Origin IGS: taaggctaagttatgaaaaccgttgcgtaggggtgaaaggattggccttgggacaagtgcaacaggtcggctcggtgatattgttcgggaagtgcatatatgaaaaagttaaataaagtcactacgagacatttttcacttggaaaatttgcatgtatggaaagtatgttctaaatttgtgatcgg .........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 ccgatcacaaatttagaacatactttccatacatgcaaattttccaagtgaaaaatgtctcgtagtgactttatttaactttttcatatatgcacttcccgaacaatatcaccgagccgacctgttgcacttgtcccaaggccaatcctttcacccctacgcaacggttttcataacttagcctta Mask Tandem Repeat Region ================================================ taaggctaagttatgaaaaccgttgcgtaggggtgaaaggattggccttgggacaagtgcaacaggtcggctcggtgatattgttcgggaagtgcatatatgaaaaagttaaataaagtcactacgagacatttttcacttggaaaatttgcatgtatggaaagtatgttctaaatttgtgatcgg Find is-nt database================================================ Query_seq: TF1109:TF1110|TF1109:TF1110:lipoprotein:conserved hypothetical protein:->->:1180058..1180243 186 taaggctaagttatgaaaaccgttgcgtaggggtgaaaggattggccttgggacaagtgcaacaggtcggctcggtgatattgttcgggaagtgcatatatgaaaaagttaaataaagtcactacgagacatttttcacttggaaaatttgcatgtatggaaagtatgttctaaatttgtgatcgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1109:TF1110|TF1109:TF1110:lipoprotein:conserved hypothetical protein:->->:1180058..1180243 186 taaggctaagttatgaaaaccgttgcgtaggggtgaaaggattggccttgggacaagtgcaacaggtcggctcggtgatattgttcgggaagtgcatatatgaaaaagttaaataaagtcactacgagacatttttcacttggaaaatttgcatgtatggaaagtatgttctaaatttgtgatcgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1109:TF1110|TF1109:TF1110:lipoprotein:conserved hypothetical protein:->->:1180058..1180243 186 taaggctaagttatgaaaaccgttgcgtaggggtgaaaggattggccttgggacaagtgcaacaggtcggctcggtgatattgttcgggaagtgcatatatgaaaaagttaaataaagtcactacgagacatttttcacttggaaaatttgcatgtatggaaagtatgttctaaatttgtgatcgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaggctaagttatgaaaaccgttgcgtaggggtgaaaggattggccttgggacaagtgcaacaggtcggctcggtgatattgttcgggaagtgcatatatgaaaaagttaaataaagtcactacgagacatttttcacttggaaaatttgcatgtatggaaagtatgttctaaatttgtgatcgg Predict ORF larger than 30AA ================================================ Protein_Len: 53 Strand: - Start: 9 End: 167 ........ T I F V T A Y P H F S Q G Q S L H L L D A R H Y Q E P L A Y I F F N F L T V V L C K E S P F N A H I S L M ................... Protein_Len: 33 Strand: - Start: 1 End: 99 L A L N H F G N R L P S L I P R P V L A V P R S P S I T R S T C M ....................................................................................... taaggctaagttatgaaaaccgttgcgtaggggtgaaaggattggccttgggacaagtgcaacaggtcggctcggtgatattgttcgggaagtgcatatatgaaaaagttaaataaagtcactacgagacatttttcacttggaaaatttgcatgtatggaaagtatgttctaaatttgtgatcgg 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================================================ taaggctaagttatgaaaaccgttgcgtaggggtgaaaggattggccttgggacaagtgcaacaggtcggctcggtgatattgttcgggaagtgcatatatgaaaaagttaaataaagtcactacgagacatttttcacttggaaaatttgcatgtatggaaagtatgttctaaatttgtgatcgg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1109:TF1110|TF1109:TF1110:lipoprotein:conserved hypothetical protein:->->:1180058..1180243 186 taaggctaagttatgaaaaccgttgcgtaggggtgaaaggattggccttgggacaagtgcaacaggtcggctcggtgatattgttcgggaagtgcatatatgaaaaagttaaataaagtcactacgagacatttttcacttggaaaatttgcatgtatggaaagtatgttctaaatttgtgatcgg Intra-Species Hit: Count: 1 Min: 1 Max: 186 Len: 186 Subject: tfor_TF1109_TF1110|lipoprotein:conserved hypothetical protein|POSITIVE:POSITIVE|[1180058,1180243]|186 HSP 1 e-value: 1.0E-101 bit: 369.0 Len: 186 Query Start:1 Query End:186 Subject Strand: POSITIVE Subject Start: 1 Subject End: 186 taaggctaagttatgaaaaccgttgcgtaggggtgaaaggattggccttgggacaagtgcaacaggtcggctcggtgatattgttcgggaagtgcatatatgaaaaagttaaataaagtcactacgagacatttttcacttggaaaatttgcatgtatggaaagtatgttctaaatttgtgatcgg taaggctaagttatgaaaaccgttgcgtaggggtgaaaggattggccttgggacaagtgcaacaggtcggctcggtgatattgttcgggaagtgcatatatgaaaaagttaaataaagtcactacgagacatttttcacttggaaaatttgcatgtatggaaagtatgttctaaatttgtgatcgg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGGCUAAGUUAUGAAAACCGUUGCGUAGGGGUGAAAGGAUUGGCCUUGGGACAAGUGCAACAGGUCGGCUCGGUGAUAUUGUUCGGGAAGUGCAUAUAUGAAAAAGUUAAAUAAAGUCACUACGAGACAUUUUUCACUUGGAAAAUUUGCAUGUAUGGAAAGUAUGUUCUAAAUUUGUGAUCGG (((((((((.......