Origin IGS: ggtttgttcacgttcgtcatttcctccaccaagaccaactccacgttgacrtccaacagcatcaatttcatcytttccagcacactggactggccgtcgttttacaaggtctagtccgacctagactcaggggtaccgagctcgaattctggcgtaatagcgaagaggcccgcaccgatcgcccttcccaacagttgcgcagcctgaatggcgaatggcgcctgannnnnttaattaattaannnnngaggatccccctgtgctaggatggtcacctagatcaggaaacagctatgaccccagtgtgctggaaagatagtaaaatagataagtgttaccytatctattttactatattttcttaaatttttctgaaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttttcagaaaaatttaagaaaatatagtaaaatagatarggtaacacttatctattttactatctttccagcacactggggtcatagctgtttcctgatctaggtgaccatcctagcacagggggatcctcnnnnnttaattaattaannnnntcaggcgccattcgccattcaggctgcgcaactgttgggaagggcgatcggtgcgggcctcttcgctattacgccagaattcgagctcggtacccctgagtctaggtcggactagaccttgtaaaacgacggccagtccagtgtgctggaaargatgaaattgatgctgttggaygtcaacgtggagttggtcttggtggaggaaatgacgaacgtgaacaaacc Mask Tandem Repeat Region ================================================ ggtttgttcacgttcgtcatttcctccaccaagaccaactccacgttgacrtccaacagcatcaatttcatcytttccagcacactggactggccgtcgttttacaaggtctagtccgacctagactcaggggtaccgagctcgaattctggcgtaatagcgaagaggcccgcaccgatcgcccttcccaacagttgcgcagcctgaatggcgaatggcgcctgannnnnttaattaattaannnnngaggatccccctgtgctaggatggtcacctagatcaggaaacagctatgaccccagtgtgctggaaagatagtaaaatagataagtgttaccytatctattttactatattttcttaaatttttctgaaaa Find is-nt database================================================ Query_seq: SMT_1927:SMT_1928|SMT_1927:SMT_1928:cell division protein FtsH:O-methyltransferase family protein:<-<-:1868870..1869247 378 ggtttgttcacgttcgtcatttcctccaccaagaccaactccacgttgacrtccaacagcatcaatttcatcytttccagcacactggactggccgtcgttttacaaggtctagtccgacctagactcaggggtaccgagctcgaattctggcgtaatagcgaagaggcccgcaccgatcgcccttcccaacagttgcgcagcctgaatggcgaatggcgcctgannnnnttaattaattaannnnngaggatccccctgtgctaggatggtcacctagatcaggaaacagctatgaccccagtgtgctggaaagatagtaaaatagataagtgttaccytatctattttactatattttcttaaatttttctgaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1927:SMT_1928|SMT_1927:SMT_1928:cell division protein FtsH:O-methyltransferase family protein:<-<-:1868870..1869247 378 ggtttgttcacgttcgtcatttcctccaccaagaccaactccacgttgacrtccaacagcatcaatttcatcytttccagcacactggactggccgtcgttttacaaggtctagtccgacctagactcaggggtaccgagctcgaattctggcgtaatagcgaagaggcccgcaccgatcgcccttcccaacagttgcgcagcctgaatggcgaatggcgcctgannnnnttaattaattaannnnngaggatccccctgtgctaggatggtcacctagatcaggaaacagctatgaccccagtgtgctggaaagatagtaaaatagataagtgttaccytatctattttactatattttcttaaatttttctgaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1927:SMT_1928|SMT_1927:SMT_1928:cell division protein FtsH:O-methyltransferase family protein:<-<-:1868870..1869247 378 ggtttgttcacgttcgtcatttcctccaccaagaccaactccacgttgacrtccaacagcatcaatttcatcytttccagcacactggactggccgtcgttttacaaggtctagtccgacctagactcaggggtaccgagctcgaattctggcgtaatagcgaagaggcccgcaccgatcgcccttcccaacagttgcgcagcctgaatggcgaatggcgcctgannnnnttaattaattaannnnngaggatccccctgtgctaggatggtcacctagatcaggaaacagctatgaccccagtgtgctggaaagatagtaaaatagataagtgttaccytatctattttactatattttcttaaatttttctgaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 2 Min: 84 Max: 224 Len: 141 Subject: UniRef90_A0ZLG1 Cluster: Beta-D-galactosidase; n=1; Nodularia spumigena CCY9414|Rep: Beta-D-galactosidase - Nodularia spumigena CCY9414 HSP 1 e-value: 4.0E-19 bit: 95.9 Len: 141 Query Start:84 Query End:224 Subject Strand: null Subject Start: 25 Subject End: 71 ................................................................................... T G L A V V L Q G L V R P R L R G T E L E F W R N S E E A R T D R P S Q Q L R S L N G E W R L .......................................................................................................................................................... ................................................................................... T G L A V V L Q G L V R P R L T G T E L E F W R N S E E A R T D R P S Q Q L R S L N G E W R L .......................................................................................................................................................... Subject: