Array 1 2574-2388 **** Predicted by CRISPRDetect 2.4 *** >NZ_KQ958181.1 Megasphaera sp. MJR8396C Scaffold134, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ======================================== ================== 2573 36 97.2 40 .................................G.. CAGCCATCCAGTTAGCATAGCGGGAAGCTTTTTTAGCGAG 2497 36 100.0 38 .................................... GCCGTACTGGATTTATTGTGGGCAAGCTGACCTTGTTC 2423 36 94.4 0 ...........C......T................. | ========== ====== ====== ====== ==================================== ======================================== ================== 3 36 97.2 40 GTCGCATTACCAAATTCCCCGTAAGGGGACTGAAAC # Left flank : GTATACTAAAGAAAAGTCAAAGTAATGCGACGGCTTTGGAAAACCGATTTTAGGGGCAAAAACCCCGTAGGTTTGAAAATTTCCAAAAGCCTTACAAACGGCATGGTTGTGCGACGAAAACTCGATTTCAATTTTGAGTTTTAACCCAGGTCCCCGAAAAAGGCGAAAAAAGCCCGAGGTTTGAAAAAATCGCCTGTGGGCCCGCTCCCAGAGCGGGTACTGGGAGACAGAGGTCGCATTACCAAATTCCCCGTAAGGGGACTGAGACTGTCTCGTTAAACCACTGTCCATATTTTTTAATATTTTGTCGCATTACCAAATTCCCCGTAAGGGGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTACCAAATTCCCCGTAAGGGGACTGAGACCCGAGTCCGCGTCATGAAGAACCATGCGCAACTGGT # Right flank : TTGTTGTTATTCAGTAATACCAGAACGCCGGTTTTCTTGTCGCATTACCCATTTCCCCCGGGTTTAATATGCTCCTTTTCAAAAAAGAGGTAATCAATAGGGGGACGGAAAGTCCGAAGGCTTTTGTTTCTAGAATAAGGAATGAAAAAAAGTCGATACAGGCATCCATTTGTGATGTCTTGTATCGACTTTTTGTTGTCTATGAGAGCTATAAGCGGGACGTAGGACGAGGTTTATATCCTTTATGGGGTGGAAGAAGGGCGATAATACGGGACTTTAAAGATAAAACGAATCTTTGAGAAATGGCTTTCTAAGGCGGTGTACCGGCTTTTGTGAGGCGCTTTTTTAGGCAGGTGTAACGCGTTACCTTATAAGAAGAGAAGAAAAGAAGAGAATAGAAATAGAAAAGACAAGATATAAAAAAGATAAGACATAGAAAATATAAAGAGATAAGAGTATAAGTAGATATAATATTTTTTTGTTTTTAAATTCATGATTTT # Questionable array : NO Score: 2.53 # Score Detail : 1:0, 2:0, 3:0, 4:0.86, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : GTCGCATTACCAAATTCCCCGTAAGGGGACTGAAAC # 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: R [7,11] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [-8.40,-9.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [55.0-43.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,1.15 Confidence: MEDIUM] # Array family : NA // Array 1 23977-23733 **** Predicted by CRISPRDetect 2.4 *** >NZ_KQ958201.1 Megasphaera sp. MJR8396C Scaffold399, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ======================= ===================================================== ================== 23976 23 100.0 53 ....................... GTAACTACATAATGGCAATGGCCGTTAATCGGTTTATGGCAGTTAAGAACCTC 23900 23 91.3 48 .......TC.............. GGTAGAATGACAGGCTATCCATGGCCTTATTGGTAAGTTAAGAACCTC 23829 23 100.0 51 ....................... TTCTTGCATTTTTTTCGTTCTGCTTAATCTGTTTTAGGCGTTAGAAACCAT 23755 23 73.9 0 ...............G.T.TTTT | ========== ====== ====== ====== ======================= ===================================================== ================== 4 23 91.3 51 AATCCCCGTAAGGGGACGGAAAC # Left flank : GGCCTGGATCCTACTGACCTATCAAAATGGCCAGTATACCACCGTCAACGACGGCATCATCCTGCCCTTTGTAACGAAATAATGAGATAAGAAACTCGGTGGAAATTCTCTGATATCAGACACATTTTTCCATGCTAATCAGGGATTCCAGAATACTTTTGGCAGATAATGAGGATAATTTAAGTGCTTTCCATATTAAACAGGGATGATTGAATAAATCATCCCTGTTTATTTTATGCAGTAAAAAGTAAGTATGACTTGAAATGCTGTATAAGTATATAGTGTATAAAAATATAAACAGTGGTATAATAAATATAGTTGATTGAAGACGGCATTAAAGCATATTCCACCCCGCAATAGCAATGATGCCGATTTTCATAGTTTATAGTATCAATTATCAATATAAAACGCTGAAAAACGGCAAAAATAAAATCCGCCCCGCAAACGCCATTTTTGATGGCTTAGTTATGCCATCTGTAAGGGGTGCCGTTAAGAACCTC # Right flank : TGGACGAAAAAAGCTATGGATTTATGTTTGTATACATGGGTCCATAGCTTTTATGTTCTATGGATGGTATTGAATCTTTAGAAACATGGTGTGGGGTAATTTTTGATTACGGTGGCTCATTTACTTTCATTAGAGATTTCGCTAATTGGCTGTGATATGATAGAATGAAGGTATAATCATGGATGGCGGGGTGAGGGTATGGCCTATAACGTACCGGATGTGGTTTTGCAGGATATTTCTCGATTTGCGGAGAAACATGGGATTCGTCGGGTCCTTTTATTCGGTTCCCGAGCCAGAGGGACGCAGACGGAACGCAGCGATATTGATCTGGCTGTCTGCGGCGGGGATTTTGACGGCTTTTACTGGGATATCAAGGAACATGCGCACTCTTTGTTGATGATCGATGTTGTTAATTTAGATGCTGGTGTTTCTGACAATCTGCAACGGGAATTGGAAAGGGATGGGGTCACGCTGTATGAAAAAGTTGGATAATTTTTCAA # Questionable array : NO Score: 5.01 # Score Detail : 1:0, 2:3, 3:0, 4:0.56, 5:0, 6:0.25, 7:-0.40, 8:0.6, 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 : AATCCCCGTAAGGGGACGGAAAC # 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: R [5,12] Score: 0.37/0.37 # Reference repeat match prediction: R [matched AATCCCCGAAAGGGGACGGAAAC with 96% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-9.60,-9.10] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [10-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [66.7-50.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.64,5.28 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 1 61511-61680 **** Predicted by CRISPRDetect 2.4 *** >NZ_KQ958202.1 Megasphaera sp. MJR8396C Scaffold419, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ======================= ====================================================== ================== 61511 23 100.0 54 ....................... AATTAATACTTGTTCAACCATGTCAAACCGAACTTCGTTGCTGTTTAGAACCTT 61588 23 100.0 47 ....................... AGGGTAGTCTTTCCCTCGATAGCAAAAAGTTCCGAGTTTAGAACCTT 61658 23 78.3 0 ..................NNNNN | ========== ====== ====== ====== ======================= ====================================================== ================== 3 23 92.8 51 AATCCCCGTAAGGGGACGGAAAC # Left flank : TAACAGCGTAAGCCCGATGGGGCAGATCTAAAAATAGAGTAGTAGCTTATAAAAGTTACTACTCTATTTTTTATCGAAAGCGGTAAGGCGGGTTCCGATTTAACGGTAGAGAATCGTTTGAAGGTTGACGGTCTGGGGAGAACCTGTCTTGGTAAGGGATTGGAGAGGGGATATTTTGGGATTTCCAGATCTCAAGCAATCGAAGCTCATGTCCATAAACCCCCCTTTTGGAGAGCGCTTAAAAAAGGTATTTCATAGCGGCGTTGTCGGAAAGTACTATGATATCCGCCAAAGAATTTCAAACATATGGTATAATATAAATAGATTTACGGATTTTATACCATTCTGCCCCCGATGGGATGAAACTGCGGCTGATGGGGATTTTTGAAAGAAACTTTCAGCGAAAAAGCAGAAAACAGCCGAAACATAAAATCCGCCCCGCAAATGTCCTTTTCAATGGCGTAACGAAGCCATTTGTAAGGGGTGCTGTTTAGAACCTT # Right flank : NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACCTTAATCCCCGTAAGGGGACGGAAACTTAATGTCGCTAAAATTGGGCTCTTCGGCCTGAGTTTAGAACCTAAATCCCCGCAAGGGGACGGGAAGCTTTCTGCTTTGAAGCGTAAATCTGAAGTTGGAATGAGAAAAGCCGCTGCGGGCATCTGTTTGTGATGTCTTGCGGCGGCTTTTTGCCATGTAGGAGTACTTGGTTGGGTGAAGGGGTACGAAATGATCGTATTGTAGCTTTTACGTAGAGGGACGATGGAGTTCGGAGTATGATGCAGGATGTCCTTTTTAGAGCGACGTTATCATTAGATCCATGCTATAATAGAACTAAAAAAGTGCGGAAAAAGGCATTCTTCAAAGCACGAGATAGGCGGTATAAGAATATGTCTCACGAAGAAAAACGGGTA # Questionable array : NO Score: 4.70 # Score Detail : 1:0, 2:3, 3:0, 4:0.64, 5:0, 6:0.25, 7:-0.59, 8:0.4, 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 : AATCCCCGTAAGGGGACGGAAAC # 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:52.78%AT] # Reference repeat match prediction: F [matched AATCCCCGAAAGGGGACGGAAAC with 96% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-9.10,-9.80] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [51.