Origin IGS: tcgacccgtcaaacgactaaaaaactttcatagtttgtctatatcggaatacagggagcggggttcgctccactccctgtattcattctctccaaatcaaatagggaaatcccaatcaccaatcaaagaattattgtt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aacaataattctttgattggtgattgggatttccctatttgatttggagagaatgaatacagggagtggagcgaaccccgctccctgtattccgatatagacaaactatgaaagttttttagtcgtttgacgggtcga Mask Tandem Repeat Region ================================================ tcgacccgtcaaacgactaaaaaactttcatagtttgtctatatcggaatacagggagcggggttcgctccactccctgtattcattctctccaaatcaaatagggaaatcccaatcaccaatcaaagaattattgtt Find is-nt database================================================ Query_seq: PG2132:PG2133|PG2132:PG2133:fimbrilin:lipoprotein, putative:->->:2239004..2239141 138 tcgacccgtcaaacgactaaaaaactttcatagtttgtctatatcggaatacagggagcggggttcgctccactccctgtattcattctctccaaatcaaatagggaaatcccaatcaccaatcaaagaattattgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG2132:PG2133|PG2132:PG2133:fimbrilin:lipoprotein, putative:->->:2239004..2239141 138 tcgacccgtcaaacgactaaaaaactttcatagtttgtctatatcggaatacagggagcggggttcgctccactccctgtattcattctctccaaatcaaatagggaaatcccaatcaccaatcaaagaattattgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG2132:PG2133|PG2132:PG2133:fimbrilin:lipoprotein, putative:->->:2239004..2239141 138 tcgacccgtcaaacgactaaaaaactttcatagtttgtctatatcggaatacagggagcggggttcgctccactccctgtattcattctctccaaatcaaatagggaaatcccaatcaccaatcaaagaattattgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tcgacccgtcaaacgactaaaaaactttcatagtttgtctatatcggaatacagggagcggggttcgctccactccctgtattcattctctccaaatcaaatagggaaatcccaatcaccaatcaaagaattattgtt Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 35 End: 136 .................................. M S I S E Y R E R G S L H S L Y S F S P N Q I G K S Q S P I K E L L .. Protein_Len: 32 Strand: + Start: 43 End: 138 .......................................... M G I Q G A G F A P L P V F I L S K S N R E I P I T N Q R I I V tcgacccgtcaaacgactaaaaaactttcatagtttgtctatatcggaatacagggagcggggttcgctccactccctgtattcattctctccaaatcaaatagggaaatcccaatcaccaatcaaagaattattgtt 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================================================ tcgacccgtcaaacgactaaaaaactttcatagtttgtctatatcggaatacagggagcggggttcgctccactccctgtattcattctctccaaatcaaatagggaaatcccaatcaccaatcaaagaattattgtt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -15.8 Tail_Score: -3.49475 Start: 46 End: 85 Full_Region: TAGTTTGTCTATATC GGAATACAGGGAGCGGGG TTCG CTCCACTCCCTGTATTCA TTCTCTCCAAATCAA .............................................GGAATACAGGGAGCGGGGTTCGCTCCACTCCCTGTATTCA..................................................... TransTerm Strand: + Conf: 100 HP_score: -19.3 Tail_Score: -2.69471 Start: 47 End: 84 Full_Region: AGTTTGTCTATATCG GAATACAGGGAGCGGGG TTCG CTCCACTCCCTGTATTC ATTCTCTCCAAATCA ..............................................GAATACAGGGAGCGGGGTTCGCTCCACTCCCTGTATTC...................................................... TransTerm Strand: + Conf: 100 HP_score: -15.2 Tail_Score: -3.49618 Start: 50 End: 81 Full_Region: TTGTCTATATCGGAA TACAGGGAGCGGGG TTCG CTCCACTCCCTGTA