UniRef90_Q8GEG0 Cluster: Hypothetical protein; n=1; Erwinia amylovora|Rep: Hypothetical protein - Erwinia amylovora (Fire blight bacteria) HSP 1 e-value: 1.0E-6 bit: 54.7 Len: 135 Query Start:87 Query End:221 Subject Strand: null Subject Start: 67 Subject End: 120 ...................................................................................... G L A V V L Q - - - - - - - G L V R P R L R G T E L E F - - W R N S E E A R T D R P S Q Q L R S L N G E W R ............................................................................................................................................................. ...................................................................................... G L A V V L Q R R D W E N P G V T Q L N R L A A H P P F A S W R N S E E A R T D R P S Q Q L R X L N G E W R ............................................................................................................................................................. ggtttgttcacgttcgtcatttcctccaccaagaccaactccacgttgacrtccaacagcatcaatttcatcytttccagcacnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnannnnnttaattaattaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtaaaatagataagtgttaccytatctattttactatattttcttaaatttttctgaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 4 End: 111 ... M F T F V I S S T K T N S T L T S N S I N F I X S S T L D W P S F Y K V ........................................................................................................................................................................................................................................................................... Protein_Len: 50 Strand: + Start: 90 End: 239 ......................................................................................... M A V V L Q G L V R P R L R G T E L E F W R N S E E A R T D R P S Q Q L R S L N G E W R L X X L I N ........................................................................................................................................... Protein_Len: 32 Strand: - Start: 114 End: 209 ................................................................................................................. D S R S E P T G L E F E P T I A F L G A G I A R G L L Q A A Q M ......................................................................................................................................................................... Protein_Len: 55 Strand: - Start: 71 End: 235 ...................................................................... X K W C V P S A T T K C P R T R G L S L P V S S S N Q R L L S S A R V S R G E W C N R L R F P S H R R X X X M ............................................................................................................................................... ggtttgttcacgttcgtcatttcctccaccaagaccaactccacgttgacrtccaacagcatcaatttcatcytttccagcacnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnannnnnttaattaattaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtaaaatagataagtgttaccytatctattttactatattttcttaaatttttctgaaaa 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================================================ ggtttgttcacgttcgtcatttcctccaccaagaccaactccacgttgacrtccaacagcatcaatttcatcytttccagcacnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnannnnnttaattaattaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtaaaatagataagtgttaccytatctattttactatattttcttaaatttttctgaaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1927:SMT_1928|SMT_1927:SMT_1928:cell division protein FtsH:O-methyltransferase family protein:<-<-:1868870..1869247 378 ggtttgttcacgttcgtcatttcctccaccaagaccaactccacgttgacrtccaacagcatcaatttcatcytttccagcacnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnannnnnttaattaattaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtaaaatagataagtgttaccytatctattttactatattttcttaaatttttctgaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 