Origin IGS: taacagaatttttctcacagtttgcagataaatatactacacgaagaaaacatctaaaaaacaatgttttcttcgtgtatgttgtttttatgaatctattta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaatagattcataaaaacaacatacacgaagaaaacattgttttttagatgttttcttcgtgtagtatatttatctgcaaactgtgagaaaaattctgtta Mask Tandem Repeat Region ================================================ taacagaatttttctcacagtttgcagataaatatactacacgaagaaaacatctaaaaaacaatgttttcttcgtgtatgttgtttttatgaatctattta Find is-nt database================================================ Query_seq: PI1088:PI1089|PI1088:PI1089:conserved hypothetical protein:conserved hypothetical protein:->->:1012913..1013014 102 taacagaatttttctcacagtttgcagataaatatactacacgaagaaaacatctaaaaaacaatgttttcttcgtgtatgttgtttttatgaatctattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1088:PI1089|PI1088:PI1089:conserved hypothetical protein:conserved hypothetical protein:->->:1012913..1013014 102 taacagaatttttctcacagtttgcagataaatatactacacgaagaaaacatctaaaaaacaatgttttcttcgtgtatgttgtttttatgaatctattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1088:PI1089|PI1088:PI1089:conserved hypothetical protein:conserved hypothetical protein:->->:1012913..1013014 102 taacagaatttttctcacagtttgcagataaatatactacacgaagaaaacatctaaaaaacaatgttttcttcgtgtatgttgtttttatgaatctattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacagaatttttctcacagtttgcagataaatatactacacgaagaaaacatctaaaaaacaatgttttcttcgtgtatgttgtttttatgaatctattta Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 2 End: 91 . V S N K E C N A S L Y V V R L F C R F F L T K K T Y T T K M ........... taacagaatttttctcacagtttgcagataaatatactacacgaagaaaacatctaaaaaacaatgttttcttcgtgtatgttgtttttatgaatctattta 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================================================ taacagaatttttctcacagtttgcagataaatatactacacgaagaaaacatctaaaaaacaatgttttcttcgtgtatgttgtttttatgaatctattta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 68 HP_score: -4.2 Tail_Score: -4.90455 Start: 33 End: 84 Full_Region: CAGTTTGCAGATAAA TATACTACACGAAGAAAACAT CTAAAAAACA ATGTTTTCTTCGTGTATGTTG TTTTTATGAATCTAT ................................TATACTACACGAAGAAAACATCTAAAAAACAATGTTTTCTTCGTGTATGTTG.................. TransTerm Strand: + Conf: 90 HP_score: -9.7 Tail_Score: -4.5448 Start: 37 End: 81 Full_Region: TTGCAGATAAATATA CTACACGAAGAAAACAT CTAAAAAACA ATGTTTTCTTCGTGTATG TTGTTTTTATGAATC ....................................CTACACGAAGAAAACATCTAAAAAACAATGTTTTCTTCGTGTATG..................... TransTerm Strand: - Conf: 88 HP_score: -10.6 Tail_Score: -3.38294 Start: 37 End: 80 Full_Region: attcataaaaacaac atacacgaagaaaacatt gtttttta gatgttttcttcgtgtag tatatttatctgcaa ....................................atacacgaagaaaacattgttttttagatgttttcttcgtgtag...................... TransTerm Strand: + Conf: 100 HP_score: -13.4 Tail_Score: -3.86816 Start: 38 End: 79 Full_Region: TGCAGATAAATATAC TACACGAAGAAAACAT CTAAAAAACA ATGTTTTCTTCGTGTA TGTTGTTTTTATGAA .....................................TACACGAAGAAAACATCTAAAAAACAATGTTTTCTTCGTGTA....................... TransTerm Strand: - Conf: 100 HP_score: -14.1 Tail_Score: -2.62495 Start: 38 End: 79 Full_Region: ttcataaaaacaaca tacacgaagaaaacatt gtttttta gatgttttcttcgtgta gtatatttatctgca .....................................tacacgaagaaaacattgttttttagatgttttcttcgtgta....................... TransTerm Strand: - Conf: 93 HP_score: -12.3 Tail_Score: -2.8459 Start: 40 End: 77 Full_Region: cataaaaacaacata cacgaagaaaacatt gtttttta gatgttttcttcgtg tagtatatttatctg .......................................cacgaagaaaacattgttttttagatgttttcttcgtg......................... Find igs database================================================ Query_seq: PI1088:PI1089|PI1088:PI1089:conserved hypothetical protein:conserved hypothetical protein:->->:1012913..1013014 102 taacagaatttttctcacagtttgcagataaatatactacacgaagaaaacatctaaaaaacaatgttttcttcgtgtatgttgtttttatgaatctattta Intra-Species Hit: Count: 1 Min: 1 Max: 102 Len: 102 Subject: pint_PI1088_PI1089|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1012913,1013014]|102 HSP 1 e-value: 2.0E-51 bit: 202.0 Len: 102 Query Start:1 Query End:102 Subject Strand: POSITIVE Subject Start: 1 Subject End: 102 taacagaatttttctcacagtttgcagataaatatactacacgaagaaaacatctaaaaaacaatgttttcttcgtgtatgttgtttttatgaatctattta taacagaatttttctcacagtttgcagataaatatactacacgaagaaaacatctaaaaaacaatgttttcttcgtgtatgttgtttttatgaatctattta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACAGAAUUUUUCUCACAGUUUGCAGAUAAAUAUACUACACGAAGAAAACAUCUAAAAAACAAUGUUUUCUUCGUGUAUGUUGUUUUUAUGAAUCUAUUUA ..................