Origin IGS: ttaattaannnnntggtaaaaatggtaaattggctgacttgaatgacctcttcacagatgactttttaaagatgtcamcaatgaaaacatgtaaaagcaagtaaggctggagacaaagcctac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gtaggctttgtctccagccttacttgcttttacatgttttcattgktgacatctttaaaaagtcatctgtgaagaggtcattcaagtcagccaatttaccatttttaccannnnnttaattaa Mask Tandem Repeat Region ================================================ ttaattaannnnntggtaaaaatggtaaattggctgacttgaatgacctcttcacagatgactttttaaagatgtcamcaatgaaaacatgtaaaagcaagtaaggctggagacaaagcctac Find is-nt database================================================ Query_seq: SMT_1686:SMT_1687|SMT_1686:SMT_1687:hypothetical protein predicted by Glimmer/Critica:K02027 multiple sugar transport system substrate-binding protein:->->:1670417..1670539 123 ttaattaannnnntggtaaaaatggtaaattggctgacttgaatgacctcttcacagatgactttttaaagatgtcamcaatgaaaacatgtaaaagcaagtaaggctggagacaaagcctac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1686:SMT_1687|SMT_1686:SMT_1687:hypothetical protein predicted by Glimmer/Critica:K02027 multiple sugar transport system substrate-binding protein:->->:1670417..1670539 123 ttaattaannnnntggtaaaaatggtaaattggctgacttgaatgacctcttcacagatgactttttaaagatgtcamcaatgaaaacatgtaaaagcaagtaaggctggagacaaagcctac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1686:SMT_1687|SMT_1686:SMT_1687:hypothetical protein predicted by Glimmer/Critica:K02027 multiple sugar transport system substrate-binding protein:->->:1670417..1670539 123 ttaattaannnnntggtaaaaatggtaaattggctgacttgaatgacctcttcacagatgactttttaaagatgtcamcaatgaaaacatgtaaaagcaagtaaggctggagacaaagcctac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttaattaannnnntggtaaaaatggtaaattggctgacttgaatgacctcttcacagatgactttttaaagatgtcamcaatgaaaacatgtaaaagcaagtaaggctggagacaaagcctac Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: - Start: 8 End: 100 ....... X X P L F P L N A S K F S R K V S S K K F I D X I F V H L L M ....................... ttaattaannnnntggtaaaaatggtaaattggctgacttgaatgacctcttcacagatgactttttaaagatgtcamcaatgaaaacatgtaaaagcaagtaaggctggagacaaagcctac 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================================================ ttaattaannnnntggtaaaaatggtaaattggctgacttgaatgacctcttcacagatgactttttaaagatgtcamcaatgaaaacatgtaaaagcaagtaaggctggagacaaagcctac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1686:SMT_1687|SMT_1686:SMT_1687:hypothetical protein predicted by Glimmer/Critica:K02027 multiple sugar transport system substrate-binding protein:->->:1670417..1670539 123 ttaattaannnnntggtaaaaatggtaaattggctgacttgaatgacctcttcacagatgactttttaaagatgtcamcaatgaaaacatgtaaaagcaagtaaggctggagacaaagcctac Intra-Species Hit: Count: 1 Min: 14 Max: 123 Len: 110 Subject: smit_SMT_1686_SMT_1687|hypothetical protein predicted by Glimmer/Critica:K02027 multiple sugar transport system substrate-binding protein|POSITIVE:POSITIVE|[1670417,1670539]|123 HSP 1 e-value: 2.0E-55 bit: 215.0 Len: 110 Query Start:14 Query End:123 Subject Strand: POSITIVE Subject Start: 14 Subject End: 123 .............tggtaaaaatggtaaattggctgacttgaatgacctcttcacagatgactttttaaagatgtcamcaatgaaaacatgtaaaagcaagtaaggctggagacaaagcctac .............tggtaaaaatggtaaattggctgacttgaatgacctcttcacagatgactttttaaagatgtcamcaatgaaaacatgtaaaagcaagtaaggctggagacaaagcctac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGGUAAAAAUGGUAAAUUGGCUGACUUGAAUGACCUCUUCACAGAUGACUUUUUAAAGAUGUCAMCAAUGAAAACAUGUAAAAGCAAGUAAGGCUGGAGACAAAGCCUAC .(((...(((.....))).))).(((((....((...((((..(.((((...........)))).)..)))).....)).....))))).((((((....)..))))).. (-17.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUAGGCUUUGUCUCCAGCCUUACUUGCUUUUACAUGUUUUCAUUGKUGACAUCUUUAAAAAGUCAUCUGUGAAGAGGUCAUUCAAGUCAGCCAAUUUACCAUUUUUACCA ..(((((........)))))..((.((((....((.(((((((.(.((((...........)))).).))))))).)).....)))).)).................... (-17.