Origin IGS: tgcaaataagttttaatgttacaattttaccagccctccatcaggtaaaatactaataatttgtttgttatattgataaaaaactcatggggggagcctttttcgggggataaaggtacgaataatatttgtgatggcataacaaatat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atatttgttatgccatcacaaatattattcgtacctttatcccccgaaaaaggctccccccatgagttttttatcaatataacaaacaaattattagtattttacctgatggagggctggtaaaattgtaacattaaaacttatttgca Mask Tandem Repeat Region ================================================ tgcaaataagttttaatgttacaattttaccagccctccatcaggtaaaatactaataatttgtttgttatattgataaaaaactcatggggggagcctttttcgggggataaaggtacgaataatatttgtgatggcataacaaatat Find is-nt database================================================ Query_seq: TF0447:TF0448|TF0447:TF0448:hypothetical protein:hypothetical protein:->->:467655..467803 149 tgcaaataagttttaatgttacaattttaccagccctccatcaggtaaaatactaataatttgtttgttatattgataaaaaactcatggggggagcctttttcgggggataaaggtacgaataatatttgtgatggcataacaaatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0447:TF0448|TF0447:TF0448:hypothetical protein:hypothetical protein:->->:467655..467803 149 tgcaaataagttttaatgttacaattttaccagccctccatcaggtaaaatactaataatttgtttgttatattgataaaaaactcatggggggagcctttttcgggggataaaggtacgaataatatttgtgatggcataacaaatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0447:TF0448|TF0447:TF0448:hypothetical protein:hypothetical protein:->->:467655..467803 149 tgcaaataagttttaatgttacaattttaccagccctccatcaggtaaaatactaataatttgtttgttatattgataaaaaactcatggggggagcctttttcgggggataaaggtacgaataatatttgtgatggcataacaaatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgcaaataagttttaatgttacaattttaccagccctccatcaggtaaaatactaataatttgtttgttatattgataaaaaactcatggggggagcctttttcgggggataaaggtacgaataatatttgtgatggcataacaaatat Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: - Start: 30 End: 149 ............................. W G E M L Y F V L L K N T I N I F F E H P S G K E P S L P V F L I Q S P M V F M tgcaaataagttttaatgttacaattttaccagccctccatcaggtaaaatactaataatttgtttgttatattgataaaaaactcatggggggagcctttttcgggggataaaggtacgaataatatttgtgatggcataacaaatat 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================================================ tgcaaataagttttaatgttacaattttaccagccctccatcaggtaaaatactaataatttgtttgttatattgataaaaaactcatggggggagcctttttcgggggataaaggtacgaataatatttgtgatggcataacaaatat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0447:TF0448|TF0447:TF0448:hypothetical protein:hypothetical protein:->->:467655..467803 149 tgcaaataagttttaatgttacaattttaccagccctccatcaggtaaaatactaataatttgtttgttatattgataaaaaactcatggggggagcctttttcgggggataaaggtacgaataatatttgtgatggcataacaaatat Intra-Species Hit: Count: 1 Min: 1 Max: 149 Len: 149 Subject: tfor_TF0447_TF0448|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[467655,467803]|149 HSP 1 e-value: 2.0E-79 bit: 295.0 Len: 149 Query Start:1 Query End:149 Subject Strand: POSITIVE Subject Start: 1 Subject End: 149 tgcaaataagttttaatgttacaattttaccagccctccatcaggtaaaatactaataatttgtttgttatattgataaaaaactcatggggggagcctttttcgggggataaaggtacgaataatatttgtgatggcataacaaatat tgcaaataagttttaatgttacaattttaccagccctccatcaggtaaaatactaataatttgtttgttatattgataaaaaactcatggggggagcctttttcgggggataaaggtacgaataatatttgtgatggcataacaaatat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCAAAUAAGUUUUAAUGUUACAAUUUUACCAGCCCUCCAUCAGGUAAAAUACUAAUAAUUUGUUUGUUAUAUUGAUAAAAAACUCAUGGGGGGAGCCUUUUUCGGGGGAUAAAGGUACGAAUAAUAUUUGUGAUGGCAUAACAAAUAU .........(((....((((((((.........((((((((.((.((.((((.((((((.....))))))))))..)).....)).)))))))).((((((.((....)).))))))...........))))))))....)))...... (-30.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAUUUGUUAUGCCAUCACAAAUAUUAUUCGUACCUUUAUCCCCCGAAAAAGGCUCCCCCCAUGAGUUUUUUAUCAAUAUAACAAACAAAUUAUUAGUAUUUUACCUGAUGGAGGGCUGGUAAAAUUGUAACAUUAAAACUUAUUUGCA .....((((((((((..................(((((.((....)).)))))...(((((((.((.....(((.((((............)))).)))