Origin IGS: taatttcgtattacataaattgaaaagaggcagtttttcatcaacgcgatgaagctgcctttttttggttcgcttagcacgaacattctctaatcggtgtaagtccgtaacacgcccgatagcgggaagtgtatagcccggagtgggcaagggtgtccatagtgatatggaatctgaaatgtctgacagggcgtctttcttactggcatgccgtcgagccggataatgcgtatgtgattcggttgttaaaagcactcaaagagttgagccattgagttggcagcttctttcactcgatagcaagtgttttattttatagtactcgctta .........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 taagcgagtactataaaataaaacacttgctatcgagtgaaagaagctgccaactcaatggctcaactctttgagtgcttttaacaaccgaatcacatacgcattatccggctcgacggcatgccagtaagaaagacgccctgtcagacatttcagattccatatcactatggacacccttgcccactccgggctatacacttcccgctatcgggcgtgttacggacttacaccgattagagaatgttcgtgctaagcgaaccaaaaaaaggcagcttcatcgcgttgatgaaaaactgcctcttttcaatttatgtaatacgaaatta Mask Tandem Repeat Region ================================================ taatttcgtattacataaattgaaaagaggcagtttttcatcaacgcgatgaagctgcctttttttggttcgcttagcacgaacattctctaatcggtgtaagtccgtaacacgcccgatagcgggaagtgtatagcccggagtgggcaagggtgtccatagtgatatggaatctgaaatgtctgacagggcgtctttcttactggcatgccgtcgagccggataatgcgtatgtgattcggttgttaaaagcactcaaagagttgagccattgagttggcagcttctttcactcgatagcaagtgttttattttatagtactcgctta Find is-nt database================================================ Query_seq: TF0789:TF0790|TF0789:TF0790:preprotein translocase, secDF family:conserved hypothetical protein:->->:843731..844059 329 taatttcgtattacataaattgaaaagaggcagtttttcatcaacgcgatgaagctgcctttttttggttcgcttagcacgaacattctctaatcggtgtaagtccgtaacacgcccgatagcgggaagtgtatagcccggagtgggcaagggtgtccatagtgatatggaatctgaaatgtctgacagggcgtctttcttactggcatgccgtcgagccggataatgcgtatgtgattcggttgttaaaagcactcaaagagttgagccattgagttggcagcttctttcactcgatagcaagtgttttattttatagtactcgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0789:TF0790|TF0789:TF0790:preprotein translocase, secDF family:conserved hypothetical protein:->->:843731..844059 329 taatttcgtattacataaattgaaaagaggcagtttttcatcaacgcgatgaagctgcctttttttggttcgcttagcacgaacattctctaatcggtgtaagtccgtaacacgcccgatagcgggaagtgtatagcccggagtgggcaagggtgtccatagtgatatggaatctgaaatgtctgacagggcgtctttcttactggcatgccgtcgagccggataatgcgtatgtgattcggttgttaaaagcactcaaagagttgagccattgagttggcagcttctttcactcgatagcaagtgttttattttatagtactcgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0789:TF0790|TF0789:TF0790:preprotein translocase, secDF family:conserved hypothetical protein:->->:843731..844059 329 taatttcgtattacataaattgaaaagaggcagtttttcatcaacgcgatgaagctgcctttttttggttcgcttagcacgaacattctctaatcggtgtaagtccgtaacacgcccgatagcgggaagtgtatagcccggagtgggcaagggtgtccatagtgatatggaatctgaaatgtctgacagggcgtctttcttactggcatgccgtcgagccggataatgcgtatgtgattcggttgttaaaagcactcaaagagttgagccattgagttggcagcttctttcactcgatagcaagtgttttattttatagtactcgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatttcgtattacataaattgaaaagaggcagtttttcatcaacgcgatgaagctgcctttttttggttcgcttagcacgaacattctctaatcggtgtaagtccgtaacacgcccgatagcgggaagtgtatagcccggagtgggcaagggtgtccatagtgatatggaatctgaaatgtctgacagggcgtctttcttactggcatgccgtcgagccggataatgcgtatgtgattcggttgttaaaagcactcaaagagttgagccattgagttggcagcttctttcactcgatagcaagtgttttattttatagtactcgctta Predict ORF larger than 30AA ================================================ Protein_Len: 48 Strand: + Start: 129 End: 272 ................................................................................................................................ M Y S P E W A R V S I V I W N L K C L T G R L S Y W H A V E P D N A Y V I R L L K A L K E L S H ......................................................... Protein_Len: 47 Strand: - Start: 93 End: 233 ............................................................................................ D T Y T R L V G S L P F H I A R L P C P H G Y H Y P I Q F T Q C P T K R V P M G D L R I I R M ................................................................................................ Protein_Len: 30 Strand: - Start: 77 End: 166 ............................................................................ C S C E R I P T L G Y C A R Y R S T Y L G S H A L T D M T M ................................................................................................................................................................... Protein_Len: 60 Strand: - Start: 1 End: 255 A R V N E L R H L D T V R G I A P L T Y G P T P L P T W L S I S D S I D S L A D K K S A H R R A P Y H T H S E T T L L M .......................................................................... taatttcgtattacataaattgaaaagaggcagtttttcatcaacgcgatgaagctgcctttttttggttcgcttagcacgaacattctctaatcggtgtaagtccgtaacacgcccgatagcgggaagtgtatagcccggagtgggcaagggtgtccatagtgatatggaatctgaaatgtctgacagggcgtctttcttactggcatgccgtcgagccggataatgcgtatgtgattcggttgttaaaagcactcaaagagttgagccattgagttggcagcttctttcactcgatagcaagtgttttattttatagtactcgctta 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================================================ taatttcgtattacataaattgaaaagaggcagtttttcatcaacgcgatgaagctgcctttttttggttcgcttagcacgaacattctctaatcggtgtaagtccgtaacacgcccgatagcgggaagtgtatagcccggagtgggcaagggtgtccatagtgatatggaatctgaaatgtctgacagggcgtctttcttactggcatgccgtcgagccggataatgcgtatgtgattcggttgttaaaagcactcaaagagttgagccattgagttggcagcttctttcactcgatagcaagtgttttattttatagtactcgctta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 75 HP_score: -3.2 Tail_Score: -5.20781 Start: 291 End: 306 Full_Region: GTTGGCAGCTTCTTT CACTCG ATAG CAAGTG TTTTATTTTATAGTA ..................................................................................................................................................................................................................................................................................................CACTCGATAGCAAGTG....................... Find igs database================================================ Query_seq: TF0789:TF0790|TF0789:TF0790:preprotein translocase, secDF family:conserved hypothetical protein:->->:843731..844059 329 taatttcgtattacataaattgaaaagaggcagtttttcatcaacgcgatgaagctgcctttttttggttcgcttagcacgaacattctctaatcggtgtaagtccgtaacacgcccgatagcgggaagtgtatagcccggagtgggcaagggtgtccatagtgatatggaatctgaaatgtctgacagggcgtctttcttactggcatgccgtcgagccggataatgcgtatgtgattcggttgttaaaagcactcaaagagttgagccattgagttggcagcttctttcactcgatagcaagtgttttattttatagtactcgctta