Origin IGS: atcctatagaaaaggagtagaaaatgaaaattttctgctcctttttactaaaataactataaattcttgacagctaggcctttgtccattaagataataataaagataatagataatgaggaaaatgca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgcattttcctcattatctattatctttattattatcttaatggacaaaggcctagctgtcaagaatttatagttattttagtaaaaaggagcagaaaattttcattttctactccttttctataggat Mask Tandem Repeat Region ================================================ atcctatagaaaaggagtagaaaatgaaaattttctgctcctttttactaaaataactataaattcttgacagctaggcctttgtccattaagataataataaagataatagataatgaggaaaatgca Find is-nt database================================================ Query_seq: SMT_1808:SMT_1809|SMT_1808:SMT_1809:hypothetical protein predicted by Glimmer/Critica:MutT/NUDIX family protein:->->:1784613..1784741 129 atcctatagaaaaggagtagaaaatgaaaattttctgctcctttttactaaaataactataaattcttgacagctaggcctttgtccattaagataataataaagataatagataatgaggaaaatgca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1808:SMT_1809|SMT_1808:SMT_1809:hypothetical protein predicted by Glimmer/Critica:MutT/NUDIX family protein:->->:1784613..1784741 129 atcctatagaaaaggagtagaaaatgaaaattttctgctcctttttactaaaataactataaattcttgacagctaggcctttgtccattaagataataataaagataatagataatgaggaaaatgca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1808:SMT_1809|SMT_1808:SMT_1809:hypothetical protein predicted by Glimmer/Critica:MutT/NUDIX family protein:->->:1784613..1784741 129 atcctatagaaaaggagtagaaaatgaaaattttctgctcctttttactaaaataactataaattcttgacagctaggcctttgtccattaagataataataaagataatagataatgaggaaaatgca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atcctatagaaaaggagtagaaaatgaaaattttctgctcctttttactaaaataactataaattcttgacagctaggcctttgtccattaagataataataaagataatagataatgaggaaaatgca Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: - Start: 7 End: 126 ...... L F P T S F S F K R S R K V L I V I F E Q C S P R Q G N L Y Y Y L Y Y I I L F M ... atcctatagaaaaggagtagaaaatgaaaattttctgctcctttttactaaaataactataaattcttgacagctaggcctttgtccattaagataataataaagataatagataatgaggaaaatgca Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 88 Start: 66 End: 95 .................................................................CTTGACAGCTAGGCCTTTGTCCATTAAGAT.................................. PromScan Matrix: RpoD-17 Strand: + Score: 81 Start: 81 End: 110 ................................................................................TTTGTCCATTAAGATAATAATAAAGATAAT................... PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 97 End: 126 ................................................................................................ATTTTCCTCATTATCTATTATCTTTATTAT... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ atcctatagaaaaggagtagaaaatgaaaattttctgctcctttttactaaaataactataaattcttgacagctaggcctttgtccattaagataataataaagataatagataatgaggaaaatgca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1808:SMT_1809|SMT_1808:SMT_1809:hypothetical protein predicted by Glimmer/Critica:MutT/NUDIX family protein:->->:1784613..1784741 129 atcctatagaaaaggagtagaaaatgaaaattttctgctcctttttactaaaataactataaattcttgacagctaggcctttgtccattaagataataataaagataatagataatgaggaaaatgca Intra-Species Hit: Count: 1 Min: 1 Max: 129 Len: 129 Subject: smit_SMT_1808_SMT_1809|hypothetical protein predicted by Glimmer/Critica:MutT/NUDIX family protein|POSITIVE:POSITIVE|[1784613,1784741]|129 HSP 1 e-value: 2.0E-67 bit: 256.0 Len: 129 Query Start:1 Query End:129 Subject Strand: POSITIVE Subject Start: 1 Subject End: 129 atcctatagaaaaggagtagaaaatgaaaattttctgctcctttttactaaaataactataaattcttgacagctaggcctttgtccattaagataataataaagataatagataatgaggaaaatgca atcctatagaaaaggagtagaaaatgaaaattttctgctcctttttactaaaataactataaattcttgacagctaggcctttgtccattaagataataataaagataatagataatgaggaaaatgca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCCUAUAGAAAAGGAGUAGAAAAUGAAAAUUUUCUGCUCCUUUUUACUAAAAUAACUAUAAAUUCUUGACAGCUAGGCCUUUGUCCAUUAAGAUAAUAAUAAAGAUAAUAGAUAAUGAGGAAAAUGCA .((((...(((((((((((((((((....)))))))))))))))))..........((((....((((....((...))..(((((......))))).....))))..))))......))))....... (-31.