((....((...(((((.((((((((((((((((((..........)))))))))))))))).)))))))...))...))..... (-23.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUAGAUUCAUAAAAACAACAUACACGAAGAAAACAUUGUUUUUUAGAUGUUUUCUUCGUGUAGUAUAUUUAUCUGCAAACUGUGAGAAAAAUUCUGUUA ..((((((............((.(((((((((((((((((........)))))))))))))))))))..((((.(((((.....)).))).)))))))))). (-28.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 246 87 52 156 117 pint:PI0578|5end_methyltransferase_522646..522876_POSITIVE 225 55 13 167 129 pint:PI0282|5end_hypothetical_protein_266540..266770_POSITIVE 218 49 5 121 73 pint:PI1450|5end_hypothetical_protein_1372683..1372913_POSITIVE 214 44 4 50 9 pint:PI1758|5end_hypothetical_protein_1683207..1683437_POSITIVE 212 81 64 153 136 pint:PI1403|5end_conserved_hypothetical_protein_1323920..1324150_POSITIVE 205 49 8 155 113 pint:PI0619|5end_hypothetical_protein_569364..569594_POSITIVE 202 100 51 98 50 pint:PI0048|5end_conserved_hypothetical_protein_47119..47349_POSITIVE 198 84 43 150 108 pint:PI0777|5end_predicted_TPR-repeat-containing_protein_713285..713515_POSITIVE 197 87 53 50 8 pint:PI0653|5end_hypothetical_protein_596046..596276_POSITIVE 195 86 45 60 17 pint:PI0971|5end_glycine_cleavage_system_T_protein_(aminomethyltransferase)_897847..898077_POSITIVE 193 89 62 54 28 pint:PI1467|5end_conserved_hypothetical_protein_1393503..1393733_POSITIVE 192 25 8 29 12 pint:PI2121|5end_glucose_inhibited_division_protein_A_2069889..2070119_POSITIVE 191 99 62 67 27 pint:PI2177|5end_phosphoribosylaminoimidazole_carboxylase_2117127..2117357_POSITIVE 187 44 7 156 110 pint:PI1834|5end_anaerobic_C4-dicarboxylate_membrane_transporter_1774861..1775091_POSITIVE 187 89 42 160 110 pint:PI1618|5end_hypothetical_protein_1542670..1542900_POSITIVE 187 97 51 125 82 pint:PI0764|5end_permease_697962..698192_POSITIVE 182 43 15 212 186 pint:PI0990|5end_GDP-mannose_4,6-dehydratase_913892..914122_POSITIVE 178 48 16 43 21 pint:PI1608|5end_possible_Na+/H+_anti-porter_1535807..1536037_POSITIVE 178 26 3 219 193 pint:PI0095|5end_hypothetical_protein_91444..91674_POSITIVE 172 87 60 154 129 pint:PI0597|5end_hypothetical_protein_546626..546856_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 319 79 31 53 5 pint:PI1088|3end_conserved_hypothetical_protein_1012852..1013002_POSITIVE 246 87 52 130 91 pint:PI0577|3end_conserved_hypothetical_protein_522700..522850_POSITIVE 225 55 13 151 113 pint:PI0281|3end_conserved_hypothetical_protein_266604..266754_POSITIVE 212 81 64 133 116 pint:PI1402|3end_3-deoxy-7-phosphoheptulonate_synthase_1323980..1324130_POSITIVE 198 84 43 108 66 pint:PI0776|3end_predicted_TPR-repeat-containing_protein_713323..713473_POSITIVE 196 82 53 150 118 pint:PI0653|3end_hypothetical_protein_596236..596386_POSITIVE 192 49 5 116 64 pint:PI0127|3end_conserved_hypothetical_protein_120157..120307_POSITIVE 187 89 42 79 29 pint:PI1616|3end_hypothetical_protein_1542669..1542819_POSITIVE 187 97 51 85 42 pint:PI0763|3end_thymidine_kinase_698002..698152_POSITIVE 181 99 66 38 1 pint:PI2176|3end_conserved_hypothetical_protein_2117178..2117328_POSITIVE 176 82 53 139 104 pint:PI1090|3end_tRNA_uracil_5-methyltransferase_1015780..1015930_POSITIVE 173 28 4 131 106 pint:PI2092|3end_hypothetical_protein_2049406..2049556_POSITIVE 173 50 21 105 69 pint:PI0725|3end_hypothetical_protein_658933..659083_POSITIVE 172 84 43 148 93 pint:PI1100|3end_conserved_hypothetical_protein;_possible_rhodanese-domain_protein_1024391..1024541_POSITIVE 172 87 60 56 31 pint:PI0596|3end_hypothetical_protein_546608..546758_POSITIVE 171 100 62 89 55 pint:PI1626|3end_hypothetical_protein_1550522..1550672_POSITIVE 170 92 64 133 103 pint:PI1716|3end_hypothetical_protein_1632006..1632156_POSITIVE 168 52 19 130 88 pint:PI0965|3end_hypothetical_protein_894392..894542_POSITIVE 167 89 65 101 76 pint:PI1654|3end_hypothetical_protein_1567958..1568108_POSITIVE 167 86 41 101 55 pint:PI0811|3end_protease/hemagglutinin_PrtT,_streptopain_family_749937..750087_POSITIVE