Origin IGS: ctgtctttaccggttatcgtttcctataacgctgttttcacttatcttattgtctcggaaagcaccctcgcctttcccttacctgtagagggtgctttccttatgtacaaagcctctctttgcttaagcgccggtcactcttgctta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taagcaagagtgaccggcgcttaagcaaagagaggctttgtacataaggaaagcaccctctacaggtaagggaaaggcgagggtgctttccgagacaataagataagtgaaaacagcgttataggaaacgataaccggtaaagacag Mask Tandem Repeat Region ================================================ ctgtctttaccggttatcgtttcctataacgctgttttcacttatcttattgtctcggaaagcaccctcgcctttcccttacctgtagagggtgctttccttatgtacaaagcctctctttgcttaagcgccggtcactcttgctta Find is-nt database================================================ Query_seq: TF1824:TF1825|TF1824:TF1825:ABC transporter, ATP-binding protein:mannose-6-phosphate isomerase:->->:1973571..1973717 147 ctgtctttaccggttatcgtttcctataacgctgttttcacttatcttattgtctcggaaagcaccctcgcctttcccttacctgtagagggtgctttccttatgtacaaagcctctctttgcttaagcgccggtcactcttgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1824:TF1825|TF1824:TF1825:ABC transporter, ATP-binding protein:mannose-6-phosphate isomerase:->->:1973571..1973717 147 ctgtctttaccggttatcgtttcctataacgctgttttcacttatcttattgtctcggaaagcaccctcgcctttcccttacctgtagagggtgctttccttatgtacaaagcctctctttgcttaagcgccggtcactcttgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1824:TF1825|TF1824:TF1825:ABC transporter, ATP-binding protein:mannose-6-phosphate isomerase:->->:1973571..1973717 147 ctgtctttaccggttatcgtttcctataacgctgttttcacttatcttattgtctcggaaagcaccctcgcctttcccttacctgtagagggtgctttccttatgtacaaagcctctctttgcttaagcgccggtcactcttgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctgtctttaccggttatcgtttcctataacgctgttttcacttatcttattgtctcggaaagcaccctcgcctttcccttacctgtagagggtgctttccttatgtacaaagcctctctttgcttaagcgccggtcactcttgctta Predict ORF larger than 30AA ================================================ Protein_Len: 49 Strand: + Start: 1 End: 147 M S L P V I V S Y N A V F T Y L I V S E S T L A F P L P V E G A F L M Y K A S L C L S A G H S C L ctgtctttaccggttatcgtttcctataacgctgttttcacttatcttattgtctcggaaagcaccctcgcctttcccttacctgtagagggtgctttccttatgtacaaagcctctctttgcttaagcgccggtcactcttgctta 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================================================ ctgtctttaccggttatcgtttcctataacgctgttttcacttatcttattgtctcggaaagcaccctcgcctttcccttacctgtagagggtgctttccttatgtacaaagcctctctttgcttaagcgccggtcactcttgctta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 67 HP_score: -8.2 Tail_Score: -3.48395 Start: 57 End: 100 Full_Region: TTATCTTATTGTCTC GGAAAGCACCCTCGCC TTTCCCTTACCT GTAGAGGGTGCTTTCC TTATGTACAAAGCCT ........................................................GGAAAGCACCCTCGCCTTTCCCTTACCTGTAGAGGGTGCTTTCC............................................... Find igs database================================================ Query_seq: TF1824:TF1825|TF1824:TF1825:ABC transporter, ATP-binding protein:mannose-6-phosphate isomerase:->->:1973571..1973717 147 ctgtctttaccggttatcgtttcctataacgctgttttcacttatcttattgtctcggaaagcaccctcgcctttcccttacctgtagagggtgctttccttatgtacaaagcctctctttgcttaagcgccggtcactcttgctta Intra-Species Hit: Count: 2 Min: 1 Max: 147 Len: 147 Subject: tfor_TF1824_TF1825|ABC transporter, ATP-binding protein:mannose-6-phosphate isomerase|POSITIVE:POSITIVE|[1973571,1973717]|147 HSP 1 e-value: 3.0E-78 bit: 291.0 Len: 147 Query Start:1 Query End:147 Subject Strand: POSITIVE Subject Start: 1 Subject End: 147 ctgtctttaccggttatcgtttcctataacgctgttttcacttatcttattgtctcggaaagcaccctcgcctttcccttacctgtagagggtgctttccttatgtacaaagcctctctttgcttaagcgccggtcactcttgctta ctgtctttaccggttatcgtttcctataacgctgttttcacttatcttattgtctcggaaagcaccctcgcctttcccttacctgtagagggtgctttccttatgtacaaagcctctctttgcttaagcgccggtcactcttgctta Subject: tfor_TF1980_TF1981|conserved hypothetical protein:mannose-6-phosphate isomerase|POSITIVE:POSITIVE|[2130921,2131035]|115 HSP 1 e-value: 4.0E-50 bit: 198.0 Len: 111 Query Start:37 Query End:147 Subject Strand: POSITIVE Subject Start: 4 Subject End: 115 ....................................ttcacttatcttattgtctcggaaagcaccctcgcctttcccttacctgtagagggtgcttt-ccttatgtacaaagcctctctttgcttaagcgccggtcactcttgctta ....................................ttcacttatcttattgtctcggaaagcaccctcgcctttcccttacctgtagagggtgctttcccttatgtgcaaagcctctctttgcttaagcgccggtcactcttgctta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUGUCUUUACCGGUUAUCGUUUCCUAUAACGCUGUUUUCACUUAUCUUAUUGUCUCGGAAAGCACCCUCGCCUUUCCCUUACCUGUAGAGGGUGCUUUCCUUAUGUACAAAGCCUCUCUUUGCUUAAGCGCCGGUCACUCUUGCUUA ........