......)).)))).))).))))......))))))................ (-21.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 425 138 95 67 15 tfor:TF1609|5end_hypothetical_protein_1728340..1728570_POSITIVE 332 119 83 59 21 tfor:TF2256|5end_transfer_region-related_protein,_TraI_2427908..2428138_POSITIVE 320 122 85 218 180 tfor:TF0517|5end_TPR-repeat-containing_protein_540621..540851_POSITIVE 309 127 84 126 87 tfor:TF2766|5end_shikimate_kinase_2951619..2951849_POSITIVE 308 122 89 60 25 tfor:TF2244|5end_possible_mobilization_protein_2419425..2419655_POSITIVE 303 120 89 228 190 tfor:TF0321|5end_glycosyltransferase_347438..347668_POSITIVE 300 125 87 94 61 tfor:TF2363|5end_conserved_hypothetical_protein_2529271..2529501_POSITIVE 300 122 84 227 191 tfor:TF0474|5end_outer_membrane_efflux_protein_492104..492334_POSITIVE 297 120 91 222 189 tfor:TF3165|5end_thiol:disulfide_interchange_protein,_thioredoxin_family_protein_3404142..3404372_POSITIVE 291 121 86 171 134 tfor:TF1825|5end_mannose-6-phosphate_isomerase_1973578..1973808_POSITIVE 291 139 91 107 47 tfor:TF1678|5end_periplasmic_protease_1791097..1791327_POSITIVE 283 105 72 152 116 tfor:TF3136|5end_Na+-translocating_NADH-quinone_reductase,_subunit_F_3369994..3370224_POSITIVE 283 139 91 84 19 tfor:TF2241|5end_ATP-dependent_DNA_helicase_2415401..2415631_POSITIVE 282 138 96 200 150 tfor:TF2217|5end_hypothetical_protein_2389891..2390121_POSITIVE 278 111 88 41 17 tfor:TF3047|5end_transposase_3275285..3275515_POSITIVE 278 111 88 41 17 tfor:TF2303|5end_conserved_hypothetical_protein_2458252..2458482_POSITIVE 278 111 88 41 17 tfor:TF1390|5end_possible_transposase_1462894..1463124_POSITIVE 278 111 88 41 17 tfor:TF0940|5end_transposase_981262..981492_POSITIVE 276 118 71 148 88 tfor:TF2602|5end_tRNA-(5-methylaminomethyl-2-thiouridylate)_methyltransferase_2775086..2775316_POSITIVE 274 121 86 172 134 tfor:TF1981|5end_mannose-6-phosphate_isomerase_2130896..2131126_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 425 138 95 110 58 tfor:TF1608|3end_sulfate_transporter_1728463..1728613_POSITIVE 299 120 74 132 78 tfor:TF3068|3end_flavodoxin_A_3293383..3293533_POSITIVE 297 120 91 141 108 tfor:TF3164|3end_hypothetical_protein_3404141..3404291_POSITIVE 294 128 88 79 28 tfor:TF2922|3end_surface_antigen_BspA_3121538..3121688_POSITIVE 278 111 88 34 10 tfor:TF1389|3end_hypothetical_protein_1462967..1463117_POSITIVE 276 118 71 121 61 tfor:TF2601|3end_conserved_hypothetical_protein_2775139..2775289_POSITIVE 274 121 86 56 18 tfor:TF1980|3end_conserved_hypothetical_protein_2130860..2131010_POSITIVE 274 130 89 58 10 tfor:TF1014|3end_glucose-6-phosphate_isomerase_1072474..1072624_POSITIVE 272 139 91 101 51 tfor:TF0805|3end_possible_hydrolase,_HAD_superfamily_863627..863777_POSITIVE 270 139 98 68 30 tfor:TF0910|3end_Tn5520-like_integrase_(transfer_factor)_953778..953928_POSITIVE 268 123 84 87 39 tfor:TF0419|3end_conserved_hypothetical_protein_435794..435944_POSITIVE 266 123 84 127 94 tfor:TF0582|3end_hemolysin-related_protein,_with_CBS_domains;_possible_gliding-motility_related_protein_613263..613413_POSITIVE 265 119 89 32 1 tfor:TF2255|3end_transfer_region-related_protein,_TraH_2427961..2428111_POSITIVE 265 111 89 88 66 tfor:TF2009|3end_octaprenyl-diphosphate_synthase_ispB_2163245..2163395_POSITIVE 265 124 84 57 11 tfor:TF0376|3end_conserved_hypothetical_protein_395024..395174_POSITIVE 263 139 91 151 105 tfor:TF1034|3end_conserved_hypothetical_protein_1095901..1096051_POSITIVE 258 120 81 79 42 tfor:TF1803|3end_conserved_hypothetical_protein_1947120..1947270_POSITIVE 257 107 72 144 116 tfor:TF3135|3end_hypothetical_protein_3370074..3370224_POSITIVE 255 122 88 131 92 tfor:TF2199|3end_outer_membrane_protein,_TonB-linked_2376639..2376789_POSITIVE 255 120 82 65 21 tfor:TF1688|3end_conserved_hypothetical_protein;_possible_periplasmic_protein_1804882..1805032_POSITIVE