Origin IGS: attctaatatcttttttatagtgtgcctacaaatttactgaaaaattatggttttctgtcagcatactattttatatttcattttctcttcattatagttcggttttgtaaagataattcccttaaaaagtgataactgcgttttgacgttgcgaaagcggctcttttgcaacgcaaaacaataggttttgcaagttattgataaacaggcagttatacaatagatacccttgtgaaaaatatttacatatttcctgcgctttaaaagttgcactatcgcaaactaatcaatgttatgataaatagtgtttatgaaactaaaccaattttaattggtttagttaaagttatta .........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 taataactttaactaaaccaattaaaattggtttagtttcataaacactatttatcataacattgattagtttgcgatagtgcaacttttaaagcgcaggaaatatgtaaatatttttcacaagggtatctattgtataactgcctgtttatcaataacttgcaaaacctattgttttgcgttgcaaaagagccgctttcgcaacgtcaaaacgcagttatcactttttaagggaattatctttacaaaaccgaactataatgaagagaaaatgaaatataaaatagtatgctgacagaaaaccataatttttcagtaaatttgtaggcacactataaaaaagatattagaat Mask Tandem Repeat Region ================================================ attctaatatcttttttatagtgtgcctacaaatttactgaaaaattatggttttctgtcagcatactattttatatttcattttctcttcattatagttcggttttgtaaagataattcccttaaaaagtgataactgcgttttgacgttgcgaaagcggctcttttgcaacgcaaaacaataggttttgcaagttattgataaacaggcagttatacaatagatacccttgtgaaaaatatttacatatttcctgcgctttaaaagttgcactatcgcaaactaatcaatgttatgataaatagtgtttatgaaactaaaccaattttaattggtttagttaaagttatta Find is-nt database================================================ Query_seq: PI1099:PI1100|PI1099:PI1100:low molecular weight protein-tyrosine-phosphatase:conserved hypothetical protein; possible rhodanese-domain protein:->->:1023697..1024049 353 attctaatatcttttttatagtgtgcctacaaatttactgaaaaattatggttttctgtcagcatactattttatatttcattttctcttcattatagttcggttttgtaaagataattcccttaaaaagtgataactgcgttttgacgttgcgaaagcggctcttttgcaacgcaaaacaataggttttgcaagttattgataaacaggcagttatacaatagatacccttgtgaaaaatatttacatatttcctgcgctttaaaagttgcactatcgcaaactaatcaatgttatgataaatagtgtttatgaaactaaaccaattttaattggtttagttaaagttatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1099:PI1100|PI1099:PI1100:low molecular weight protein-tyrosine-phosphatase:conserved hypothetical protein; possible rhodanese-domain protein:->->:1023697..1024049 353 attctaatatcttttttatagtgtgcctacaaatttactgaaaaattatggttttctgtcagcatactattttatatttcattttctcttcattatagttcggttttgtaaagataattcccttaaaaagtgataactgcgttttgacgttgcgaaagcggctcttttgcaacgcaaaacaataggttttgcaagttattgataaacaggcagttatacaatagatacccttgtgaaaaatatttacatatttcctgcgctttaaaagttgcactatcgcaaactaatcaatgttatgataaatagtgtttatgaaactaaaccaattttaattggtttagttaaagttatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1099:PI1100|PI1099:PI1100:low molecular weight protein-tyrosine-phosphatase:conserved hypothetical protein; possible rhodanese-domain protein:->->:1023697..1024049 353 attctaatatcttttttatagtgtgcctacaaatttactgaaaaattatggttttctgtcagcatactattttatatttcattttctcttcattatagttcggttttgtaaagataattcccttaaaaagtgataactgcgttttgacgttgcgaaagcggctcttttgcaacgcaaaacaataggttttgcaagttattgataaacaggcagttatacaatagatacccttgtgaaaaatatttacatatttcctgcgctttaaaagttgcactatcgcaaactaatcaatgttatgataaatagtgtttatgaaactaaaccaattttaattggtttagttaaagttatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attctaatatcttttttatagtgtgcctacaaatttactgaaaaattatggttttctgtcagcatactattttatatttcattttctcttcattatagttcggttttgtaaagataattcccttaaaaagtgataactgcgttttgacgttgcgaaagcggctcttttgcaacgcaaaacaataggttttgcaagttattgataaacaggcagttatacaatagatacccttgtgaaaaatatttacatatttcctgcgctttaaaagttgcactatcgcaaactaatcaatgttatgataaatagtgtttatgaaactaaaccaattttaattggtttagttaaagttatta Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 23 End: 130 ...................... M P T N L L K N Y G