Origin IGS: atctttttgtttttatgaggatttgtcgattgttttttccaatcgtacgacaaagatacgattattttaggtgagttctaaaaaattaaagtagtcacaagtta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taacttgtgactactttaattttttagaactcacctaaaataatcgtatctttgtcgtacgattggaaaaaacaatcgacaaatcctcataaaaacaaaaagat Mask Tandem Repeat Region ================================================ atctttttgtttttatgaggatttgtcgattgttttttccaatcgtacgacaaagatacgattattttaggtgagttctaaaaaattaaagtagtcacaagtta Find is-nt database================================================ Query_seq: TF1722:TF1723|TF1722:TF1723:conserved hypothetical protein:alpha-rhamnosidase:->->:1848532..1848635 104 atctttttgtttttatgaggatttgtcgattgttttttccaatcgtacgacaaagatacgattattttaggtgagttctaaaaaattaaagtagtcacaagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1722:TF1723|TF1722:TF1723:conserved hypothetical protein:alpha-rhamnosidase:->->:1848532..1848635 104 atctttttgtttttatgaggatttgtcgattgttttttccaatcgtacgacaaagatacgattattttaggtgagttctaaaaaattaaagtagtcacaagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1722:TF1723|TF1722:TF1723:conserved hypothetical protein:alpha-rhamnosidase:->->:1848532..1848635 104 atctttttgtttttatgaggatttgtcgattgttttttccaatcgtacgacaaagatacgattattttaggtgagttctaaaaaattaaagtagtcacaagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atctttttgtttttatgaggatttgtcgattgttttttccaatcgtacgacaaagatacgattattttaggtgagttctaaaaaattaaagtagtcacaagtta Predict ORF larger than 30AA ================================================ atctttttgtttttatgaggatttgtcgattgttttttccaatcgtacgacaaagatacgattattttaggtgagttctaaaaaattaaagtagtcacaagtta 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================================================ atctttttgtttttatgaggatttgtcgattgttttttccaatcgtacgacaaagatacgattattttaggtgagttctaaaaaattaaagtagtcacaagtta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1722:TF1723|TF1722:TF1723:conserved hypothetical protein:alpha-rhamnosidase:->->:1848532..1848635 104 atctttttgtttttatgaggatttgtcgattgttttttccaatcgtacgacaaagatacgattattttaggtgagttctaaaaaattaaagtagtcacaagtta Intra-Species Hit: Count: 1 Min: 1 Max: 104 Len: 104 Subject: tfor_TF1722_TF1723|conserved hypothetical protein:alpha-rhamnosidase|POSITIVE:POSITIVE|[1848532, 1848635]|104 HSP 1 e-value: 1.0E-52 bit: 206.0 Len: 104 Query Start:1 Query End:104 Subject Strand: POSITIVE Subject Start: 1 Subject End: 104 atctttttgtttttatgaggatttgtcgattgttttttccaatcgtacgacaaagatacgattattttaggtgagttctaaaaaattaaagtagtcacaagtta atctttttgtttttatgaggatttgtcgattgttttttccaatcgtacgacaaagatacgattattttaggtgagttctaaaaaattaaagtagtcacaagtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCUUUUUGUUUUUAUGAGGAUUUGUCGAUUGUUUUUUCCAAUCGUACGACAAAGAUACGAUUAUUUUAGGUGAGUUCUAAAAAAUUAAAGUAGUCACAAGUUA ...................(((((((.(((((((((....((((((((......).))))))).(((((((.....)))))))....)))))))))))))))). (-18.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACUUGUGACUACUUUAAUUUUUUAGAACUCACCUAAAAUAAUCGUAUCUUUGUCGUACGAUUGGAAAAAACAAUCGACAAAUCCUCAUAAAAACAAAAAGAU ....((((((...........((((((.......))))))................((.((((((.......))))))))......))))))............ (-13.