Origin IGS: gcaaaatatatcgactgcatggctgttcgtccggtttacgataccgtattctcgaaaaaaacggaatctatcgaaacagcaatttgcattccgatgagga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tcctcatcggaatgcaaattgctgtttcgatagattccgtttttttcgagaatacggtatcgtaaaccggacgaacagccatgcagtcgatatattttgc Mask Tandem Repeat Region ================================================ gcaaaatatatcgactgcatggctgttcgtccggtttacgataccgtattctcgaaaaaaacggaatctatcgaaacagcaatttgcattccgatgagga Find is-nt database================================================ Query_seq: TF1218:TF1219|TF1218:TF1219:hypothetical protein:conserved hypothetical protein:->->:1304444..1304543 100 gcaaaatatatcgactgcatggctgttcgtccggtttacgataccgtattctcgaaaaaaacggaatctatcgaaacagcaatttgcattccgatgagga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1218:TF1219|TF1218:TF1219:hypothetical protein:conserved hypothetical protein:->->:1304444..1304543 100 gcaaaatatatcgactgcatggctgttcgtccggtttacgataccgtattctcgaaaaaaacggaatctatcgaaacagcaatttgcattccgatgagga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1218:TF1219|TF1218:TF1219:hypothetical protein:conserved hypothetical protein:->->:1304444..1304543 100 gcaaaatatatcgactgcatggctgttcgtccggtttacgataccgtattctcgaaaaaaacggaatctatcgaaacagcaatttgcattccgatgagga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gcaaaatatatcgactgcatggctgttcgtccggtttacgataccgtattctcgaaaaaaacggaatctatcgaaacagcaatttgcattccgatgagga Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 6 End: 98 ..... M Y R L H G C S S G L R Y R I L E K N G I Y R N S N L H S D E .. Protein_Len: 30 Strand: + Start: 10 End: 99 ......... M D C M A V R P V Y D T V F S K K T E S I E T A I C I P M R . gcaaaatatatcgactgcatggctgttcgtccggtttacgataccgtattctcgaaaaaaacggaatctatcgaaacagcaatttgcattccgatgagga 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================================================ gcaaaatatatcgactgcatggctgttcgtccggtttacgataccgtattctcgaaaaaaacggaatctatcgaaacagcaatttgcattccgatgagga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1218:TF1219|TF1218:TF1219:hypothetical protein:conserved hypothetical protein:->->:1304444..1304543 100 gcaaaatatatcgactgcatggctgttcgtccggtttacgataccgtattctcgaaaaaaacggaatctatcgaaacagcaatttgcattccgatgagga Intra-Species Hit: Count: 1 Min: 1 Max: 100 Len: 100 Subject: tfor_TF1218_TF1219|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1304444,1304543]|100 HSP 1 e-value: 8.0E-38 bit: 157.0 Len: 100 Query Start:1 Query End:100 Subject Strand: POSITIVE Subject Start: 1 Subject End: 100 gcaaaatatatcgactgcatggctgttcgtccggtttacgataccgtattctcgnnnnnnncggaatctatcgaaacagcaatttgcattccgatgagga gcaaaatatatcgactgcatggctgttcgtccggtttacgataccgtattctcgaaaaaaacggaatctatcgaaacagcaatttgcattccgatgagga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCAAAAUAUAUCGACUGCAUGGCUGUUCGUCCGGUUUACGAUACCGUAUUCUCGAAAAAAACGGAAUCUAUCGAAACAGCAAUUUGCAUUCCGAUGAGGA ........(((((..((((..((((((((((((.(((.(((..........))).)))...))))......)).))))))....))))...))))).... (-23.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCCUCAUCGGAAUGCAAAUUGCUGUUUCGAUAGAUUCCGUUUUUUUCGAGAAUACGGUAUCGUAAACCGGACGAACAGCCAUGCAGUCGAUAUAUUUUGC .....(((((..((((....((((((.((....((((((.......)).)))).((((.......))))..))))))))..)))).)))))......... (-23.