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.18,0.37 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 1 57024-56468 **** Predicted by CRISPRDetect 2.4 *** >NZ_KQ958195.1 Megasphaera sp. MJR8396C Scaffold316, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ========================================= ================== 57023 36 100.0 41 .................................... TCGTCGACAGCTGCTTTATAGGTAGCTTCGATAATTTCGTC 56946 36 100.0 37 .................................... CGCTTAAAGAGCCATCCGTATTTCTCGATGGCTTTCG 56873 36 100.0 38 .................................... TACGATTTAACATTAAATCGCGATAAGAAAATTTTAAC 56799 36 100.0 37 .................................... CACCATTTGATACCTGTAATTGTCGACGGATTTTCGA 56726 36 100.0 40 .................................... TCTTGGAATAAAGCCATCATTTTATTGAATGGACGTTCTC 56650 36 100.0 38 .................................... GAGTCAGGGCGACTCATCGCTGCTATTGTTTTGCATGT 56576 36 100.0 36 .................................... ATCGCCAGTAAGACCATGAACGAGAGAAAGTCATAC 56504 36 77.8 0 T.G.AGC.....................T....C.G | T [56487] ========== ====== ====== ====== ==================================== ========================================= ================== 8 36 97.2 38 GTCGTATTACCCATTTCCCCGTAAGGGGACTGAAAC # Left flank : TCGACGGATTTTCGAGTCGTATTACCCATTTCCCCGTAAGGGGACTGAAACTCGTCGACTTCCATCCAGGTGTTACAGTCGTTACAGGTCGTATTACCCATTTCCCCGTAAGGGGACTGAAACCACCATTTGATACCTGTAATTGTCGACGGATTTTCGAGTCGTATTACCCATTTCCCCGTAAGGGGACTGAAACTTACGTGTATCCACCAAAAGGATTGCACTTCAACGAGTCGTATTACCCATTTCCCCGTAAGGGGACTGAAACAGCGTTATCTAACGCCTCTCCGAGATTTTTATAGAAGTCGTATTACCCATTTCCCCGTAAGGGGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCCATTTCCCCGTAAGGGGACTGAAACCCGGCGGTAATGCCGTTGCGGCCATCACAAAGCAGCGCAT # Right flank : GATAAGTGAAAACTTGTCCTGATTTTTTTATATTTTTTTTGCCTGATGGAGGTGGTGCTGTCCATGCGGTATCTTATTTGCTATGATATTGCGGATACGAAACTTCGTACCAAGGTCGCTAAGTATTTAGAAGGCTTTGCTTTTCGTATCCAGTACAGTGTCTTTATGTGTGAAAACACGGAAAAGGGCATGGCGGAAGTCTATAAGCGCCTCATTGTTTTGACGCACGATGCTTCAAAGAAAGCGATTCTTATCGTTCCCCTGTGTCGGAGCTGCGAAAGCAAGATGAAGACCCTTGGCACGGCCATTGAAAGTGAAACGTATTGTATCATTGCCTGAAAGAAGGGATGTCATGAGTGTTCTCTACTTGCTCTCGACCGGCAGTTACTTGCGGAAAATCAAAGACCGCCTACTCATCGGCAGGGCTGATGGAAGTCATAAGAGTCTACCTATTCAAAACGTCGAGCAAATCGTCCTCAATAAGGGCGGCAAGATTACAC # Questionable array : NO Score: 3.12 # Score Detail : 1:0, 2:0, 3:0, 4:0.86, 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 : GTCGTATTACCCATTTCCCCGTAAGGGGACTGAAAC # 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 [9,9] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [-8.40,-9.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [9-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [65.0-38.