Array 1 1372961-1371807 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP060591.1 Treponema sp. Marseille-Q4132 chromosome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 1372960 36 91.7 30 ..............G...........T..G...... AGGTTTCCCCATTGTTTAATCAAACCGTTC 1372894 36 100.0 29 .................................... ATTTTGAGATGAAACTCACGCGGGGCGAT 1372829 36 100.0 30 .................................... TTAATTTTCTTTTGGGCTCTTGAGATTTTA 1372763 36 100.0 30 .................................... ATTATACCCTTTCTTGTTGTGTATAATGCT 1372697 36 100.0 29 .................................... GACGTGGGAAACGAGCAATGCCGACGTTG 1372632 36 100.0 30 .................................... TATGGAGCGAATGGCTCGTGGTGGTGCTCG 1372566 36 100.0 30 .................................... GGTATTTGTCGGTGCTGCCGTGCAATTTAT 1372500 36 100.0 29 .................................... ACGATTCACCCGACCATATCGCCGATACC 1372435 36 100.0 30 .................................... TGGGTCAAGTGCTCACATTCTCATTTTCCG 1372369 36 100.0 29 .................................... TGCCTCCGATGCCGATAGCAGCAAACCGT 1372304 36 100.0 30 .................................... AATCACTGTAACAACAGATTACTACGGATT 1372238 36 100.0 30 .................................... GTTATCGGGTCGTTCGTGTTGAACGCTTGC 1372172 36 100.0 30 .................................... TGATGCTGTCTATACGAGCGTCGAGCTGCG 1372106 36 100.0 30 .................................... CGATAGCGCGGCCCGTGTTATAGGCTGTTT 1372040 36 100.0 30 .................................... ATCATCCGTTCTTAAATCATTGCGACATTC 1371974 36 100.0 30 .................................... TTAAATGAATTTACAAGCACTTGGTCTGCG 1371908 36 100.0 30 .................................... CGTATCGGCGCAGAAATAACGGAGGAAAAA 1371842 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ============================== ================== 18 36 99.5 30 GTTGCAGGTTGACCAGAAAAATTAATCAGTTATAAT # Left flank : TTCGGTTTGCGGTTCGTGGACGGAAGACGATCCCTGTCCTATCTGCTCGAACCCGCTCCGCGACAAAACCCTCATCTGCGTCGTCGAACAGCCGCAGGATGTGCAAACCATCGAAAGCGCGCATGAATACACCGGTTTGTATCACGTGCTCGGCGGCGTGATTTCTCCGATCGACGGTATCGGCCCGGATCAGCTGCGCATCGCCTCTCTCCTTTCCCGCGTAAAAAACGAACGCATCGAAGAGATAATCATCGCGACGAATCCGACGGTCGAAGGCGATACGACTGCGTTGTACGTGCAGCAGCTGCTTGCAAAAACCGGCGGTGTAAAAGTGACACGCCTCGCATCCGGCATTCCCGTCGGCGGTGATTTGGAGTATACCGATAAACTGACTTTAATGCGGAGCTTCCGCGGAAGGATTGCGTTGTAGGAAAACTATCGGGAATCGGCACTGATTTTAAAAATGCATTATACGTATAATTTCTGGTATGTTTTTTTAT # Right flank : TGCGTCCGGCGTAAACCGTTACAATACAAAGAAATGGTTTGTGCCGGACGTGTTATTTTTAAACGAAAATCAGAATAAAAGAAACTGTTCCGGCTGCTTTTTTTGCCGTTTTTCGCCCGCATTATAACTGATGATATTGCCATATTGCCTGTCCGTTATCGTGATAATATCAACTTTTCCCTTCGTCGGCAAGTTATCGTGTATCATTCTGTAGTATTTTTCGCAAGCATCTTTTCCCGAAAATAGTTTTGTATAAATGGAATATTGAACCATTGAAAAACCGTTGTCCAATAAAAATTTTCGGAATTCCGTAGCATCTTTCCGCTCTTTTTTTTCAATGACCGGCAGGTCGAACAGTACCATCATCCACATAAGTTCATACTTATTCAAAATCAAGTCGCGCATTTTCATCTCCGTCCCATAGGGGCAGTTCGATATCCGGTTTTTTATTTTCCAGCGCACATGCATAGGCATTTGCCATATATTGCATACTTTGAAAA # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTGCAGGTTGACCAGAAAAATTAATCAGTTATAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:69.44%AT] # Reference repeat match prediction: R [matched GTTGCAGGTTGACCAGAAAAATTAATCAGGTATAAT with 98% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-2.40,-1.