(..((........))..).......)))))))))...((((((......(((..(..((((((.(((((..(......((....))......)..))))).))))))..).)))......))))))......(..((.((.(((((......))))).)).))..).... (-38.94) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCGAUCACAAAUUUAGAACAUACUUUCCAUACAUGCAAAUUUUCCAAGUGAAAAAUGUCUCGUAGUGACUUUAUUUAACUUUUUCAUAUAUGCACUUCCCGAACAAUAUCACCGAGCCGACCUGUUGCACUUGUCCCAAGGCCAAUCCUUUCACCCCUACGCAACGGUUUUCAUAACUUAGCCUUA ..................................((...........((((....(((.(((.((((....(((...........)))....))))...))))))...)))).(((..((((.(((((.........((((.....))))..........))))))))))))........)).... (-21.41) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 403 89 45 194 144 tfor:TF1442|5end_hypothetical_protein_1526196..1526426_POSITIVE 394 68 21 149 102 tfor:TF2282|5end_hypothetical_protein_2439401..2439631_POSITIVE 391 95 51 87 46 tfor:TF0136|5end_transposase_element_145627..145857_POSITIVE 384 88 44 168 121 tfor:TF0719|5end_hypothetical_protein_769798..770028_POSITIVE 366 75 32 203 157 tfor:TF2919|5end_5'-nucleotidase_family_protein_3114441..3114671_POSITIVE 358 75 31 73 32 tfor:TF1739|5end_possible_sulfatase_1866983..1867213_POSITIVE 353 70 23 230 183 tfor:TF1823|5end_xanthan_lyase_XalB_precursor_1969153..1969383_POSITIVE 353 95 52 187 138 tfor:TF0431|5end_hypothetical_protein_452178..452408_POSITIVE 353 95 52 172 123 tfor:TF0430|5end_hypothetical_protein_452163..452393_POSITIVE 351 68 21 127 67 tfor:TF2996|5end_hypothetical_protein_3210802..3211032_POSITIVE 351 68 21 137 77 tfor:TF1588|5end_hypothetical_protein_1702268..1702498_POSITIVE 350 58 20 59 5 tfor:TF0986|5end_50S_ribosomal_protein_L31_1041426..1041656_POSITIVE 349 89 41 87 35 tfor:TF0187|5end_ferredoxin_202151..202381_POSITIVE 347 102 65 189 140 tfor:TF1111|5end_glycosyltransferase_1180757..1180987_POSITIVE 346 95 51 58 5 tfor:TF0178|5end_ferritin_187613..187843_POSITIVE 344 78 31 201 148 tfor:TF1974|5end_glyoxalase_I_related_protein_(lactoylglutathione_lyase)_2120950..2121180_POSITIVE 343 80 31 64 19 tfor:TF1891|5end_hypothetical_protein_2043389..2043619_POSITIVE 341 70 24 178 130 tfor:TF0995|5end_conserved_hypothetical_protein_1049695..1049925_POSITIVE 340 60 18 205 159 tfor:TF0992|5end_hypothetical_protein_1048251..1048481_POSITIVE 336 70 21 88 38 tfor:TF2640|5end_hypothetical_protein_2809106..2809336_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 394 68 21 142 95 tfor:TF2280|3end_hypothetical_protein_2439474..2439624_POSITIVE 378 70 21 93 38 tfor:TF3046|3end_hypothetical_protein_3275192..3275342_POSITIVE 366 75 32 64 18 tfor:TF2918|3end_hypothetical_protein_3114382..3114532_POSITIVE 357 70 23 70 14 tfor:TF0239|3end_conserved_hypothetical_protein_270323..270473_POSITIVE 356 76 31 59 11 tfor:TF0247|3end_conserved_hypothetical_protein_278348..278498_POSITIVE 351 68 21 94 34 tfor:TF2994|3end_hypothetical_protein_3210849..3210999_POSITIVE 338 70 24 151 113 tfor:TF0815|3end_conserved_hypothetical_protein_873974..874124_POSITIVE 337 70 21 49 4 tfor:TF0699|3end_pyridoxal_phosphate_biosynthetic_protein_742745..742895_POSITIVE 334 90 43 148 98 tfor:TF0841|3end_NADH_dehydrogenase/NAD(P)H_nitroreductase_893048..893198_POSITIVE 332 100 51 63 8 tfor:TF0005|3end_possible_beta-lactamase_1789..1939_POSITIVE 331 96 56 138 102 tfor:TF2251|3end_conjugative_transposon_protein,_TraE_2424687..2424837_POSITIVE 330 49 21 111 79 tfor:TF2346|3end_hypothetical_protein_2509973..2510123_POSITIVE 329 79 32 146 93 tfor:TF0004|3end_conserved_hypothetical_protein_2571..2721_POSITIVE 328 89 43 102 47 tfor:TF0655|3end_outer_membrane_protein_701907..702057_POSITIVE 327 54 11 97 47 tfor:TF1553|3end_copper_homeostasis_protein_1659681..1659831_POSITIVE 327 75 31 101 44 tfor:TF0419|3end_conserved_hypothetical_protein_435794..435944_POSITIVE 323 69 21 67 6 tfor:TF2379|3end_phosphoribosylformylglycinamidine_cyclo-ligase_(AIR_synthase)_2545092..2545242_POSITIVE 319 87 41 127 67 tfor:TF1775|3end_oxidoreductase,_Gfo/Idh/MocA_family_1914618..1914768_POSITIVE 319 75 31 84 21 tfor:TF0685|3end_hypothetical_protein_731132..731282_POSITIVE 318 89 43 122 81 tfor:TF2332|3end_signal_peptidase_I_2492613..2492763_POSITIVE