F L S A Y Y F I F H F L F I I V R F C K D N S L K K ............................................................................................................................................................................................................................... Protein_Len: 35 Strand: + Start: 199 End: 303 ...................................................................................................................................................................................................... M I N R Q L Y N R Y P C E K Y L H I S C A L K V A L S Q T N Q C Y D K .................................................. Protein_Len: 42 Strand: - Start: 126 End: 251 ............................................................................................................................. F T I V A N Q R Q S L P E K A V C F L L N Q L N N I F L C N Y L L Y G Q S F Y K C M ...................................................................................................... Protein_Len: 34 Strand: - Start: 82 End: 183 ................................................................................. K R K M I T R N Q L S L E R L F H Y S R K S T A F A A R K C R L V M .......................................................................................................................................................................... Protein_Len: 60 Strand: - Start: 62 End: 277 ............................................................. N P K T F I I G K F L S L Q T K V N R F R S K Q L A F C Y T K C T I S L C A T I C Y I G K H F I N V Y K R R K L L Q V M ............................................................................ attctaatatcttttttatagtgtgcctacaaatttactgaaaaattatggttttctgtcagcatactattttatatttcattttctcttcattatagttcggttttgtaaagataattcccttaaaaagtgataactgcgttttgacgttgcgaaagcggctcttttgcaacgcaaaacaataggttttgcaagttattgataaacaggcagttatacaatagatacccttgtgaaaaatatttacatatttcctgcgctttaaaagttgcactatcgcaaactaatcaatgttatgataaatagtgtttatgaaactaaaccaattttaattggtttagttaaagttatta 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: 83 Start: 70 End: 99 .....................................................................TTTTATATTTCATTTTCTCTTCATTATAGT.............................................................................................................................................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ attctaatatcttttttatagtgtgcctacaaatttactgaaaaattatggttttctgtcagcatactattttatatttcattttctcttcattatagttcggttttgtaaagataattcccttaaaaagtgataactgcgttttgacgttgcgaaagcggctcttttgcaacgcaaaacaataggttttgcaagttattgataaacaggcagttatacaatagatacccttgtgaaaaatatttacatatttcctgcgctttaaaagttgcactatcgcaaactaatcaatgttatgataaatagtgtttatgaaactaaaccaattttaattggtttagttaaagttatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 53 HP_score: -2.8 Tail_Score: -4.16921 Start: 136 End: 186 Full_Region: CCTTAAAAAGTGATA ACTGCGTTTTGACGTTGCGAAAG CGGCT CTTTTGCAACGCAAAACAATAGG TTTTGCAAGTTATTG .......................................................................................................................................ACTGCGTTTTGACGTTGCGAAAGCGGCTCTTTTGCAACGCAAAACAATAGG....................................................................................................................................................................... TransTerm Strand: + Conf: 60 HP_score: -6.3 Tail_Score: -3.09429 Start: 137 End: 185 Full_Region: CTTAAAAAGTGATAA CTGCGTTTTGACGTTGCGAAAG CGGCT CTTTTGCAACGCAAAACAATAG