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 314 68 27 115 69 tfor:TF3018|5end_polyphosphate_kinase_3240122..3240352_POSITIVE 303 58 16 223 186 tfor:TF0766|5end_hypothetical_protein_811934..812164_POSITIVE 262 58 19 188 143 tfor:TF2342|5end_glutathione_peroxidase_2505963..2506193_POSITIVE 257 50 8 125 83 tfor:TF1682|5end_hydrolase_1796409..1796639_POSITIVE 256 80 33 136 83 tfor:TF2752|5end_endonuclease_III_2936781..2937011_POSITIVE 253 60 19 87 42 tfor:TF0701|5end_Fe-S-cluster_redox_enzyme_743799..744029_POSITIVE 249 60 16 144 96 tfor:TF2157|5end_conserved_hypothetical_protein_2332915..2333145_POSITIVE 246 60 17 155 101 tfor:TF0546|5end_conserved_hypothetical_protein_576380..576610_POSITIVE 245 60 15 80 42 tfor:TF0694|5end_possible_hemolysin,_acyltransferase_family_738197..738427_POSITIVE 240 79 42 126 87 tfor:TF2794|5end_possible_transcriptional_regulator_2979938..2980168_POSITIVE 237 49 5 144 99 tfor:TF2876|5end_cytosine_deaminase_3065144..3065374_POSITIVE 235 74 43 141 114 tfor:TF0650|5end_serine/threonine-protein_kinase_691442..691672_POSITIVE 234 74 38 221 170 tfor:TF0596|5end_conserved_hypothetical_protein_628033..628263_POSITIVE 234 68 22 131 94 tfor:TF0228|5end_probable_integral_outer_membrane_protein_253851..254081_POSITIVE 233 75 38 76 42 tfor:TF2545|5end_hypothetical_protein_2729053..2729283_POSITIVE 231 60 22 107 70 tfor:TF0676|5end_methyltransferase_719027..719257_POSITIVE 230 49 6 71 25 tfor:TF0414|5end_N-ethylammeline_chlorohydrolase_431789..432019_POSITIVE 229 51 17 132 94 tfor:TF1066|5end_hypothetical_protein_1136545..1136775_POSITIVE 226 63 24 162 117 tfor:TF1657|5end_lauroyl/myristoyl_acyltransferase_1772425..1772655_POSITIVE 225 50 5 124 80 tfor:TF1801|5end_conserved_hypothetical_protein;_possible_TPR-repeat-containing_protein_1944213..1944443_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 257 50 8 147 105 tfor:TF1683|3end_conserved_hypothetical_protein_1796511..1796661_POSITIVE 256 80 33 90 37 tfor:TF2751|3end_phenylalanyl-tRNA_synthetase,_alpha_subunit_2936815..2936965_POSITIVE 246 60 17 148 94 tfor:TF0545|3end_glucose-inhibited_division_protein_B_576453..576603_POSITIVE 241 48 16 61 25 tfor:TF0751|3end_dipeptidyl_peptidase_IV_800830..800980_POSITIVE 237 49 5 144 99 tfor:TF2874|3end_conserved_hypothetical_protein_3065224..3065374_POSITIVE 237 49 16 141 106 tfor:TF2156|3end_conserved_hypothetical_protein;_possible_protease_2333005..2333155_POSITIVE 235 50 8 122 76 tfor:TF2135|3end_conserved_hypothetical_protein_2311635..2311785_POSITIVE 235 74 43 57 30 tfor:TF0649|3end_protein_serine/threonine_phosphatase_691438..691588_POSITIVE 234 68 22 47 10 tfor:TF0226|3end_hypothetical_protein_253847..253997_POSITIVE 230 46 7 81 38 tfor:TF0883|3end_hypothetical_protein_937472..937622_POSITIVE 230 49 6 71 25 tfor:TF0413|3end_succinyl-diaminopimelate_desuccinylase_431869..432019_POSITIVE 229 51 17 135 97 tfor:TF1065|3end_conserved_hypothetical_protein_1136628..1136778_POSITIVE 225 50 5 82 38 tfor:TF1800|3end_conserved_hypothetical_protein_1944251..1944401_POSITIVE 224 47 2 116 52 tfor:TF1329|3end_glucose-1-phosphate_thymidyltransferase_1409545..1409695_POSITIVE 222 58 11 75 12 tfor:TF1430|3end_hypothetical_protein_1515153..1515303_POSITIVE 222 49 6 52 12 tfor:TF1326|3end_hypothetical_protein_1404100..1404250_POSITIVE 218 46 3 144 96 tfor:TF0463|3end_precorrin-6Y_C5,15-methyltransferase_480291..480441_POSITIVE 217 61 21 72 37 tfor:TF2396|3end_dimethyladenosine_transferase_2568617..2568767_POSITIVE 216 68 21 62 16 tfor:TF3019|3end_tRNA_and_rRNA_cytosine-C5-methylase_3243587..3243737_POSITIVE 216 67 21 93 48 tfor:TF0183|3end_conserved_hypothetical_protein_196567..196717_POSITIVE