((((((...((((......)))).........((((............(((((((((((((..(............)..))))))))))))).......(((((.....)))))..)))).))))))............ (-37.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGCAAGAGUGACCGGCGCUUAAGCAAAGAGAGGCUUUGUACAUAAGGAAAGCACCCUCUACAGGUAAGGGAAAGGCGAGGGUGCUUUCCGAGACAAUAAGAUAAGUGAAAACAGCGUUAUAGGAAACGAUAACCGGUAAAGACAG ............((((.((((((.((((((.....))))))......(((((((((((((..(............)..)))))))))))))............))))))........(((((.(....).)))))))))........ (-44.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 409 136 99 48 3 tfor:TF2598|5end_conserved_hypothetical_protein_2771032..2771262_POSITIVE 386 95 56 188 141 tfor:TF0816|5end_hypothetical_protein_874217..874447_POSITIVE 384 100 51 207 158 tfor:TF2259|5end_transfer_region-related_protein,_TraK_2429577..2429807_POSITIVE 374 99 52 70 15 tfor:TF2704|5end_ribonuclease_HII_2876242..2876472_POSITIVE 350 75 33 106 61 tfor:TF1870|5end_conserved_hypothetical_protein;_possible_transposase_2023912..2024142_POSITIVE 341 95 53 217 167 tfor:TF0669|5end_hypothetical_protein_713384..713614_POSITIVE 335 100 57 183 140 tfor:TF1981|5end_mannose-6-phosphate_isomerase_2130896..2131126_POSITIVE 335 97 53 49 1 tfor:TF0585|5end_conserved_hypothetical_protein_614782..615012_POSITIVE 334 100 51 50 3 tfor:TF1908|5end_possible_phosphoglycerate_mutase_2062695..2062925_POSITIVE 328 91 51 112 66 tfor:TF1049|5end_cobyrinic_acid_a,c-diamide_synthase_1110140..1110370_POSITIVE 327 105 68 156 105 tfor:TF3009|5end_RNA_polymerase_ECF-type_sigma_factor_3229093..3229323_POSITIVE 324 130 82 165 118 tfor:TF2357|5end_collagenase_2522561..2522791_POSITIVE 323 138 91 201 147 tfor:TF2682|5end_N_utilization_substance_protein_A_2856308..2856538_POSITIVE 323 139 92 125 70 tfor:TF0600|5end_oxidoreductase/dehydrogenase_630083..630313_POSITIVE 321 100 52 218 175 tfor:TF2246|5end_hypothetical_protein_2421288..2421518_POSITIVE 317 98 54 126 70 tfor:TF1866|5end_conserved_hypothetical_protein;_possible_transposase_2022272..2022502_POSITIVE 316 93 51 99 59 tfor:TF0300|5end_hypothetical_protein_325309..325539_POSITIVE 315 97 51 219 162 tfor:TF3003|5end_hypothetical_protein_3220382..3220612_POSITIVE 315 100 51 222 156 tfor:TF2270|5end_conserved_hypothetical_protein_2435463..2435693_POSITIVE 314 136 103 56 16 tfor:TF2336|5end_conserved_hypothetical_protein_2496169..2496399_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 441 100 57 68 26 tfor:TF0939|3end_ISPg1_transposase,_IS1106-related_transposase_981115..981265_POSITIVE 374 99 52 65 10 tfor:TF2703|3end_conserved_hypothetical_protein_2876317..2876467_POSITIVE 354 140 91 62 8 tfor:TF2646|3end_conserved_hypothetical_protein_2816697..2816847_POSITIVE 350 77 31 127 72 tfor:TF0279|3end_conserved_hypothetical_protein_308679..308829_POSITIVE 341 100 51 75 16 tfor:TF2515|3end_outer_membrane_protein,_TonB_dependent_receptor_2694865..2695015_POSITIVE 335 100 57 67 24 tfor:TF1980|3end_conserved_hypothetical_protein_2130860..2131010_POSITIVE 328 124 83 46 9 tfor:TF2840|3end_hypothetical_protein_3031289..3031439_POSITIVE 328 91 51 109 63 tfor:TF1048|3end_permease_1110217..1110367_POSITIVE 323 139 92 92 37 tfor:TF0599|3end_hypothetical_protein_630130..630280_POSITIVE 321 100 52 141 98 tfor:TF2245|3end_conserved_hypothetical_protein_2421291..2421441_POSITIVE 316 93 51 75 35 tfor:TF0299|3end_hypothetical_protein_325365..325515_POSITIVE 307 95 56 43 1 tfor:TF1169|3end_lipoprotein_ABC_transporter,_permease_component_1251573..1251723_POSITIVE 303 58 11 127 80 tfor:TF0885|3end_conjugative_transposon_protein_fragment_938055..938205_POSITIVE 302 77 31 151 96 tfor:TF2257|3end_transfer_region-related_protein,_TraJ_2429622..2429772_POSITIVE 295 136 91 138 85 tfor:TF0240|3end_conserved_hypothetical_protein;_possible_gycosyltransferase_I_family_protein_271407..271557_POSITIVE 291 90 44 95 45 tfor:TF2640|3end_hypothetical_protein_2809533..2809683_POSITIVE 290 139 91 140 90 tfor:TF2674|3end_conserved_hypothetical_protein;_possible_phosphoesterase_2848777..2848927_POSITIVE 290 94 55 88 42 tfor:TF0351|3end_hypothetical_protein_371226..371376_POSITIVE 287 100 51 59 1 tfor:TF1002|3end_replicative_DNA_helicase_1058232..1058382_POSITIVE 285 100 55 71 2 tfor:TF1917|3end_hypothetical_protein_2070244..2070394_POSITIVE