Origin IGS: aattgtttatatttttaattttaagtcttcaagcatattgaaacacgcattctgtgtattcgccaatcaatatacgaaaaccgtgccaaaaaagaaataagacgaaaatagtagggcgaaaatgcaagatatattctttgacgaggcaaaagcggcgttttcgctttgcaaaagagccgcttttggacggtaaaacagccgcttttaccttgcaaaacctacgcttttgaaacacccttataaacatctgattatctgataattacagagtaggtttttaaagaaatattgctttaagcattatacctacatttataccctattggaaaaaccgcaacacagcattaaggcacaaaagagaaatgtagaaacaaaaagaaatatcgggcgaaaaggataggattgcatcaaaaaagctactgacaatattgtcagtagctatatgtcagaattggcagaaataccttctaatgcggaaaggaaacta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagtttcctttccgcattagaaggtatttctgccaattctgacatatagctactgacaatattgtcagtagcttttttgatgcaatcctatccttttcgcccgatatttctttttgtttctacatttctcttttgtgccttaatgctgtgttgcggtttttccaatagggtataaatgtaggtataatgcttaaagcaatatttctttaaaaacctactctgtaattatcagataatcagatgtttataagggtgtttcaaaagcgtaggttttgcaaggtaaaagcggctgttttaccgtccaaaagcggctcttttgcaaagcgaaaacgccgcttttgcctcgtcaaagaatatatcttgcattttcgccctactattttcgtcttatttcttttttggcacggttttcgtatattgattggcgaatacacagaatgcgtgtttcaatatgcttgaagacttaaaattaaaaatataaacaatt Mask Tandem Repeat Region ================================================ aattgtttatatttttaattttaagtcttcaagcatattgaaacacgcattctgtgtattcgccaatcaatatacgaaaaccgtgccaaaaaagaaataagacgaaaatagtagggcgaaaatgcaagatatattctttgacgaggcaaaagcggcgttttcgctttgcaaaagagccgcttttggacggtaaaacagccgcttttaccttgcaaaacctacgcttttgaaacacccttataaacatctgattatctgataattacagagtaggtttttaaagaaatattgctttaagcattatacctacatttataccctattggaaaaaccgcaacacagcattaaggcacaaaagagaaatgtagaaacaaaaagaaatatcgggcgaaaaggataggattgcatcaaaaaagctactgacaatattgtcagtagctatatgtcagaattggcagaaataccttctaatgcggaaaggaaacta Find is-nt database================================================ Query_seq: PI1236:PI1237|PI1236:PI1237:10 kDa chaperonin, cpn10, GroES:ATP-dependent DNA helicase:->->:1159341..1159827 487 aattgtttatatttttaattttaagtcttcaagcatattgaaacacgcattctgtgtattcgccaatcaatatacgaaaaccgtgccaaaaaagaaataagacgaaaatagtagggcgaaaatgcaagatatattctttgacgaggcaaaagcggcgttttcgctttgcaaaagagccgcttttggacggtaaaacagccgcttttaccttgcaaaacctacgcttttgaaacacccttataaacatctgattatctgataattacagagtaggtttttaaagaaatattgctttaagcattatacctacatttataccctattggaaaaaccgcaacacagcattaaggcacaaaagagaaatgtagaaacaaaaagaaatatcgggcgaaaaggataggattgcatcaaaaaagctactgacaatattgtcagtagctatatgtcagaattggcagaaataccttctaatgcggaaaggaaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1236:PI1237|PI1236:PI1237:10 kDa chaperonin, cpn10, GroES:ATP-dependent DNA helicase:->->:1159341..1159827 487 aattgtttatatttttaattttaagtcttcaagcatattgaaacacgcattctgtgtattcgccaatcaatatacgaaaaccgtgccaaaaaagaaataagacgaaaatagtagggcgaaaatgcaagatatattctttgacgaggcaaaagcggcgttttcgctttgcaaaagagccgcttttggacggtaaaacagccgcttttaccttgcaaaacctacgcttttgaaacacccttataaacatctgattatctgataattacagagtaggtttttaaagaaatattgctttaagcattatacctacatttataccctattggaaaaaccgcaacacagcattaaggcacaaaagagaaatgtagaaacaaaaagaaatatcgggcgaaaaggataggattgcatcaaaaaagctactgacaatattgtcagtagctatatgtcagaattggcagaaataccttctaatgcggaaaggaaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1236:PI1237|PI1236:PI1237:10 kDa chaperonin, cpn10, GroES:ATP-dependent DNA helicase:->->:1159341..1159827 487 aattgtttatatttttaattttaagtcttcaagcatattgaaacacgcattctgtgtattcgccaatcaatatacgaaaaccgtgccaaaaaagaaataagacgaaaatagtagggcgaaaatgcaagatatattctttgacgaggcaaaagcggcgttttcgctttgcaaaagagccgcttttggacggtaaaacagccgcttttaccttgcaaaacctacgcttttgaaacacccttataaacatctgattatctgataattacagagtaggtttttaaagaaatattgctttaagcattatacctacatttataccctattggaaaaaccgcaacacagcattaaggcacaaaagagaaatgtagaaacaaaaagaaatatcgggcgaaaaggataggattgcatcaaaaaagctactgacaatattgtcagtagctatatgtcagaattggcagaaataccttctaatgcggaaaggaaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aattgtttatatttttaattttaagtcttcaagcatattgaaacacgcattctgtgtattcgccaatcaatatacgaaaaccgtgccaaaaaagaaataagacgaaaatagtagggcgaaaatgcaagatatattctttgacgaggcaaaagcggcgttttcgctttgcaaaagagccgcttttggacggtaaaacagccgcttttaccttgcaaaacctacgcttttgaaacacccttataaacatctgattatctgataattacagagtaggtttttaaagaaatattgctttaagcattatacctacatttataccctattggaaaaaccgcaacacagcattaaggcacaaaagagaaatgtagaaacaaaaagaaatatcgggcgaaaaggataggattgcatcaaaaaagctactgacaatattgtcagtagctatatgtcagaattggcagaaataccttctaatgcggaaaggaaacta Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 2 End: 97 . M V Y I F N F K S S S I L K H A F C V F A N Q Y T K T V P K K K ...................