GTTTTGCAAGTTATT ........................................................................................................................................CTGCGTTTTGACGTTGCGAAAGCGGCTCTTTTGCAACGCAAAACAATAG........................................................................................................................................................................ TransTerm Strand: - Conf: 53 HP_score: -4.1 Tail_Score: -3.5616 Start: 137 End: 185 Full_Region: aataacttgcaaaac ctattgttttgcgttgcaaaag agccg ctttcgcaacgtcaaaacgcag ttatcactttttaag ........................................................................................................................................ctattgttttgcgttgcaaaagagccgctttcgcaacgtcaaaacgcag........................................................................................................................................................................ TransTerm Strand: - Conf: 52 HP_score: -5.3 Tail_Score: -2.72973 Start: 138 End: 182 Full_Region: aacttgcaaaaccta ttgttttgcgttgcaaaag agccg ctttcgcaacgtcaaaacgca gttatcactttttaa .........................................................................................................................................ttgttttgcgttgcaaaagagccgctttcgcaacgtcaaaacgca........................................................................................................................................................................... TransTerm Strand: + Conf: 60 HP_score: -6.9 Tail_Score: -2.75349 Start: 139 End: 182 Full_Region: TAAAAAGTGATAACT GCGTTTTGACGTTGCGAAAG CGGCT CTTTTGCAACGCAAAACAA TAGGTTTTGCAAGTT ..........................................................................................................................................GCGTTTTGACGTTGCGAAAGCGGCTCTTTTGCAACGCAAAACAA........................................................................................................................................................................... Find igs database================================================ Query_seq: PI1099:PI1100|PI1099:PI1100:low molecular weight protein-tyrosine-phosphatase:conserved hypothetical protein; possible rhodanese-domain protein:->->:1023697..1024049 353 attctaatatcttttttatagtgtgcctacaaatttactgaaaaattatggttttctgtcagcatactattttatatttcattttctcttcattatagttcggttttgtaaagataattcccttaaaaagtgataactgcgttttgacgttgcgaaagcggctcttttgcaacgcaaaacaataggttttgcaagttattgataaacaggcagttatacaatagatacccttgtgaaaaatatttacatatttcctgcgctttaaaagttgcactatcgcaaactaatcaatgttatgataaatagtgtttatgaaactaaaccaattttaattggtttagttaaagttatta Intra-Species Hit: Count: 2 Min: 1 Max: 353 Len: 353 Subject: pint_PI1099_PI1100|low molecular weight protein-tyrosine-phosphatase:conserved hypothetical protein; possible rhodanese-domain protein|POSITIVE:POSITIVE|[1023697,1024049]|353 HSP 1 e-value: 0.0 bit: 700.0 Len: 353 Query Start:1 Query End:353 Subject Strand: POSITIVE Subject Start: 1 Subject End: 353 attctaatatcttttttatagtgtgcctacaaatttactgaaaaattatggttttctgtcagcatactattttatatttcattttctcttcattatagttcggttttgtaaagataattcccttaaaaagtgataactgcgttttgacgttgcgaaagcggctcttttgcaacgcaaaacaataggttttgcaagttattgataaacaggcagttatacaatagatacccttgtgaaaaatatttacatatttcctgcgctttaaaagttgcactatcgcaaactaatcaatgttatgataaatagtgtttatgaaactaaaccaattttaattggtttagttaaagttatta