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [56.7-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.78,4.77 Confidence: HIGH] # Array family : II-C [Matched known repeat from this family], // Array 2 1643746-1645395 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP060591.1 Treponema sp. Marseille-Q4132 chromosome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== =============================== ==================================== ================== 1643746 31 100.0 33 ............................... ACGTACGCGAAAGAAGTGCGGAAACAGCGGCGC 1643810 31 100.0 33 ............................... ATTTATGAGCGCCGTACCCGCGACGAGGTTTTT 1643874 31 100.0 33 ............................... TCGGGTGTACGGTAGCGGAAAATCAACTGCTTC 1643938 31 100.0 34 ............................... ACCGTAATTATAACGCGGGTTTATTCCCGTTGCA 1644003 31 100.0 34 ............................... TATTAACAGCCGTTACAGCACACGACAAGCGCAA 1644068 31 100.0 34 ............................... GTATACATTATGCGTTTGAGTGAAAACGCGGTAC 1644133 31 100.0 33 ............................... GTAACGACGGTTGCGACGCGTGAATATTATCGC 1644197 31 100.0 34 ............................... AAAGCGATAGCGACAAATTTGCCTTTAAACTCAA 1644262 31 100.0 34 ............................... GTATCACGGAGCGGCATCATGTTCCCGCTCCCGG 1644327 31 100.0 33 ............................... AGATCACTCATGCGTATACCCCCGTTTTCCAAC 1644391 31 100.0 33 ............................... AATACGATGGAAAATCTGCTGAAGCATCGCGTT 1644455 31 100.0 34 ............................... AGCAATCAAAAGCACGAGCGCTCGTCGAGAGTTG 1644520 31 100.0 34 ............................... TTATAAGATTGGCGGAAATGGGATATCCGATTAA 1644585 31 100.0 34 ............................... TTAATATAAAATCCGATTTATCACCGCATGAAAT 1644650 31 100.0 33 ............................... GTCTTGTTGTTTTTCAAGAGCCGACACTAAATC 1644714 31 96.8 34 ...G........................... ATTTTGAAATTGCAAGCGATCAGAATGATGCGAT 1644779 31 96.8 34 ...G........................... AAAATGACATAATACTCTCCGTCAAAGAGCATCT 1644844 31 93.5 33 ...G......C.................... ACGTGTTAAATCCTCAAGCGATTCATCAATCTC 1644908 31 93.5 34 ...G......C.................... GGGAAACATATTTTCTGTGTGTGCGCGCGTAAGC 1644973 31 93.5 34 ...G......C.................... ACATACACTACGGGTAAATCGGGAATGCTCTCGC 1645038 31 93.5 35 ...G......C.................... TTGCACCCCTTACTAATTTTTACGCGCGCGGCCGC 1645104 31 93.5 34 ...G......C.................... AGCATCTTTTTTATCGATGACAAATCCGATTAAT 1645169 31 93.5 33 ...G...........A............... TATGCCCGTGATCGGACCGGATATATACAGTTT 1645233 31 90.3 36 ...G...T.........A............. AGTATTGAAGGTGATACGGAAGATTTTAACGGTCCG 1645300 31 96.8 34 ...G........................... CCGGTCGAAAGAATGAGACCCTTTACAACCATAC 1645365 31 90.3 0 ...G...............AA.......... | ========== ====== ====== ====== =============================== ==================================== ================== 26 31 97.4 34 GTCACTCCCTTACGGGAGCGTGAATTGAAAC # Left flank : GACGGCTACCCGGTATACCTTTGGAAATAAAAGAGGGCGCGCACGATGATGATGCTGGTAAGTTATGATGTGGCAAAAGATGAAAAAGGGGAAAAGCGGCTCCGGCATGTAGCGAAGATTCTTGAAAATTACGGACAGCGGGTTCAATATTCCGTCTTTGAATGCTTGGTAGACCCTGCGCAATGGGTTGCGCTGAAAAGTAAATTACTTAATGAAATAAATCCGAATTACGACAGTATTCGTTTTTACGCGCTCGGTGCAAATTGGGAGCGAAAAGTCGAACACGTGGGGCAAAAAAAGCCGATCAATCCGCAAGGTATTTTGATTTTATAATCGAATTTCCTGCCGCGAACGGGAAGCACACATCGGTTATTCATTACGCTTGAATTCTATAATCCGTTATATTATAGTGAATTAGATATTCGCATTATAGTGTCCGAACTAAGTTCGCGGAAATTATACTGTAAATATCGATATTACAAAAAAATAACTGCTATACC # Right flank : CTTCGTTACAATCAACAGCAACGCATTCGTTTCCGTGTCGCTTCCAGTTTGCGAGAACTCGAAATTTTCCAATTCTTTCATGCATTAATGAATAGCGAGTTTTAAAAATAAATAAGAGGAAACACACATTCCCCCGCGTTCCTGTATGCATCCCGTGTATGGGATCGCATCGCATTTCGTTGACAAAGCCTTCTTTCGGTGATAGTGTTTTTATCCGGTGAGATACGATAAACGGCGGCGCCGATAGTTTGCCGTCGTTTTTATCAAAGCTTTGCGATTTTCCGCAAAAATTACGGAGGCTTAGTATGAAAAAAGATTTAGGCGTTCATCCCTACGTGTTTCCCATGCCGGTGCTCATGGTTGCGACGTATAACGAAGACGACAGCGTCGACGTTATGAATATGGCATGGGGCGGTATGTGCGCGGAAAATATGGTCGCACTCAATCTCGACGAATCGCACAAAACGTCCGAAAATATCAAAAAACGCGGAGCCTTTACG # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:0, 3:3, 4:0.87, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.96, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTCACTCCCTTACGGGAGCGTGAATTGAAAC # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: F Score: 4.5/4.5 # A,T distribution in repeat prediction: F [8,7] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [-5.10,-5.90] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-9] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-51.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.55,0.37 Confidence: HIGH] # Array family : NA // Array 3 1904179-1904534 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP060591.1 Treponema sp. Marseille-Q4132 chromosome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================ ================================= ================== 1904179 32 68.8 33 TAGAT.CG...GCT.................. TGGGAACTCGAAGACGGGCTTAAAAAGCTCTTG 1904244 32 90.6 33 G.....A......G.................. TTGCATTATTTACCTATTCCGATCATAGCACGG 1904309 32 100.0 32 ................................ AAGGATTATGAGGCGGTAAAAGCGGACGTCGA 1904373 32 93.8 33 .........T...C.................. ACTTCCGGTAATTTTTCATGTGGAGCTATAACA 1904438 32 96.9 31 C............................... GAGGGGTACGACAATCGCGGACGGCACGTAG 1904501 32 87.5 0 G...A........C.................T | TG [1904527] ========== ====== ====== ====== ================================ ================================= ================== 6 32 89.6 33 AGTCGCTCCCTCAAGGGAGCGTGAATTGAAAC # Left flank : ATCTGCTTATGCCGGATTGGAGCACCACGGAGCTTCTTCGCAGCGAGCCGATAGGTGAAGCTTCAAGCGAAGCCGGTTGGTACATAACGCGTCGTTCTGAAATAGCGGATATCTACGACACGCGATATGCCTATCCGGCCGATGCTTTGGGTACCGAAGGCATGCTGGATAATAATTTCCGCTTACGCAAACGGCGCTCTTGCACTTGAATATGAGCTGATAAGCCGGATTATAAAGGCGCGGACTAGAAAGAAAATGACACAAAAGCAGCGTGCCTAAAAAACCGGTATACGACAATCCAACATTGCCCGATTGGAATGCGGGTTTAAGCGGGAGATAAAAGCGATCATCCGATCGTGCAAAAGCTCAAAGATACCGAGGACAAAGAACGCATCGCCGATATTTTTTTCGTGCTGCTCGATCAGGTGCTGCTCGTCGGCGGCGAAGAGCTGAAAGATCCCGCCGACTTCGTAAGGCGCATGAACAATCTTTTGAGCAGA # Right flank : TGAACAGCCGCTCATTGTTCTCTTGCAGCGTGCCGTCGTGAAAACGACGGCTTTTTTTTTATATTTTTTGAGATTTATTTGACGGCCGGATATACATGGGTTATACTTAAAAGCAAAATAGTACGTTTACAACAGTGTACTGCATCGGATATTCATAATAAAAATATATTAGTCGGATAAAAAAGGTCGTTCTTATGAAAAAAATCGCGGTTATTGCATACGATAAAGTTTCCGCAGATGTGTACGCGGAGCAAATTCGATATTTTATGGGCGATAAAGCCAGGGTGTTTCCCTACAGTACGAAAGAGAATTTTACCGGAATCCGACCGGCCGATCTTTATTTGATTTCCACTTGCGCGTGTACCGAACTTAATAATTTTCAAAGCCGGCTGCCGCCTAAGAGCGAAGTGATTATCATTCAAGTAACGATACGGAAAGAAAGCTTAAAACAATTATTAAAAATTCCGCAAGGGACGAAAGCGCTTGTTGTCAATCTCAGT # Questionable array : NO Score: 6.65 # Score Detail : 1:0, 2:3, 3:3, 4:0.48, 5:-1.5, 6:0.25, 7:0.01, 8:1, 9:0.41, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : AGTCGCTCCCTCAAGGGAGCGTGAATTGAAAC # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: F Score: 4.5/4.5 # A,T distribution in repeat prediction: F [6,3] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTCGCTCCCTTCACGGGAGCGTGGATTGAAAT with 95% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [48.3-51.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [9.78,0 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], //