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 58 Strand: + Start: 54 End: 227 ..................................................... M Y S P I N I R K P C Q K R N K T K I V G R K C K I Y S L T R Q K R R F R F A K E P L L D G K T A A F T L Q N L R F .................................................................................................................................................................................................................................................................... Protein_Len: 35 Strand: + Start: 381 End: 485 ............................................................................................................................................................................................................................................................................................................................................................................................ M S G E K D R I A S K K L L T I L S V A I C Q N W Q K Y L L M R K G N .. Protein_Len: 40 Strand: - Start: 323 End: 442 .................................................................................................................................................................................................................................................................................................................................. Q F F R L V A N L C L L S I Y F C F S I D P S F S L I A D F F S S V I N D T A M ............................................. Protein_Len: 40 Strand: - Start: 316 End: 435 ........................................................................................................................................................................................................................................................................................................................... V R N S F G C C L M L A C F L F T S V F L F I P R F P Y S Q M L F A V S L I T M .................................................... Protein_Len: 43 Strand: - Start: 70 End: 198 ..................................................................... Y V F V T G F F F Y S S F L L A F I C S I N K S S A F A A N E S Q L L A A K P R Y F M ................................................................................................................................................................................................................................................................................................. Protein_Len: 60 Strand: - Start: 32 End: 247 ............................... L I R F G H W F L F L V F I T P R F H L I Y E K V L C F R R K R K A F S G S K S P L V A A K V K C F R R K Q F V R I F M ................................................................................................................................................................................................................................................ Protein_Len: 60 Strand: - Start: 24 End: 215 ....................... I S V R M R H I R W D I Y S F R A L F S I L R F Y Y P S F A L Y I R Q R P L L P T K A K C F L R K Q V T F C G S K G Q M ................................................................................................................................................................................................................................................................................ aattgtttatatttttaattttaagtcttcaagcatattgaaacacgcattctgtgtattcgccaatcaatatacgaaaaccgtgccaaaaaagaaataagacgaaaatagtagggcgaaaatgcaagatatattctttgacgaggcaaaagcggcgttttcgctttgcaaaagagccgcttttggacggtaaaacagccgcttttaccttgcaaaacctacgcttttgaaacacccttataaacatctgattatctgataattacagagtaggtttttaaagaaatattgctttaagcattatacctacatttataccctattggaaaaaccgcaacacagcattaaggcacaaaagagaaatgtagaaacaaaaagaaatatcgggcgaaaaggataggattgcatcaaaaaagctactgacaatattgtcagtagctatatgtcagaattggcagaaataccttctaatgcggaaaggaaacta 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: 82 Start: 300 End: 329 ...........................................................................................................................................................................................................................................................................................................TTTCCAATAGGGTATAAATGTAGGTATAAT.............................................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aattgtttatatttttaattttaagtcttcaagcatattgaaacacgcattctgtgtattcgccaatcaatatacgaaaaccgtgccaaaaaagaaataagacgaaaatagtagggcgaaaatgcaagatatattctttgacgaggcaaaagcggcgttttcgctttgcaaaagagccgcttttggacggtaaaacagccgcttttaccttgcaaaacctacgcttttgaaacacccttataaacatctgattatctgataattacagagtaggtttttaaagaaatattgctttaagcattatacctacatttataccctattggaaaaaccgcaacacagcattaaggcacaaaagagaaatgtagaaacaaaaagaaatatcgggcgaaaaggataggattgcatcaaaaaagctactgacaatattgtcagtagctatatgtcagaattggcagaaataccttctaatgcggaaaggaaacta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 89 HP_score: -9.5 Tail_Score: -4.09685 Start: 152 End: 180 Full_Region: TTTGACGAGGCAAAA GCGGCGTTTTCGC TTT GCAAAAGAGCCGC TTTTGGACGGTAAAA .......................................................................................................................................................GCGGCGTTTTCGCTTTGCAAAAGAGCCGC................................................................................................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 64 HP_score: -4.2 Tail_Score: -4.27316 Start: 152 End: 202 Full_Region: TTTGACGAGGCAAAA GCGGCGTTTTCGCTTTGCAAAAG AGCCG CTTTTGGACGGTAAAACAGCCGC TTTTACCTTGCAAAA .......................................................................................................................................................GCGGCGTTTTCGCTTTGCAAAAGAGCCGCTTTTGGACGGTAAAACAGCCGC............................................................................................................................................................................................................................................................................................. TransTerm Strand: - Conf: 89 HP_score: -9.5 Tail_Score: -4.21194 Start: 152 End: 180 Full_Region: ttttaccgtccaaaa gcggctcttttgc aaa gcgaaaacgccgc ttttgcctcgtcaaa .......................................................................................................................................................gcggctcttttgcaaagcgaaaacgccgc................................................................................................................................................................................................................................................................................................................... TransTerm Strand: - Conf: 100 HP_score: -14.0 Tail_Score: -5.15634 Start: 416 End: 439 Full_Region: caattctgacatata gctactgaca atat tgtcagtagc ttttttgatgcaatc ...............................................................................................................................................................................................................................................................................................................................................................................................................................gctactgacaatattgtcagtagc................................................ Find igs database================================================ Query_seq: PI1236:PI1237|PI1236:PI1237:10 kDa chaperonin, cpn10, GroES:ATP-dependent DNA helicase:->->:1159341..1159827 487 aattgtttatatttttaattttaagtcttcaagcatattgaaacacgcattctgtgtattcgccaatcaatatacgaaaaccgtgccaaaaaagaaataagacgaaaatagtagggcgaaaatgcaagatatattctttgacgaggcaaaagcggcgttttcgctttgcaaaagagccgcttttggacggtaaaacagccgcttttaccttgcaaaacctacgcttttgaaacacccttataaacatctgattatctgataattacagagtaggtttttaaagaaatattgctttaagcattatacctacatttataccctattggaaaaaccgcaacacagcattaaggcacaaaagagaaatgtagaaacaaaaagaaatatcgggcgaaaaggataggattgcatcaaaaaagctactgacaatattgtcagtagctatatgtcagaattggcagaaataccttctaatgcggaaaggaaacta Intra-Species Hit: Count: 1 Min: 1 Max: 487 Len: 487 Subject: pint_PI1236_PI1237|10 kDa chaperonin, cpn10, GroES:ATP-dependent DNA helicase|POSITIVE:POSITIVE|[1159341,1159827]|487 HSP 1 e-value: 0.0 bit: 965.0 Len: 487 Query Start:1 Query End:487 Subject Strand: POSITIVE Subject Start: 1 Subject End: 487 aattgtttatatttttaattttaagtcttcaagcatattgaaacacgcattctgtgtattcgccaatcaatatacgaaaaccgtgccaaaaaagaaataagacgaaaatagtagggcgaaaatgcaagatatattctttgacgaggcaaaagcggcgttttcgctttgcaaaagagccgcttttggacggtaaaacagccgcttttaccttgcaaaacctacgcttttgaaacacccttataaacatctgattatctgataattacagagtaggtttttaaagaaatattgctttaagcattatacctacatttataccctattggaaaaaccgcaacacagcattaaggcacaaaagagaaatgtagaaacaaaaagaaatatcgggcgaaaaggataggattgcatcaaaaaagctactgacaatattgtcagtagctatatgtcagaattggcagaaataccttctaatgcggaaaggaaacta aattgtttatatttttaattttaagtcttcaagcatattgaaacacgcattctgtgtattcgccaatcaatatacgaaaaccgtgccaaaaaagaaataagacgaaaatagtagggcgaaaatgcaagatatattctttgacgaggcaaaagcggcgttttcgctttgcaaaagagccgcttttggacggtaaaacagccgcttttaccttgcaaaacctacgcttttgaaacacccttataaacatctgattatctgataattacagagtaggtttttaaagaaatattgctttaagcattatacctacatttataccctattggaaaaaccgcaacacagcattaaggcacaaaagagaaatgtagaaacaaaaagaaatatcgggcgaaaaggataggattgcatcaaaaaagctactgacaatattgtcagtagctatatgtcagaattggcagaaataccttctaatgcggaaaggaaacta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUGUUUAUAUUUUUAAUUUUAAGUCUUCAAGCAUAUUGAAACACGCAUUCUGUGUAUUCGCCAAUCAAUAUACGAAAACCGUGCCAAAAAAGAAAUAAGACGAAAAUAGUAGGGCGAAAAUGCAAGAUAUAUUCUUUGACGAGGCAAAAGCGGCGUUUUCGCUUUGCAAAAGAGCCGCUUUUGGACGGUAAAACAGCCGCUUUUACCUUGCAAAACCUACGCUUUUGAAACACCCUUAUAAACAUCUGAUUAUCUGAUAAUUACAGAGUAGGUUUUUAAAGAAAUAUUGCUUUAAGCAUUAUACCUACAUUUAUACCCUAUUGGAAAAACCGCAACACAGCAUUAAGGCACAAAAGAGAAAUGUAGAAACAAAAAGAAAUAUCGGGCGAAAAGGAUAGGAUUGCAUCAAAAAAGCUACUGACAAUAUUGUCAGUAGCUAUAUGUCAGAAUUGGCAGAAAUACCUUCUAAUGCGGAAAGGAAACUA ..((((((.(((((((...........(((((.....))))).((((..(((.(((((((........))))))))))...)))).......))))))))))))).....(((((((((((((((.(((.....)))........((....)).))))))))))))))).......((((..(((((.((((.....((((.((((((..(((((..((((..(((((....(.(((...((((.(((((....((((.......)))).))))).)))).....(((.(((.....))).)))..((((((((....((....)).......((......)).................)))))))).................))).).))))).)))).))))).......(((((((((((....)))))))))))....)).)))).)))).....)))).))))).))))..((....)). (-118.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUUUCCUUUCCGCAUUAGAAGGUAUUUCUGCCAAUUCUGACAUAUAGCUACUGACAAUAUUGUCAGUAGCUUUUUUGAUGCAAUCCUAUCCUUUUCGCCCGAUAUUUCUUUUUGUUUCUACAUUUCUCUUUUGUGCCUUAAUGCUGUGUUGCGGUUUUUCCAAUAGGGUAUAAAUGUAGGUAUAAUGCUUAAAGCAAUAUUUCUUUAAAAACCUACUCUGUAAUUAUCAGAUAAUCAGAUGUUUAUAAGGGUGUUUCAAAAGCGUAGGUUUUGCAAGGUAAAAGCGGCUGUUUUACCGUCCAAAAGCGGCUCUUUUGCAAAGCGAAAACGCCGCUUUUGCCUCGUCAAAGAAUAUAUCUUGCAUUUUCGCCCUACUAUUUUCGUCUUAUUUCUUUUUUGGCACGGUUUUCGUAUAUUGAUUGGCGAAUACACAGAAUGCGUGUUUCAAUAUGCUUGAAGACUUAAAAUUAAAAAUAUAAACAAUU .............(((((((((((((....)))).............(((((((((((....))))))))))).)))))))))