378 Len: 378 Subject: smit_SMT_1927_SMT_1928|cell division protein FtsH:O-methyltransferase family protein|NEGATIVE:NEGATIVE|[1868870,1869247]|378 HSP 1 e-value: 8.0E-38 bit: 159.0 Len: 83 Query Start:1 Query End:83 Subject Strand: POSITIVE Subject Start: 1 Subject End: 83 ggtttgttcacgttcgtcatttcctccaccaagaccaactccacgttgacrtccaacagcatcaatttcatcytttccagcac....................................................................................................................................................................................................................................................................................................... ggtttgttcacgttcgtcatttcctccaccaagaccaactccacgttgacrtccaacagcatcaatttcatcytttccagcac....................................................................................................................................................................................................................................................................................................... HSP 2 e-value: 2.0E-26 bit: 121.0 Len: 62 Query Start:317 Query End:378 Subject Strand: POSITIVE Subject Start: 317 Subject End: 378 ............................................................................................................................................................................................................................................................................................................................tagtaaaatagataagtgttaccytatctattttactatattttcttaaatttttctgaaaa ............................................................................................................................................................................................................................................................................................................................tagtaaaatagataagtgttaccytatctattttactatattttcttaaatttttctgaaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGUUUGUUCACGUUCGUCAUUUCCUCCACCAAGACCAACUCCACGUUGACRUCCAACAGCAUCAAUUUCAUCYUUUCCAGCACACUGGACUGGCCGUCGUUUUACAAGGUCUAGUCCGACCUAGACUCAGGGGUACCGAGCUCGAAUUCUGGCGUAAUAGCGAAGAGGCCCGCACCGAUCGCCCUUCCCAACAGUUGCGCAGCCUGAAUGGCGAAUGGCGCCUGANNNNNUUAAUUAAUUAANNNNNGAGGAUCCCCCUGUGCUAGGAUGGUCACCUAGAUCAGGAAACAGCUAUGACCCCAGUGUGCUGGAAAGAUAGUAAAAUAGAUAAGUGUUACCYUAUCUAUUUUACUAUAUUUUCUUAAAUUUUUCUGAAAA (((((..........................)))))........((((.....))))........(((((...(((((((((((((((...((.(((.((.......(((((((.(((.(((((.(.((((((..((..(((.(....).)))......(.((((.(((...........))))))).)..(((..((((.(((.....))).....))))))).........................))...)))))).)))))).)))....))))))).(....).)).))).))))))))))))))))).(((((((((((((((.(......).))))))))))))))).................))))). (-113.17) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUCAGAAAAAUUUAAGAAAAUAUAGUAAAAUAGAUARGGUAACACUUAUCUAUUUUACUAUCUUUCCAGCACACUGGGGUCAUAGCUGUUUCCUGAUCUAGGUGACCAUCCUAGCACAGGGGGAUCCUCNNNNNUUAAUUAAUUAANNNNNUCAGGCGCCAUUCGCCAUUCAGGCUGCGCAACUGUUGGGAAGGGCGAUCGGUGCGGGCCUCUUCGCUAUUACGCCAGAAUUCGAGCUCGGUACCCCUGAGUCUAGGUCGGACUAGACCUUGUAAAACGACGGCCAGUCCAGUGUGCUGGAAARGAUGAAAUUGAUGCUGUUGGAYGUCAACGUGGAGUUGGUCUUGGUGGAGGAAAUGACGAACGUGAACAAACC ....(((...(((((.........((((((((((((((.(......).))))))))))))))((((((((((((((((((.(....((((((.(..(.(((((....((..((((((.((((((...((............................(((((..(((((.(((.(((.........)))..))).)))))..))))).(((..............))).............))..)))))).).)))))..)).))))).)..)......)))))).).)))))))))))))))).))..)))))....)))......((..((((...(((..((((.....))))...)))..))))..))