Origin IGS: aattaaactttgagtccacttaaaaaagttgcattaatttgatttgcaaagatactctttttatagaaaaaagaaatgattcgactgtttattttttaccatttgtaatggaaatttatttgtacgaacattcaaatcattaggct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agcctaatgatttgaatgttcgtacaaataaatttccattacaaatggtaaaaaataaacagtcgaatcatttcttttttctataaaaagagtatctttgcaaatcaaattaatgcaacttttttaagtggactcaaagtttaatt Mask Tandem Repeat Region ================================================ aattaaactttgagtccacttaaaaaagttgcattaatttgatttgcaaagatactctttttatagaaaaaagaaatgattcgactgtttattttttaccatttgtaatggaaatttatttgtacgaacattcaaatcattaggct Find is-nt database================================================ Query_seq: TF3062:TF3063|TF3062:TF3063:conserved hypothetical protein:ferredoxin-type protein:->->:3288173..3288318 146 aattaaactttgagtccacttaaaaaagttgcattaatttgatttgcaaagatactctttttatagaaaaaagaaatgattcgactgtttattttttaccatttgtaatggaaatttatttgtacgaacattcaaatcattaggct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF3062:TF3063|TF3062:TF3063:conserved hypothetical protein:ferredoxin-type protein:->->:3288173..3288318 146 aattaaactttgagtccacttaaaaaagttgcattaatttgatttgcaaagatactctttttatagaaaaaagaaatgattcgactgtttattttttaccatttgtaatggaaatttatttgtacgaacattcaaatcattaggct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF3062:TF3063|TF3062:TF3063:conserved hypothetical protein:ferredoxin-type protein:->->:3288173..3288318 146 aattaaactttgagtccacttaaaaaagttgcattaatttgatttgcaaagatactctttttatagaaaaaagaaatgattcgactgtttattttttaccatttgtaatggaaatttatttgtacgaacattcaaatcattaggct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aattaaactttgagtccacttaaaaaagttgcattaatttgatttgcaaagatactctttttatagaaaaaagaaatgattcgactgtttattttttaccatttgtaatggaaatttatttgtacgaacattcaaatcattaggct Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 33 End: 140 ................................ M N L I C K D T L F I E K R N D S T V Y F L P F V M E I Y L Y E H S N H ...... Protein_Len: 30 Strand: - Start: 6 End: 92 ..... * V K L G S L F T A N I Q N A F I S K K Y F F S I I R S N M ...................................................... aattaaactttgagtccacttaaaaaagttgcattaatttgatttgcaaagatactctttttatagaaaaaagaaatgattcgactgtttattttttaccatttgtaatggaaatttatttgtacgaacattcaaatcattaggct 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================================================ aattaaactttgagtccacttaaaaaagttgcattaatttgatttgcaaagatactctttttatagaaaaaagaaatgattcgactgtttattttttaccatttgtaatggaaatttatttgtacgaacattcaaatcattaggct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF3062:TF3063|TF3062:TF3063:conserved hypothetical protein:ferredoxin-type protein:->->:3288173..3288318 146 aattaaactttgagtccacttaaaaaagttgcattaatttgatttgcaaagatactctttttatagaaaaaagaaatgattcgactgtttattttttaccatttgtaatggaaatttatttgtacgaacattcaaatcattaggct Intra-Species Hit: Count: 1 Min: 1 Max: 146 Len: 146 Subject: tfor_TF3062_TF3063|conserved hypothetical protein:ferredoxin-type protein|POSITIVE:POSITIVE|[3288173,3288318]|146 HSP 1 e-value: 1.0E-77 bit: 289.0 Len: 146 Query Start:1 Query End:146 Subject Strand: POSITIVE Subject Start: 1 Subject End: 146 aattaaactttgagtccacttaaaaaagttgcattaatttgatttgcaaagatactctttttatagaaaaaagaaatgattcgactgtttattttttaccatttgtaatggaaatttatttgtacgaacattcaaatcattaggct aattaaactttgagtccacttaaaaaagttgcattaatttgatttgcaaagatactctttttatagaaaaaagaaatgattcgactgtttattttttaccatttgtaatggaaatttatttgtacgaacattcaaatcattaggct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUAAACUUUGAGUCCACUUAAAAAAGUUGCAUUAAUUUGAUUUGCAAAGAUACUCUUUUUAUAGAAAAAAGAAAUGAUUCGACUGUUUAUUUUUUACCAUUUGUAAUGGAAAUUUAUUUGUACGAACAUUCAAAUCAUUAGGCU ........((((((....))))))....(((((...........)))))......(((((((.....)))))))(((((((.((.(((((........((((.....))))..((......))..))))).)).)))))))..... (-19.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCCUAAUGAUUUGAAUGUUCGUACAAAUAAAUUUCCAUUACAAAUGGUAAAAAAUAAACAGUCGAAUCAUUUCUUUUUUCUAUAAAAAGAGUAUCUUUGCAAAUCAAAUUAAUGCAACUUUUUUAAGUGGACUCAAAGUUUAAUU .....