..............................((((((.((............(((((..((....(((..((((.........((((((..(((((((((((((.(((.....)))....((((((.(((((((((.((.....((((..((((........))))...)))).......)).)))))))))((.(((((((((((((.......((((......))))...((((((...))))))..))))))))))))).)).)))))))))))).)))))))..))))))......))))..))).....))..))))).(((((((((((((((...(((.((.......)).)))...)))))))))..)))))).............)).)))))).. (-127.56) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 668 229 181 105 57 pint:PI0851|5end_hypothetical_protein_784310..784540_POSITIVE 668 229 181 105 57 pint:PI0841|5end_hypothetical_protein_775406..775636_POSITIVE 668 229 181 215 167 pint:PI0159|5end_hypothetical_protein_151273..151503_POSITIVE 668 229 181 127 79 pint:PI0157|5end_hypothetical_protein_151185..151415_POSITIVE 641 228 181 231 184 pint:PI0842|5end_5-formyltetrahydrofolate_cyclo-ligase_775533..775763_POSITIVE 612 229 181 86 38 pint:PI1679|5end_hypothetical_protein_1594744..1594974_POSITIVE 600 229 181 50 2 pint:PI0200|5end_hypothetical_protein_191545..191775_POSITIVE 597 196 151 218 173 pint:PI0653|5end_hypothetical_protein_596046..596276_POSITIVE 596 229 181 50 2 pint:PI0182|5end_hypothetical_protein_174093..174323_POSITIVE 583 197 151 73 27 pint:PI1666|5end_conserved_hypothetical_protein_1579231..1579461_POSITIVE 572 228 186 60 20 pint:PI0755|5end_hypothetical_protein_686691..686921_POSITIVE 571 200 151 54 5 pint:PI1195|5end_hypothetical_protein_1113171..1113401_POSITIVE 569 228 181 49 2 pint:PI1733|5end_hypothetical_protein_1652160..1652390_POSITIVE 553 199 151 78 32 pint:PI1760|5end_hypothetical_protein_1684413..1684643_POSITIVE 543 228 181 85 38 pint:PI2128|5end_hypothetical_protein_2076512..2076742_POSITIVE 540 228 181 49 2 pint:PI2131|5end_hypothetical_protein_2080678..2080908_POSITIVE 540 206 161 65 20 pint:PI1845|5end_hypothetical_protein_1791457..1791687_POSITIVE 534 185 145 209 169 pint:PI1437|5end_hypothetical_protein_1356088..1356318_POSITIVE 534 185 145 82 42 pint:PI1436|5end_hypothetical_protein_1355961..1356191_POSITIVE 519 229 181 204 156 pint:PI2111|5end_conserved_hypothetical_protein_2062771..2063001_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 642 220 173 151 102 pint:PI2011|3end_hypothetical_protein_1970730..1970880_POSITIVE 569 220 173 151 102 pint:PI0158|3end_hypothetical_protein_151298..151448_POSITIVE 553 199 151 128 82 pint:PI1761|3end_hypothetical_protein_1684543..1684693_POSITIVE 551 226 181 151 106 pint:PI0182|3end_hypothetical_protein_174277..174427_POSITIVE 510 220 173 151 102 pint:PI0200|3end_hypothetical_protein_191735..191885_POSITIVE 506 180 136 133 89 pint:PI0551|3end_hypothetical_protein_502683..502833_POSITIVE 492 200 151 54 5 pint:PI0054|3end_hypothetical_protein_54829..54979_POSITIVE 484 229 181 115 67 pint:PI0560|3end_hypothetical_protein_508910..509060_POSITIVE 465 200 151 113 64 pint:PI1141|3end_hypothetical_protein_1069713..1069863_POSITIVE 459 229 181 137 89 pint:PI0905|3end_hypothetical_protein_834697..834847_POSITIVE 453 182 142 151 112 pint:PI1512|3end_hypothetical_protein_1429893..1430043_POSITIVE 452 189 141 141 90 pint:PI1356|3end_hypothetical_protein_1273340..1273490_POSITIVE 443 189 145 120 75 pint:PI0819|3end_hypothetical_protein_759919..760069_POSITIVE 442 189 142 141 87 pint:PI2131|3end_hypothetical_protein_2080868..2081018_POSITIVE 438 197 155 41 1 pint:PI1051|3end_hypothetical_protein_970228..970378_POSITIVE 422 185 145 137 97 pint:PI1521|3end_hypothetical_protein_1441461..1441611_POSITIVE 422 185 145 46 6 pint:PI1520|3end_hypothetical_protein_1441370..1441520_POSITIVE 420 229 181 61 13 pint:PI0996|3end_hypothetical_protein_920660..920810_POSITIVE 419 185 145 88 48 pint:PI0567|3end_hypothetical_protein_513055..513205_POSITIVE 418 200 151 113 64 pint:PI0759|3end_hypothetical_protein_693998..694148_POSITIVE