Intra-Species Hit: Count: 1 Min: 1 Max: 329 Len: 329 Subject: tfor_TF0789_TF0790|preprotein translocase, secDF family:conserved hypothetical protein|POSITIVE:POSITIVE|[843731,844059]|329 HSP 1 e-value: 1.0E-174 bit: 611.0 Len: 329 Query Start:1 Query End:329 Subject Strand: POSITIVE Subject Start: 1 Subject End: 329 taatttcgtattacataaattgaaaagaggcagtttttcatcaacgcgatgaagctgccnnnnnnnggttcgcttagcacgaacattctctaatcggtgtaagtccgtaacacgcccgatagcgggaagtgtatagcccggagtgggcaagggtgtccatagtgatatggaatctgaaatgtctgacagggcgtctttcttactggcatgccgtcgagccggataatgcgtatgtgattcggttgttaaaagcactcaaagagttgagccattgagttggcagcttctttcactcgatagcaagtgttttattttatagtactcgctta taatttcgtattacataaattgaaaagaggcagtttttcatcaacgcgatgaagctgcctttttttggttcgcttagcacgaacattctctaatcggtgtaagtccgtaacacgcccgatagcgggaagtgtatagcccggagtgggcaagggtgtccatagtgatatggaatctgaaatgtctgacagggcgtctttcttactggcatgccgtcgagccggataatgcgtatgtgattcggttgttaaaagcactcaaagagttgagccattgagttggcagcttctttcactcgatagcaagtgttttattttatagtactcgctta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUCGUAUUACAUAAAUUGAAAAGAGGCAGUUUUUCAUCAACGCGAUGAAGCUGCCUUUUUUUGGUUCGCUUAGCACGAACAUUCUCUAAUCGGUGUAAGUCCGUAACACGCCCGAUAGCGGGAAGUGUAUAGCCCGGAGUGGGCAAGGGUGUCCAUAGUGAUAUGGAAUCUGAAAUGUCUGACAGGGCGUCUUUCUUACUGGCAUGCCGUCGAGCCGGAUAAUGCGUAUGUGAUUCGGUUGUUAAAAGCACUCAAAGAGUUGAGCCAUUGAGUUGGCAGCUUCUUUCACUCGAUAGCAAGUGUUUUAUUUUAUAGUACUCGCUUA .......((((((....(((..((((((((((((..((((((.....))))))))))))))))))..)))..........(((((((..(((.(((..(((((......((((.((((....))))..))))...((((....((((((.((((.((((((....))))))))))....))))))...))))......)))))..((((.(((......)))...))))....((((...(((((((((...(((((((....)))))....))..)))))))))....)))).))))))..))))))).......))))))....... (-101.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGCGAGUACUAUAAAAUAAAACACUUGCUAUCGAGUGAAAGAAGCUGCCAACUCAAUGGCUCAACUCUUUGAGUGCUUUUAACAACCGAAUCACAUACGCAUUAUCCGGCUCGACGGCAUGCCAGUAAGAAAGACGCCCUGUCAGACAUUUCAGAUUCCAUAUCACUAUGGACACCCUUGCCCACUCCGGGCUAUACACUUCCCGCUAUCGGGCGUGUUACGGACUUACACCGAUUAGAGAAUGUUCGUGCUAAGCGAACCAAAAAAAGGCAGCUUCAUCGCGUUGAUGAAAAACUGCCUCUUUUCAAUUUAUGUAAUACGAAAUUA ...((((................((((((....))))))...(((((((((..(((....((((((....))))))..............((((......((((...(((......))).))))..(((((.((.((((((.((.((.(.........((((((....)))))).......((((.....))))............))))).)))))).)).....)))))...)))).)))...((((((.....))))))........))))))))).)))).....((((((........)))))).................... (-85.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 428 159 112 230 175 tfor:TF2130|5end_conserved_hypothetical_protein;_possible_permease_2306486..2306716_POSITIVE 412 149 101 90 23 tfor:TF2246|5end_hypothetical_protein_2421288..2421518_POSITIVE 411 245 202 214 170 tfor:TF1037|5end_iron_(III)_ABC_transporter,_ATP-binding_protein_1098194..1098424_POSITIVE 410 150 103 186 142 tfor:TF2375|5end_conserved_hypothetical_protein_2540953..2541183_POSITIVE 410 230 182 78 24 tfor:TF2010|5end_hypothetical_protein_2163246..2163476_POSITIVE 408 149 109 48 4 tfor:TF1334|5end_hypothetical_protein_1415996..1416226_POSITIVE 401 149 101 91 57 