attctaatatcttttttatagtgtgcctacaaatttactgaaaaattatggttttctgtcagcatactattttatatttcattttctcttcattatagttcggttttgtaaagataattcccttaaaaagtgataactgcgttttgacgttgcgaaagcggctcttttgcaacgcaaaacaataggttttgcaagttattgataaacaggcagttatacaatagatacccttgtgaaaaatatttacatatttcctgcgctttaaaagttgcactatcgcaaactaatcaatgttatgataaatagtgtttatgaaactaaaccaattttaattggtttagttaaagttatta Subject: pint_PI0787_PI0788|glycosyltransferase:3-methyladenine DNA glycosylase (DNA-3-methyladenine glycosylase I)|POSITIVE:POSITIVE|[725854,726291]|438 HSP 1 e-value: 7.0E-29 bit: 129.0 Len: 77 Query Start:104 Query End:180 Subject Strand: NEGATIVE Subject Start: 359 Subject End: 435 .......................................................................................................ttttgtaaagataattcccttaaaaagtgataactgcgttttgacgttgcgaaagcggctcttttgcaacgcaaaac............................................................................................................................................................................. .......................................................................................................ttttgtaaagataattctcttaaaaagtgataactgcgctttgacgttgcgaaagcggctgttttgcaacgcaaaac............................................................................................................................................................................. HSP 2 e-value: 2.0E-7 bit: 58.0 Len: 85 Query Start:164 Query End:248 Subject Strand: NEGATIVE Subject Start: 247 Subject End: 331 ...................................................................................................................................................................cttttgcaacgcaaaacaataggttttgcaagttattgataaacaggcagttatacaatagatacccttgtgaaaaatatttaca......................................................................................................... ...................................................................................................................................................................cttttggaatgcaaaacaataggttttgcaacacgttgatgcacagttagttacataatagatactcgtgtgaaaaatatttaca......................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUCUAAUAUCUUUUUUAUAGUGUGCCUACAAAUUUACUGAAAAAUUAUGGUUUUCUGUCAGCAUACUAUUUUAUAUUUCAUUUUCUCUUCAUUAUAGUUCGGUUUUGUAAAGAUAAUUCCCUUAAAAAGUGAUAACUGCGUUUUGACGUUGCGAAAGCGGCUCUUUUGCAACGCAAAACAAUAGGUUUUGCAAGUUAUUGAUAAACAGGCAGUUAUACAAUAGAUACCCUUGUGAAAAAUAUUUACAUAUUUCCUGCGCUUUAAAAGUUGCACUAUCGCAAACUAAUCAAUGUUAUGAUAAAUAGUGUUUAUGAAACUAAACCAAUUUUAAUUGGUUUAGUUAAAGUUAUUA ....(((((.((((...(((((((((..(((.....(((..........)))....)))..))))))))).(((((...((((.((....((((.(((((((((..(((((.((....))......((((((((((((((((((((.(((((((((((.....))))))))))))))))).....((((..(((....)))..))))..))))))))..............((((((.....)))))).........)))))).....)))))..))))..)))))...))))....)).....))))..))))).(((((((((((....))))))))))).)))).))))) (-76.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAACUUUAACUAAACCAAUUAAAAUUGGUUUAGUUUCAUAAACACUAUUUAUCAUAACAUUGAUUAGUUUGCGAUAGUGCAACUUUUAAAGCGCAGGAAAUAUGUAAAUAUUUUUCACAAGGGUAUCUAUUGUAUAACUGCCUGUUUAUCAAUAACUUGCAAAACCUAUUGUUUUGCGUUGCAAAAGAGCCGCUUUCGCAACGUCAAAACGCAGUUAUCACUUUUUAAGGGAAUUAUCUUUACAAAACCGAACUAUAAUGAAGAGAAAAUGAAAUAUAAAAUAGUAUGCUGACAGAAAACCAUAAUUUUUCAGUAAAUUUGUAGGCACACUAUAAAAAAGAUAUUAGAAU ..........((((((((((((....)))))))))))).........(((..((((....(((((..(((((((.(...((((..........)))).((((((((....))))))))...((((((((((...((((((((((..((((..(((....)))..)))).....((((((((((((.((((.....)))).)))))).)))))))))))))).))........)))..)))))))......)))))))))))))....................(((((.((((.(((((.....................))))).)))).)))))......)))).)))... (-72.