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCAUUUUCCUCAUUAUCUAUUAUCUUUAUUAUUAUCUUAAUGGACAAAGGCCUAGCUGUCAAGAAUUUAUAGUUAUUUUAGUAAAAAGGAGCAGAAAAUUUUCAUUUUCUACUCCUUUUCUAUAGGAU .......((((.....(((((((...............)))))))........(((((((.........)))))))...(((..((((((((.(((((((....))))))).))))))))))).)))). (-23.36) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 239 47 8 140 107 smit:SMT_1045|5end_cochaperonin_GroES_987582..987812_NEGATIVE 237 78 39 62 9 smit:SMT_1407|5end_ribonuclease_HII_1386309..1386539_NEGATIVE 230 45 2 56 3 smit:SMT_1379|5end_thymidylate_kinase_1357438..1357668_NEGATIVE 215 96 64 55 29 smit:SMT_984|5end_transcriptional_regulator_Spx_930898..931128_NEGATIVE 214 109 65 182 144 smit:SMT_1519|5end_DNA-binding_response_regulator_VncR_1499662..1499892_NEGATIVE 212 96 64 205 175 smit:SMT_312|5end_acetyl-CoA_carboxylase,_biotin_carboxyl_carrier_protein_253361..253591_POSITIVE 211 79 34 139 93 smit:SMT_999|5end_hypothetical_protein_predicted_by_Glimmer/Critica_941642..941872_NEGATIVE 210 77 31 203 147 smit:SMT_805|5end_hypothetical_protein_predicted_by_Glimmer/Critica_715793..716023_NEGATIVE 203 90 56 74 30 smit:SMT_1510|5end_ribose_5-phosphate_isomerase_1493488..1493718_NEGATIVE 203 88 54 71 37 smit:SMT_465|5end_oxidoreductase,_short_chain_dehydrogenase/reductase_family_protein_403244..403474_POSITIVE 203 82 55 224 189 smit:SMT_432|5end_UDP-N-acetylglucosamine--N-acetylmuramyl-_(pentapeptide)_pyrophosphoryl-undecaprenol_N-acetylglucosamine_transferase_373553..373783_POSITIVE 203 88 54 71 37 smit:SMT_417|5end_short_chain_dehydrogenase_360373..360603_POSITIVE 201 90 56 92 57 smit:SMT_1010|5end_hypothetical_protein_948292..948522_POSITIVE 201 49 2 122 68 smit:SMT_857|5end_endo-beta-N-acetylglucosaminidase_802491..802721_NEGATIVE 200 18 3 153 138 smit:SMT_111|5end_alpha-1,2-mannosidase,_putative_61304..61534_NEGATIVE 199 92 67 37 10 smit:SMT_1955|5end_carbamoyl-phosphate_synthase_small_chain_1889408..1889638_NEGATIVE 199 47 2 145 95 smit:SMT_878|5end_excinuclease_ABC,_subunit_C_826249..826479_NEGATIVE 199 79 31 50 12 smit:SMT_583|5end_ATP_synthase_F1,_delta_subunit_499497..499727_POSITIVE 199 94 71 48 17 smit:SMT_117|5end_K02025_multiple_sugar_transport_system_permease_protein_68487..68717_POSITIVE 195 79 31 157 110 smit:SMT_1109|5end_hypothetical_protein_1050315..1050545_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 366 50 7 84 41 smit:SMT_1808|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1784552..1784702_POSITIVE 251 43 1 64 25 smit:SMT_1172|3end_hypothetical_protein_1119344..1119494_NEGATIVE 247 87 43 96 46 smit:SMT_1388|3end_hypothetical_protein_1365833..1365983_POSITIVE 239 47 8 84 51 smit:SMT_1046|3end_chaperonin_GroEL_987638..987788_NEGATIVE 237 78 39 75 22 smit:SMT_1408|3end_GTP-binding_protein_1386296..1386446_NEGATIVE 221 50 1 66 25 smit:SMT_972|3end_ABC-type_multidrug/protein/lipid_transport_system,_ATPase_component_919256..919406_NEGATIVE 216 49 5 97 54 smit:SMT_1290|3end_autolysin_1253753..1253903_POSITIVE 214 109 65 39 1 smit:SMT_1520|3end_K02004_1499805..1499955_NEGATIVE 214 49 3 89 51 smit:SMT_1170|3end_acetyltransferase,_CysE/LacA/LpxA/NodL_family_1117569..1117719_NEGATIVE 212 103 66 105 72 smit:SMT_1304|3end_hypothetical_protein_1268137..1268287_POSITIVE 210 77 31 129 73 smit:SMT_806|3end_hypothetical_protein_715867..716017_NEGATIVE 208 106 64 137 85 smit:SMT_304|3end_hypothetical_protein_247583..247733_POSITIVE 203 88 54 50 16 smit:SMT_464|3end_ribonuclease_Z_403303..403453_POSITIVE 203 88 54 50 16 smit:SMT_416|3end_ribonuclease_Z_360432..360582_POSITIVE 201 90 56 80 45 smit:SMT_1009|3end_hypothetical_protein_predicted_by_Glimmer/Critica_948360..948510_POSITIVE 201 49 2 88 34 smit:SMT_858|3end_triosephosphate_isomerase_802525..802675_NEGATIVE 200 18 3 79 64 smit:SMT_112|3end_hypothetical_protein_predicted_by_Glimmer/Critica_61378..61528_NEGATIVE 199 50 6 88 45 smit:SMT_1648|3end_hypothetical_protein_1634883..1635033_POSITIVE 199 47 2 106 56 smit:SMT_879|3end_hypothetical_protein_826288..826438_NEGATIVE 199 79 31 50 12 smit:SMT_582|3end_ATP_synthase_F0,_B_subunit_499577..499727_POSITIVE