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 391 56 12 82 29 tfor:TF2008|5end_DNA_polymerase_I_2159302..2159532_POSITIVE 391 40 1 99 54 tfor:TF0586|5end_conserved_hypothetical_protein_617313..617543_POSITIVE 370 56 11 225 167 tfor:TF1835|5end_possible_dihydroxy-acid_dehydratase_1984201..1984431_POSITIVE 368 79 34 208 161 tfor:TF2332|5end_signal_peptidase_I_2491694..2491924_POSITIVE 357 55 12 51 1 tfor:TF0437|5end_conserved_hypothetical_protein_460923..461153_POSITIVE 352 49 9 171 119 tfor:TF1891|5end_hypothetical_protein_2043389..2043619_POSITIVE 351 55 12 209 166 tfor:TF0248|5end_hypothetical_protein_278249..278479_POSITIVE 344 58 12 60 4 tfor:TF2792|5end_30S_ribosomal_protein_S15_2977253..2977483_POSITIVE 341 56 13 55 13 tfor:TF0995|5end_conserved_hypothetical_protein_1049695..1049925_POSITIVE 339 49 7 76 29 tfor:TF1740|5end_hypothetical_protein_1868645..1868875_POSITIVE 338 55 11 141 88 tfor:TF0674|5end_transposase_fragment_717199..717429_POSITIVE 336 46 12 61 26 tfor:TF1200|5end_conserved_hypothetical_protein_1282717..1282947_POSITIVE 335 54 11 86 42 tfor:TF0961|5end_translation_initiation_inhibitor,_endoribonuclease_activity_1010445..1010675_POSITIVE 330 47 1 214 170 tfor:TF0140|5end_exodeoxyribonuclease_VII,_small_subunit_148203..148433_POSITIVE 324 66 22 196 148 tfor:TF3123|5end_dTDP-4-dehydrorhamnose_3,5-epimerase_3357775..3358005_POSITIVE 324 55 11 198 144 tfor:TF2946|5end_conserved_hypothetical_protein;_possible_ATPase_3151750..3151980_POSITIVE 323 47 1 231 171 tfor:TF1790|5end_conserved_hypothetical_protein_1931227..1931457_POSITIVE 322 48 15 231 198 tfor:TF3065|5end_enolase_3291055..3291285_POSITIVE 318 55 11 65 30 tfor:TF1841|5end_hypothetical_protein_1991936..1992166_POSITIVE 318 47 1 105 48 tfor:TF1577|5end_hypothetical_protein_1685960..1686190_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 362 53 15 89 47 tfor:TF3064|3end_oxidoreductase,_aldo/keto_reductase_family_3290984..3291134_POSITIVE 341 56 13 62 20 tfor:TF0994|3end_maltose_O-acetyltransferase_1049782..1049932_POSITIVE 336 46 12 61 26 tfor:TF1199|3end_dephospho-CoA_kinase_1282797..1282947_POSITIVE 335 54 11 67 23 tfor:TF0960|3end_beta-galactosidase_1010506..1010656_POSITIVE 324 66 22 84 36 tfor:TF3122|3end_ABC_transporter,_ATP-binding_protein_3357743..3357893_POSITIVE 324 47 9 47 6 tfor:TF2159|3end_conserved_hypothetical_protein_2336076..2336226_POSITIVE 323 47 1 128 68 tfor:TF1789|3end_conserved_hypothetical_protein_1931204..1931354_POSITIVE 317 50 8 148 89 tfor:TF1598|3end_conserved_hypothetical_protein_1713659..1713809_POSITIVE 315 49 10 51 17 tfor:TF2343|3end_ribosome_recycling_factor_2507502..2507652_POSITIVE 314 40 13 43 17 tfor:TF1268|3end_conserved_hypothetical_protein_1354635..1354785_POSITIVE 307 55 15 107 69 tfor:TF2230|3end_CTn_excision_protein_2400394..2400544_POSITIVE 303 49 15 128 84 tfor:TF2803|3end_dehydrogenase,_possible_NADH-dependent_dehydrogenase_2993467..2993617_POSITIVE 303 48 10 102 57 tfor:TF1325|3end_L-fucose_isomerase_1405870..1406020_POSITIVE 296 54 19 33 1 tfor:TF1148|3end_para-aminobenzoate_synthase_component_I_1229267..1229417_POSITIVE 295 40 10 151 115 tfor:TF2945|3end_DNA-directed_RNA_polymerase_beta'_subunit_3151802..3151952_POSITIVE 292 48 1 127 70 tfor:TF3053|3end_conserved_hypothetical_protein_3278889..3279039_POSITIVE 292 58 12 57 2 tfor:TF0140|3end_exodeoxyribonuclease_VII,_small_subunit_148483..148633_POSITIVE 290 56 12 117 54 tfor:TF2900|3end_conserved_hypothetical_protein_3090029..3090179_POSITIVE 290 54 21 37 2 tfor:TF1173|3end_ABC_transporter,_permease_component_1256651..1256801_POSITIVE 289 46 10 109 79 tfor:TF0478|3end_conserved_hypothetical_protein_498627..498777_POSITIVE