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 256 64 29 60 23 smit:SMT_1896|5end_lysine_decarboxylase_1848735..1848965_NEGATIVE 233 110 77 133 104 smit:SMT_1352|5end_formamidopyrimidine-DNA_glycosylase_1330641..1330871_NEGATIVE 226 62 27 155 125 smit:SMT_1092|5end_transcription_antitermination_factor_1033696..1033926_NEGATIVE 224 107 83 130 98 smit:SMT_1775|5end_K07478_putative_ATPase_1751836..1752066_NEGATIVE 219 109 70 62 4 smit:SMT_1049|5end_hypothetical_protein_988438..988668_POSITIVE 218 109 69 63 16 smit:SMT_327|5end_hypothetical_protein_263953..264183_POSITIVE 216 59 11 138 87 smit:SMT_941|5end_hypothetical_protein_893558..893788_NEGATIVE 216 49 1 61 25 smit:SMT_476|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_414134..414364_NEGATIVE 214 45 1 113 54 smit:SMT_1965|5end_hypothetical_protein_1897044..1897274_POSITIVE 214 45 1 113 54 smit:SMT_74|5end_hypothetical_protein_2197..2427_NEGATIVE 213 52 12 188 144 smit:SMT_1011|5end_xanthine_phosphoribosyltransferase_948831..949061_POSITIVE 212 49 20 60 32 smit:SMT_1181|5end_phosphotransferase_system,_mannose/fructose-specific_component_IIA_1139817..1140047_NEGATIVE 211 42 1 57 10 smit:SMT_1870|5end_K07566_putative_translation_factor_1829819..1830049_NEGATIVE 208 41 10 41 7 smit:SMT_1719|5end_DNA_mismatch_repair_protein_1706842..1707072_NEGATIVE 208 109 84 140 113 smit:SMT_1700|5end_diaminopimelate_decarboxylase_1682032..1682262_POSITIVE 208 41 2 90 47 smit:SMT_294|5end_alpha-glucosidase,_family_31_of_glycosyl_hydrolase_237165..237395_POSITIVE 207 47 10 74 28 smit:SMT_603|5end_hypothetical_protein_517961..518191_POSITIVE 206 50 11 137 92 smit:SMT_791|5end_thiamine_biosynthesis_protein_ThiI_702377..702607_NEGATIVE 206 110 74 61 16 smit:SMT_400|5end_hypothetical_protein_329090..329320_POSITIVE 205 47 3 215 159 smit:SMT_1837|5end_adenylosuccinate_synthetase_1805033..1805263_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 233 110 77 84 55 smit:SMT_1353|3end_GTP-binding_protein_1330690..1330840_NEGATIVE 226 62 27 101 71 smit:SMT_1093|3end_K03073_preprotein_translocase_SecE_subunit_1033750..1033900_NEGATIVE 224 107 83 74 42 smit:SMT_1776|3end_K07707_two-component_system,_AgrA_family,_response_regulator_AgrA_1751892..1752042_NEGATIVE 219 109 70 65 7 smit:SMT_1048|3end_K06518_holin-like_protein_988521..988671_POSITIVE 212 97 51 82 35 smit:SMT_1186|3end_hypothetical_protein_1144886..1145036_POSITIVE 212 49 20 56 28 smit:SMT_1182|3end_K02796_PTS_system,_mannose-specific_IID_component_1139821..1139971_NEGATIVE 211 42 1 73 26 smit:SMT_1871|3end_modification_methylase,_HemK_family_1829803..1829953_NEGATIVE 208 109 84 73 46 smit:SMT_1699|3end_purine_operon_repressor_1682045..1682195_POSITIVE 206 50 11 56 11 smit:SMT_792|3end_hypothetical_protein_predicted_by_Glimmer/Critica_702458..702608_NEGATIVE 206 110 74 47 2 smit:SMT_399|3end_cytochrome_c-type_biogenesis_protein_CcdA_329156..329306_POSITIVE 204 47 17 48 11 smit:SMT_2066|3end_K02074_zinc/manganese_transport_system_ATP-binding_protein_1973346..1973496_POSITIVE 202 49 18 77 47 smit:SMT_2033|3end_hydrolase,_haloacid_dehalogenase-like_family_1946739..1946889_POSITIVE 201 58 14 103 46 smit:SMT_742|3end_hypothetical_protein_645784..645934_NEGATIVE 196 109 93 150 131 smit:SMT_1589|3end_hypothetical_protein_1578606..1578756_POSITIVE 195 59 17 98 45 smit:SMT_1948|3end_IS1381_transposase_protein_A_1883581..1883731_POSITIVE 192 60 19 98 48 smit:SMT_1636|3end_5-formyltetrahydrofolate_cyclo-ligase_family_protein_1623187..1623337_POSITIVE 191 107 78 76 50 smit:SMT_162|3end_hypothetical_protein_107134..107284_POSITIVE 190 50 10 136 85 smit:SMT_1608|3end_hypothetical_protein_1598196..1598346_POSITIVE 189 106 79 68 34 smit:SMT_1322|3end_K02075_zinc/manganese_transport_system_permease_protein_1292257..1292407_POSITIVE 189 51 19 122 82 smit:SMT_357|3end_tRNA_(guanine-N7-)-methyltransferase_293900..294050_POSITIVE