((((((((((.((((..(............((((.....))))......)..)))).)))))))))).((((..(((((.((((((((.....((((...........))))))))))))..)))))...))))....... (-21.07) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 198 136 99 119 85 tfor:TF2921|5end_hypothetical_protein_3118498..3118728_POSITIVE 193 85 46 160 132 tfor:TF0999|5end_hypothetical_protein_1053028..1053258_POSITIVE 192 70 40 223 189 tfor:TF0229|5end_beta-galactosidase_254857..255087_POSITIVE 189 100 51 48 1 tfor:TF0635|5end_glucosylceramidase_precursor_669221..669451_POSITIVE 187 106 76 210 178 tfor:TF2831|5end_ABC_transporter,_permease_component_3021317..3021547_POSITIVE 184 61 36 145 121 tfor:TF1862|5end_hypothetical_protein_2018546..2018776_POSITIVE 183 87 46 131 86 tfor:TF2699|5end_hypothetical_protein_2872490..2872720_POSITIVE 183 87 46 116 71 tfor:TF2698|5end_hypothetical_protein_2872475..2872705_POSITIVE 183 127 81 176 135 tfor:TF2100|5end_hypothetical_protein_2273424..2273654_POSITIVE 182 120 78 203 160 tfor:TF0034|5end_outer_membrane_protein_32551..32781_POSITIVE 176 60 15 183 138 tfor:TF3144|5end_phosphomannomutase/phosphoglucomutase_3379356..3379586_POSITIVE 176 111 74 150 113 tfor:TF2691|5end_prephenate_dehydrogenase_2866406..2866636_POSITIVE 175 115 71 221 175 tfor:TF2900|5end_conserved_hypothetical_protein_3088252..3088482_POSITIVE 175 57 28 114 85 tfor:TF1848|5end_conserved_hypothetical_protein_1997589..1997819_POSITIVE 175 136 95 92 51 tfor:TF0135|5end_hypothetical_protein_146322..146552_POSITIVE 173 90 51 181 138 tfor:TF1697|5end_mobilizable_transposon,_excision_protein_1818326..1818556_POSITIVE 173 130 85 161 111 tfor:TF1233|5end_dihydrodipicolinate_synthase_1317885..1318115_POSITIVE 172 100 54 228 178 tfor:TF2451|5end_outer_membrane_protein,_OmpH_family_2629261..2629491_POSITIVE 172 60 11 198 135 tfor:TF1925|5end_hypothetical_protein_2074458..2074688_POSITIVE 172 60 11 155 92 tfor:TF1926|5end_hypothetical_protein_2074415..2074645_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 207 87 41 115 62 tfor:TF0228|3end_probable_integral_outer_membrane_protein_254809..254959_POSITIVE 193 85 46 29 1 tfor:TF0998|3end_[acyl-carrier-protein]_S-malonyltransferase_1052977..1053127_POSITIVE 183 127 81 91 50 tfor:TF2099|3end_D-tyrosyl-tRNA(Tyr)_deacylase_2273419..2273569_POSITIVE 175 57 28 111 82 tfor:TF1847|3end_hypothetical_protein_1997666..1997816_POSITIVE 175 136 95 104 63 tfor:TF0136|3end_transposase_element_146414..146564_POSITIVE 173 130 85 134 84 tfor:TF1232|3end_hypothetical_protein_1317938..1318088_POSITIVE 172 100 54 143 93 tfor:TF2450|3end_outer_membrane_protein_2629256..2629406_POSITIVE 172 129 85 106 59 tfor:TF1282|3end_tRNA_delta-2_isopentenylpyrophosphate_transferase_1367431..1367581_POSITIVE 171 87 56 151 112 tfor:TF2858|3end_hypothetical_protein_3044874..3045024_POSITIVE 171 66 45 116 98 tfor:TF2307|3end_two-component_system_sensor_histidine_kinase/response_2466777..2466927_POSITIVE 170 88 65 104 77 tfor:TF1628|3end_conserved_hypothetical_protein_1741576..1741726_POSITIVE 169 58 14 92 46 tfor:TF2214|3end_peptidyl-prolyl_cis-trans_isomerase_2387564..2387714_POSITIVE 169 88 46 63 24 tfor:TF1968|3end_conserved_hypothetical_protein_2115959..2116109_POSITIVE 167 57 11 150 102 tfor:TF0424|3end_outer_membrane_receptor,_TonB-linked_443122..443272_POSITIVE 166 112 74 122 81 tfor:TF1755|3end_periplasmic_protease_1892867..1893017_POSITIVE 165 81 45 69 35 tfor:TF1504|3end_conserved_hypothetical_protein_1610665..1610815_POSITIVE 164 109 80 128 101 tfor:TF1872|3end_ABC_transporter,_ATP-binding/permease_component_2026811..2026961_POSITIVE 164 109 80 128 101 tfor:TF1130|3end_ABC_transporter_ATP-binding_protein/permease_component_1207677..1207827_POSITIVE 162 130 82 72 21 tfor:TF3106|3end_hypothetical_protein_3338608..3338758_POSITIVE 161 87 63 105 76 tfor:TF1481|3end_ABC_transporter,_ATP-binding_protein_1575531..1575681_POSITIVE