..... (-117.14) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1148 220 171 228 179 smit:SMT_2002|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1924405..1924635_NEGATIVE 1148 220 171 228 179 smit:SMT_1942|5end_zinc_metalloprotease_ZmpB,_truncated_1877882..1878112_POSITIVE 1147 200 151 229 180 smit:SMT_1885|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1840057..1840287_NEGATIVE 1104 180 131 227 178 smit:SMT_1966|5end_DNA_polymerase_III_alpha_subunit_1897934..1898164_POSITIVE 1104 180 131 228 179 smit:SMT_1926|5end_mevalonate_kinase_1867692..1867922_POSITIVE 1054 140 91 208 159 smit:SMT_2030|5end_chromosomal_replication_initiator_protein_DnaA_1945167..1945397_NEGATIVE 1054 140 91 231 182 smit:SMT_1927|5end_cell_division_protein_FtsH_1868779..1869009_NEGATIVE 1054 140 91 216 167 smit:SMT_1672|5end_hypothetical_protein_1660051..1660281_NEGATIVE 1026 130 81 224 175 smit:SMT_1873|5end_K02006_cobalt_transport_system_ATP-binding_protein_1831936..1832166_POSITIVE 1010 225 181 45 1 smit:SMT_1981|5end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1912261..1912491_POSITIVE 960 300 251 223 174 smit:SMT_959|5end_1-acyl-sn-glycerol-3-phosphate_acyltransferase_905283..905513_POSITIVE 953 140 91 160 112 smit:SMT_1914|5end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1859486..1859716_POSITIVE 948 120 74 229 183 smit:SMT_714|5end_hypothetical_protein_predicted_by_Glimmer/Critica_620979..621209_NEGATIVE 877 118 74 124 80 smit:SMT_1977|5end_endopeptidase_O_1907832..1908062_POSITIVE 708 280 231 231 183 smit:SMT_2005|5end_pullulanase,_type_I_1926289..1926519_NEGATIVE 501 370 326 149 105 smit:SMT_1342|5end_protease_maturation_protein,_putative_1320214..1320444_NEGATIVE 432 292 265 231 204 smit:SMT_712|5end_alcohol_dehydrogenase,_zinc-containing_620381..620611_NEGATIVE 429 200 151 213 158 smit:SMT_325|5end_K02029_polar_amino_acid_transport_system_permease_protein_263023..263253_NEGATIVE 418 95 74 231 210 smit:SMT_1971|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1903282..1903512_POSITIVE 416 204 166 165 112 smit:SMT_148|5end_glycoprotein_endopeptidase_98033..98263_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1080 220 173 48 1 smit:SMT_1954|3end_6-phospho-beta-glucosidase_1888831..1888981_POSITIVE 1054 140 91 68 19 smit:SMT_1630|3end_hypothetical_protein_1618141..1618291_POSITIVE 1038 300 251 110 61 smit:SMT_2024|3end_hypothetical_protein_1940690..1940840_POSITIVE 1038 300 251 99 50 smit:SMT_2002|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1924145..1924295_NEGATIVE 1038 300 251 110 61 smit:SMT_1981|3end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1912868..1913018_POSITIVE 1038 300 251 115 66 smit:SMT_1971|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1903526..1903676_POSITIVE 1038 300 251 99 50 smit:SMT_1966|3end_DNA_polymerase_III_alpha_subunit_1898328..1898478_POSITIVE 1038 300 251 110 61 smit:SMT_1942|3end_zinc_metalloprotease_ZmpB,_truncated_1878384..1878534_POSITIVE 1038 300 251 99 50 smit:SMT_1927|3end_cell_division_protein_FtsH_1868408..1868558_NEGATIVE 1038 300 251 110 61 smit:SMT_1926|3end_mevalonate_kinase_1868062..1868212_POSITIVE 1038 300 251 110 61 smit:SMT_1887|3end_LicC_protein_1841740..1841890_POSITIVE 1038 300 251 99 50 smit:SMT_1885|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1839830..1839980_NEGATIVE 1038 300 251 99 50 smit:SMT_1873|3end_K02006_cobalt_transport_system_ATP-binding_protein_1832351..1832501_POSITIVE 1038 300 251 115 66 smit:SMT_1852|3end_1,4-alpha-glucan_branching_enzyme_1816467..1816617_NEGATIVE 1038 300 251 115 66 smit:SMT_326|3end_K02029_polar_amino_acid_transport_system_permease_protein_263217..263367_NEGATIVE 1024 310 261 52 3 smit:SMT_2030|3end_chromosomal_replication_initiator_protein_DnaA_1944790..1944940_NEGATIVE 1024 310 261 56 7 smit:SMT_479|3end_K03308_neurotransmitter:Na+_symporter,_NSS_family_415604..415754_NEGATIVE 973 310 263 48 1 smit:SMT_1895|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1847402..1847552_POSITIVE 960 300 251 99 50 smit:SMT_958|3end_hypothetical_protein_predicted_by_Glimmer/Critica_905239..905389_POSITIVE 948 120 74 79 33 smit:SMT_955|3end_acyltransferase_family_protein_904703..904853_POSITIVE