TTCATTCTCTCCAAA .................................................TACAGGGAGCGGGGTTCGCTCCACTCCCTGTA......................................................... TransTerm Strand: - Conf: 86 HP_score: -13.4 Tail_Score: -3.07962 Start: 52 End: 79 Full_Region: tggagagaatgaata cagggagtggag cgaa ccccgctccctg tattccgatatagac ...................................................cagggagtggagcgaaccccgctccctg........................................................... TransTerm Strand: - Conf: 73 HP_score: -10.2 Tail_Score: -3.09785 Start: 54 End: 77 Full_Region: gagagaatgaataca gggagtggag cgaa ccccgctccc tgtattccgatatag .....................................................gggagtggagcgaaccccgctccc............................................................. Find igs database================================================ Query_seq: PG2132:PG2133|PG2132:PG2133:fimbrilin:lipoprotein, putative:->->:2239004..2239141 138 tcgacccgtcaaacgactaaaaaactttcatagtttgtctatatcggaatacagggagcggggttcgctccactccctgtattcattctctccaaatcaaatagggaaatcccaatcaccaatcaaagaattattgtt Intra-Species Hit: Count: 1 Min: 1 Max: 138 Len: 138 Subject: NC_002950_PG2132_PG2133|fimbrilin:lipoprotein, putative|POSITIVE:POSITIVE|[2239004,2239141]|138 HSP 1 e-value: 7.0E-73 bit: 274.0 Len: 138 Query Start:1 Query End:138 Subject Strand: POSITIVE Subject Start: 1 Subject End: 138 tcgacccgtcaaacgactaaaaaactttcatagtttgtctatatcggaatacagggagcggggttcgctccactccctgtattcattctctccaaatcaaatagggaaatcccaatcaccaatcaaagaattattgtt tcgacccgtcaaacgactaaaaaactttcatagtttgtctatatcggaatacagggagcggggttcgctccactccctgtattcattctctccaaatcaaatagggaaatcccaatcaccaatcaaagaattattgtt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCGACCCGUCAAACGACUAAAAAACUUUCAUAGUUUGUCUAUAUCGGAAUACAGGGAGCGGGGUUCGCUCCACUCCCUGUAUUCAUUCUCUCCAAAUCAAAUAGGGAAAUCCCAAUCACCAAUCAAAGAAUUAUUGUU ..(((..(((....)))....(((((.....))))))))....((.((((((((((((.((((....)))).))))))))))))...................(((....)))..............))......... (-39.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACAAUAAUUCUUUGAUUGGUGAUUGGGAUUUCCCUAUUUGAUUUGGAGAGAAUGAAUACAGGGAGUGGAGCGAACCCCGCUCCCUGUAUUCCGAUAUAGACAAACUAUGAAAGUUUUUUAGUCGUUUGACGGGUCGA ........(((((..(.....(((.(((....))).)))....)..)))))...(((((((((((((((........)))))))))))))))((((...(.(((((..((((.....))))...))))).)..)))). (-45.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 415 79 37 208 157 NC_002950:PG0635|5end_ribosomal_protein_L11_methyltransferase_687773..688003_NEGATIVE 382 85 43 114 68 NC_002950:PG1999|5end_hypothetical_protein_2088821..2089051_NEGATIVE 377 89 44 79 24 NC_002950:PG1764|5end_3-oxoacyl-(acyl-carrier-protein)_synthase_II_1853052..1853282_NEGATIVE 368 100 51 220 165 NC_002950:PG1837|5end_hemagglutinin_protein_HagA_1930337..1930567_POSITIVE 354 90 44 95 56 NC_002950:PG0608|5end_hypothetical_protein_662945..663175_POSITIVE 349 79 42 49 1 NC_002950:PG1783|5end_glycosyl_transferase,_group_2_family_protein_1871868..1872098_POSITIVE 348 79 32 231 178 NC_002950:PG1042|5end_glycogen_synthase,_putative_1110638..1110868_NEGATIVE 346 98 57 79 33 