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 863 180 132 176 126 pint:PI0771|5end_conserved_hypothetical_protein_706524..706754_POSITIVE 853 180 131 171 122 pint:PI0788|5end_3-methyladenine_DNA_glycosylase_(DNA-3-methyladenine_glycosylase_I)_726152..726382_POSITIVE 836 180 131 187 138 pint:PI1486|5end_alginate_O-acetylation_protein_1405507..1405737_POSITIVE 792 170 122 215 167 pint:PI0202|5end_DNA_helicase_191753..191983_POSITIVE 783 170 123 196 149 pint:PI2003|5end_hypothetical_protein_1960823..1961053_POSITIVE 751 180 136 45 1 pint:PI1567|5end_hypothetical_protein_1489229..1489459_POSITIVE 745 180 136 45 1 pint:PI1076|5end_hypothetical_protein_998893..999123_POSITIVE 718 170 122 172 124 pint:PI0159|5end_hypothetical_protein_151273..151503_POSITIVE 718 170 122 84 36 pint:PI0157|5end_hypothetical_protein_151185..151415_POSITIVE 697 180 138 45 3 pint:PI1601|5end_hypothetical_protein_1530282..1530512_POSITIVE 689 170 123 84 37 pint:PI0055|5end_hypothetical_protein_54815..55045_POSITIVE 687 180 136 45 1 pint:PI2002|5end_hypothetical_protein_1960662..1960892_POSITIVE 669 180 131 171 122 pint:PI2111|5end_conserved_hypothetical_protein_2062771..2063001_POSITIVE 667 180 136 45 1 pint:PI1694|5end_hypothetical_protein_1609717..1609947_POSITIVE 663 170 123 225 178 pint:PI0007|5end_hypothetical_protein_6417..6647_POSITIVE 656 170 121 218 169 pint:PI1949|5end_aminotransferase,_class_V_1903218..1903448_POSITIVE 656 170 121 84 35 pint:PI1948|5end_hypothetical_protein_1903084..1903314_POSITIVE 648 160 111 226 177 pint:PI0056|5end_conserved_hypothetical_protein;_possible_DNA_uptake_protein_54967..55197_POSITIVE 606 150 101 228 179 pint:PI1196|5end_hypothetical_protein_1113401..1113631_POSITIVE 603 158 111 231 184 pint:PI0875|5end_conserved_hypothetical_protein_810608..810838_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 838 170 123 77 30 pint:PI0759|3end_hypothetical_protein_693998..694148_POSITIVE 802 170 121 127 78 pint:PI1076|3end_hypothetical_protein_999065..999215_POSITIVE 792 170 122 117 69 pint:PI0200|3end_hypothetical_protein_191735..191885_POSITIVE 790 170 123 117 70 pint:PI0061|3end_hypothetical_protein_60690..60840_POSITIVE 738 160 111 147 98 pint:PI0104|3end_hypothetical_protein_99346..99496_POSITIVE 736 170 123 121 74 pint:PI1922|3end_hypothetical_protein_1865454..1865604_POSITIVE 718 170 122 117 69 pint:PI0158|3end_hypothetical_protein_151298..151448_POSITIVE 709 170 121 127 77 pint:PI1601|3end_hypothetical_protein_1530454..1530604_POSITIVE 695 160 111 115 66 pint:PI1666|3end_conserved_hypothetical_protein_1579418..1579568_POSITIVE 692 158 111 151 104 pint:PI0099|3end_hypothetical_protein_95777..95927_POSITIVE 663 170 123 117 70 pint:PI0004|3end_hypothetical_protein_6389..6539_POSITIVE 647 160 111 121 72 pint:PI0755|3end_hypothetical_protein_686884..687034_POSITIVE 643 190 141 110 63 pint:PI1356|3end_hypothetical_protein_1273340..1273490_POSITIVE 632 180 140 127 87 pint:PI1814|3end_hypothetical_protein_1753233..1753383_POSITIVE 631 180 140 127 87 pint:PI0689|3end_hypothetical_protein_625877..626027_POSITIVE 588 160 112 107 59 pint:PI0551|3end_hypothetical_protein_502683..502833_POSITIVE 580 180 140 149 109 pint:PI1829|3end_hypothetical_protein_1769439..1769589_POSITIVE 558 180 140 148 108 pint:PI1905|3end_hypothetical_protein_1847854..1848004_POSITIVE 529 190 141 141 93 pint:PI0638|3end_hypothetical_protein_582402..582552_POSITIVE 529 190 141 136 88 pint:PI0637|3end_hypothetical_protein_582397..582547_POSITIVE