tfor:TF0187|5end_ferredoxin_202151..202381_POSITIVE 400 160 114 229 175 tfor:TF2353|5end_conserved_hypothetical_protein_2517758..2517988_POSITIVE 400 148 105 145 103 tfor:TF2276|5end_conserved_hypothetical_protein_2438226..2438456_POSITIVE 399 239 192 101 44 tfor:TF2766|5end_shikimate_kinase_2951619..2951849_POSITIVE 397 220 173 54 10 tfor:TF2786|5end_hypothetical_protein_2969851..2970081_POSITIVE 391 154 113 182 136 tfor:TF1243|5end_periplasmic_protease_1327243..1327473_POSITIVE 389 157 113 119 58 tfor:TF2407|5end_glycosyltransferase_2581574..2581804_POSITIVE 387 160 111 169 99 tfor:TF1274|5end_hypothetical_protein_1357621..1357851_POSITIVE 386 223 181 169 117 tfor:TF1586|5end_hypothetical_protein_1690971..1691201_POSITIVE 384 146 102 187 138 tfor:TF2853|5end_2-C-methyl-D-erythritol_2,4-cyclodiphosphate_synthase_3040172..3040402_POSITIVE 381 155 113 75 20 tfor:TF2529|5end_nucleotidyl_transferase_family;_possible_mannose-1-phosphate_guanyltransferase_2710670..2710900_POSITIVE 379 159 113 204 145 tfor:TF0001|5end_hypothetical_protein_-116..114_POSITIVE 378 170 123 84 32 tfor:TF0590|5end_hypothetical_protein_625134..625364_POSITIVE 376 155 114 165 128 tfor:TF2666|5end_hypothetical_protein_2841818..2842048_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 410 150 103 45 1 tfor:TF2374|3end_UDP-3-O-(R-3-hydoxymyristoyl)-glucosamine-N-acylt_ransferase_2540892..2541042_POSITIVE 410 220 183 132 89 tfor:TF0844|3end_transposase,_IS3_family_896099..896249_POSITIVE 409 155 113 118 71 tfor:TF2640|3end_hypothetical_protein_2809533..2809683_POSITIVE 400 148 105 139 97 tfor:TF2275|3end_conserved_hypothetical_protein_2438300..2438450_POSITIVE 391 156 112 69 23 tfor:TF1273|3end_hypothetical_protein_1357462..1357612_POSITIVE 391 70 23 73 25 tfor:TF0789|3end_preprotein_translocase,_secDF_family_843670..843820_POSITIVE 389 157 113 124 63 tfor:TF2406|3end_anti-sigma_factor_2581659..2581809_POSITIVE 381 155 113 74 19 tfor:TF2527|3end_RNA_polymerase_ECF-type_sigma_factor_2710749..2710899_POSITIVE 380 158 111 50 6 tfor:TF1762|3end_hypothetical_protein_1899648..1899798_POSITIVE 379 155 114 118 81 tfor:TF2921|3end_hypothetical_protein_3118790..3118940_POSITIVE 379 155 114 118 81 tfor:TF2438|3end_hypothetical_protein_2616157..2616307_POSITIVE 379 155 114 118 81 tfor:TF1167|3end_hypothetical_protein_1248932..1249082_POSITIVE 378 170 123 94 42 tfor:TF0591|3end_RNA_polymerase,_ECF-type_sigma_factor_625224..625374_POSITIVE 378 149 103 54 3 tfor:TF0037|3end_sialic_acid-specific_9-O-acetylesterase_39991..40141_POSITIVE 375 246 204 95 40 tfor:TF3064|3end_oxidoreductase,_aldo/keto_reductase_family_3290984..3291134_POSITIVE 374 154 111 130 98 tfor:TF0959|3end_periplasmic_protease_1008540..1008690_POSITIVE 374 159 113 96 51 tfor:TF0583|3end_possible_gliding_motility-related_protein_613829..613979_POSITIVE 366 158 111 63 10 tfor:TF2519|3end_membrane_protein,_metallopeptidase_M23/M37_family_2698997..2699147_POSITIVE 359 148 101 64 4 tfor:TF1675|3end_hypothetical_protein_1789137..1789287_POSITIVE 359 160 112 98 49 tfor:TF0458|3end_hypothetical_protein_475206..475356_POSITIVE