NC_002950:PG2125|5end_transcriptional_regulator,_AraC_family_2232254..2232484_NEGATIVE 345 70 25 181 141 NC_002950:PG0782|5end_MotA/TolQ/ExbB_proton_channel_family_protein_834530..834760_NEGATIVE 343 80 33 231 183 NC_002950:PG0273|5end_4'-phosphopantetheinyl_transferase_family_protein_305694..305924_POSITIVE 341 85 44 108 58 NC_002950:PG1640|5end_DNA-damage-inducible_protein_F_1721245..1721475_NEGATIVE 341 79 45 160 115 NC_002950:PG0140|5end_hypothetical_protein_163858..164088_NEGATIVE 329 99 51 218 146 NC_002950:PG0795|5end_hypothetical_protein_848813..849043_POSITIVE 329 83 44 228 179 NC_002950:PG0349|5end_hydrolase,_haloacid_dehalogenase-like_family_384459..384689_POSITIVE 323 78 34 114 62 NC_002950:PG1273|5end_hypothetical_protein_1351837..1352067_NEGATIVE 317 76 35 141 99 NC_002950:PG0794|5end_penicillin-binding_protein_1A,_putative_846411..846641_POSITIVE 315 76 32 151 95 NC_002950:PG0450|5end_hypothetical_protein_490812..491042_POSITIVE 314 77 36 166 105 NC_002950:PG1564|5end_hypothetical_protein_1644536..1644766_NEGATIVE 313 94 52 136 89 NC_002950:PG2073|5end_hypothetical_protein_2174374..2174604_NEGATIVE 313 89 45 86 41 NC_002950:PG1888|5end_hypothetical_protein_1985596..1985826_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 492 84 47 44 7 NC_002950:PG2132|3end_fimbrilin_2238943..2239093_POSITIVE 384 88 44 128 86 NC_002950:PG2205|3end_2-dehydropantoate_2-reductase_2317145..2317295_POSITIVE 382 85 43 93 47 NC_002950:PG2000|3end_signal_peptidase-related_protein_2088842..2088992_NEGATIVE 377 89 44 69 14 NC_002950:PG1765|3end_acyl_carrier_protein_1853062..1853212_NEGATIVE 357 79 33 62 3 NC_002950:PG1782|3end_hypothetical_protein_1871961..1872111_POSITIVE 354 90 44 64 25 NC_002950:PG0607|3end_hypothetical_protein_662994..663144_POSITIVE 341 85 44 93 43 NC_002950:PG1641|3end_phosphotyrosine_protein_phosphatase_1721260..1721410_NEGATIVE 341 79 45 140 95 NC_002950:PG0141|3end_spoOJ_protein_163878..164028_NEGATIVE 338 91 53 79 39 NC_002950:PG0561|3end_peptidase,_M20/M25/M40_family_617700..617850_NEGATIVE 332 93 51 69 9 NC_002950:PG0431|3end_hypothetical_protein_469174..469324_POSITIVE 323 90 41 86 20 NC_002950:PG2126|3end_conserved_hypothetical_protein_TIGR00044_2232438..2232588_NEGATIVE 322 80 53 29 2 NC_002950:PG0587|3end_yadS_protein_644612..644762_NEGATIVE 315 76 32 126 70 NC_002950:PG0449|3end_TPR_domain_protein_490867..491017_POSITIVE 314 77 36 81 20 NC_002950:PG1565|3end_3-deoxy-D-manno-octulosonic-acid_transferase,_putative_1644621..1644771_NEGATIVE 313 89 45 89 44 NC_002950:PG1887|3end_rhodanese-like_domain_protein_1985679..1985829_POSITIVE 312 78 32 67 22 NC_002950:PG0232|3end_zinc_carboxypeptidase,_putative_267458..267608_NEGATIVE 311 71 33 101 58 NC_002950:PG0139|3end_membrane-bound_lytic_murein_transglycosylase_D,_putative_161786..161936_NEGATIVE 310 90 43 98 43 NC_002950:PG1816|3end_NAD(P)H_dehydrogenase,_quinone_family,_putative_1911430..1911580_NEGATIVE 305 77 53 31 5 NC_002950:PG1007|3end_transcriptional_regulator,_GntR_family_1066518..1066668_NEGATIVE 304 76 46 73 29 NC_002950:PG0328|3end_imidazolonepropionase_362155..362305_NEGATIVE