaaaacgaaccgcagccacagcaaaaaaacacctgaataattaaactatttatatctcttgattgtttctataaacaagagagtcataaagttgtatggcgttgctatcaaacggagtttatc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAACCAUUCAUCUCAUCCACUUUUACAAGACGGUAAUGAGAUCACAAUAAAAGAACGGCCGCCCUUUUUCAGGACAGGGUAAAGGGUAAUCUGACUGAAUGUUGAAAACGAACCGCAGCCACAGCAAAAAAACACCUGAAUAAUUAAACUAUUUAUAUCUCUUGAUUGUUUCUAUAAACAAGAGAGUCAUAAAGUUGUAUGGCGUUGCUAUCAAACGGAGUUUAUC ((((..((.(((.((((((..(((.((....)).))).))))))...(((((..((..(((..((((((((((......))).)))))))...))).))...))))).....)))..(((((((((((...........((((((.......))))))..(((((((.((((....)))).)))))))........)))))..)))..)))........))..)))).. (-44.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUAAACUCCGUUUGAUAGCAACGCCAUACAACUUUAUGACUCUCUUGUUUAUAGAAACAAUCAAGAGAUAUAAAUAGUUUAAUUAUUCAGGUGUUUUUUUGCUGUGGCUGCGGUUCGUUUUCAACAUUCAGUCAGAUUACCCUUUACCCUGUCCUGAAAAAGGGCGGCCGUUCUUUUAUUGUGAUCUCAUUACCGUCUUGUAAAAGUGGAUGAGAUGAAUGGUUUUUA ((.((((.((((.(.(((((((((((...............(((((((..............)))))))....((((((...))))))..))))).....)))))).)..))))...))))))..(((((...................(((((((.....)))))))................(((((((..(((.(((....))))))))))))))))))....... (-51.34) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 387 128 92 44 3 tfor:TF0379|5end_conserved_hypothetical_protein,_nif3_family_399458..399688_POSITIVE 362 100 54 180 128 tfor:TF1252|5end_phosphofructokinase;_pyrophosphate-fructose_6-phosphate_1-phosphotransferase_(probable_beta_subunit)_1334361..1334591_POSITIVE 330 124 81 197 148 tfor:TF2456|5end_ABC_transporter,_ATP-binding_protein_2632376..2632606_POSITIVE 321 164 121 163 121 tfor:TF2840|5end_hypothetical_protein_3031060..3031290_POSITIVE 319 77 31 189 121 tfor:TF2689|5end_hypothetical_protein_2864824..2865054_POSITIVE 317 130 86 70 29 tfor:TF2188|5end_conserved_hypothetical_protein_2362652..2362882_POSITIVE 317 109 61 79 35 tfor:TF1472|5end_acyl-ACP_thioesterase_1565475..1565705_POSITIVE 314 109 61 107 66 tfor:TF2439|5end_conserved_hypothetical_protein_2616380..2616610_POSITIVE 314 144 102 224 176 tfor:TF0211|5end_DNA_polymerase_III,_epsilon_subunit_236905..237135_POSITIVE 309 104 61 175 122 tfor:TF2712|5end_glycosyltransferase_2885918..2886148_POSITIVE 309 93 59 152 126 tfor:TF2704|5end_ribonuclease_HII_2876242..2876472_POSITIVE 307 108 61 162 111 tfor:TF1669|5end_ATP_synthase,_gamma_subunit_1783566..1783796_POSITIVE 301 108 63 94 16 tfor:TF2824|5end_nucleoside-transporting_protein_nupG_3014701..3014931_POSITIVE 301 66 21 76 24 tfor:TF1031|5end_conserved_hypothetical_protein_1089560..1089790_POSITIVE 301 129 81 164 114 tfor:TF0339|5end_hypothetical_protein_363470..363700_POSITIVE 300 80 34 132 86 tfor:TF2126|5end_S-adenosylhomocysteine_hydrolase_2302501..2302731_POSITIVE 299 98 55 193 144 tfor:TF1570|5end_ATP_synthase_subunit_A_1678325..1678555_POSITIVE 299 139 112 64 28 tfor:TF0882|5end_hypothetical_protein_935919..936149_POSITIVE 299 87 56 91 56 tfor:TF0432|5end_3-deoxy-manno-octulosonate_cytidylyltransferase_452531..452761_POSITIVE 298 94 53 85 38 tfor:TF0749|5end_protease_II_795562..795792_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 328 109 61 67 2 tfor:TF1590|3end_hypothetical_protein_1706043..1706193_POSITIVE 321 164 121 58 16 tfor:TF2839|3end_ATP-dependent_exodeoxyribonuclease_3031035..3031185_POSITIVE 321 107 61 72 28 tfor:TF1592|3end_hypothetical_protein_1708557..1708707_POSITIVE 319 80 32 57 10 tfor:TF0985|3end_fructose-bisphosphate_aldolase_1042973..1043123_POSITIVE 318 108 61 65 18 tfor:TF1169|3end_lipoprotein_ABC_transporter,_permease_component_1251573..1251723_POSITIVE 317 130 86 58 17 tfor:TF2187|3end_conserved_hypothetical_protein_2362720..2362870_POSITIVE 317 109 61 45 1 tfor:TF1471|3end_conserved_hypothetical_protein_1565521..1565671_POSITIVE 311 98 52 54 15 tfor:TF0018|3end_hypothetical_protein_12091..12241_POSITIVE 309 93 59 147 121 tfor:TF2703|3end_conserved_hypothetical_protein_2876317..2876467_POSITIVE 307 108 61 131 80 tfor:TF1668|3end_possible_glycosylhydrolase_1783615..1783765_POSITIVE 299 139 112 58 22 tfor:TF0881|3end_conserved_hypothetical_protein_935993..936143_POSITIVE 297 107 61 96 52 tfor:TF1588|3end_hypothetical_protein_1702560..1702710_POSITIVE 295 120 80 142 96 tfor:TF0994|3end_maltose_O-acetyltransferase_1049782..1049932_POSITIVE 293 75 32 144 85 tfor:TF2731|3end_Fe2+/Zn2+_uptake_regulation_protein_2911686..2911836_POSITIVE 288 89 52 62 23 tfor:TF0841|3end_NADH_dehydrogenase/NAD(P)H_nitroreductase_893048..893198_POSITIVE 281 129 81 117 74 tfor:TF3021|3end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_3246194..3246344_POSITIVE 279 99 57 57 9 tfor:TF1510|3end_outer_membrane_protein_1621118..1621268_POSITIVE 279 95 59 104 57 tfor:TF0537|3end_conserved_hypothetical_protein_566836..566986_POSITIVE 278 100 58 52 6 tfor:TF2852|3end_conserved_hypothetical_protein_3040221..3040371_POSITIVE 278 128 103 26 1 tfor:TF0378|3end_aspartyl-tRNA_synthetase_399520..399670_POSITIVE