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,0.78 Confidence: MEDIUM] # Array family : NA // Array 2 57804-57256 **** Predicted by CRISPRDetect 2.4 *** >NZ_KQ958195.1 Megasphaera sp. MJR8396C Scaffold316, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ======================================= ================== 57803 36 100.0 38 .................................... CCGCATCGAGCATGATACGCGAAAATGAGTTGTCACGT 57729 36 100.0 37 .................................... CACCATTTGATACCTGTAATTGTCGACGGATTTTCGA 57656 36 100.0 39 .................................... TGACGTTAGCACGATAACCATAAAACGGATTGTTTTTCT 57581 36 100.0 37 .................................... CACCATTTGATACCTGTAATTGTCGACGGATTTTCGA 57508 36 100.0 36 .................................... TCGTCGACTTCCATCCAGGTGTTACAGTCGTTACAG 57436 36 100.0 37 .................................... CACCATTTGATACCTGTAATTGTCGACGGATTTTCGA 57363 36 100.0 36 .................................... TTACGTGTATCCACCAAAAGGATTGCACTTCAACGA 57291 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ======================================= ================== 8 36 100.0 37 GTCGTATTACCCATTTCCCCGTAAGGGGACTGAAAC # Left flank : AAGATATACTAAATATAAATAAGGGTAATACGTTAGCCCAAAGAAAACCTATTTCAGGGTCAAAAAACCGGTAGGTTTGAAAATTTCAAAAAGGGCTAAAAATGGCGTAACTAAGGGAAAAAACGACACTGTCCGATTTTGGTTTTGAACCCGGGTCCCCGAAAAAGGCGAAAAAAGCCCGAGGTTTGAAAAAATCGTCTGTGGGCCCGCTCCCAGAGCGGGTACTGAGGGACAGAGTCGTATTACCCATTTCCCCGTAAGGGGACTGAAACTTATGGCGCGAACACTTTTCCACCAGGCCGCGCTTTGTGTCGTATTACCCATTTCCCCGTAAGGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCATTTCCCCGTAAGGGGACTGAAACTCGTCTGTCTTTCCGATAACGGCAATGACGTTATGCGT # Right flank : AGCGTTATCTAACGCCTCTCCGAGATTTTTATAGAAGTCGTATTACCCATTTCCCCGTAAGGGGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCCATTTCCCCGTAAGGGGACTGAAACCCGGCGGTAATGCCGTTGCGGCCATCACAAAGCAGCGCATGTCGTATTACCCATTTCCCCGTAAGGGGACTGAAACTCGTCGACAGCTGCTTTATAGGTAGCTTCGATAATTTCGTCGTCGTATTACCCATTTCCCCGTAAGGGGACTGAAACCGCTTAAAGAGCCATCCGTATTTCTCGATGGCTTTCGGTCGTATTACCCATTTCCCCGTAAGGGGACTGAAACTACGATTTAACATTAAATCGCGATAAGAAAATTTTAACGTCGTATTACCCATTTCCCCGTAAGGGGACTGAAACCACCATTT # Questionable array : NO Score: 3.26 # Score Detail : 1:0, 2:0, 3:0, 4:1.00, 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 : GTCGTATTACCCATTTCCCCGTAAGGGGACTGAAAC # 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 [9,9] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [-8.40,-9.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [58.3-50.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.37 Confidence: MEDIUM] # Array family : NA // Array 1 2546-2908 **** Predicted by CRISPRDetect 2.4 *** >NZ_KQ958211.1 Megasphaera sp. MJR8396C Scaffold626, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================ =================================== ================== 2546 32 100.0 34 ................................ ATGCCGATGATCGAGGGGCGTTCTTCTGTCGGGC 2612 32 100.0 34 ................................ ATAGCAACTCCGTATCATGTTTCTATGGTATAAT 2678 32 100.0 33 ................................ AAAGGCGGCGATAGGAGACTGCAAAGCCTTAAC 2743 32 100.0 35 ................................ ATATCCGAGGCCGAGCATATGAAGGCCCAGAACGA 2810 32 100.0 35 ................................ TTTATGACGACGTATGGAACGACCGAGAAGACCCA 2877 32 100.0 0 ................................ | ========== ====== ====== ====== ================================ =================================== ================== 6 32 100.0 34 GTCGCACCCTTCACGGGTGCGTGGATTGAAAC # Left flank : AGTTTATATAGCCTTGAGATGAGACTCTATTTTCAGTGGGTAAGGTGTCAACCATAGGAAGGTGAAGCAGATGAAGAAGATGAAAATAAGTCGGATTATCGGTTTTGGTTTTGGATTTATGCTCCCGAAGATATTAAAACCGGCGATAAAAATTGCCGTGATTTTGGGAATTGGGTATTTAAGCACGAGAGGTTATAAGCAACAAAAAGAGCAACTTGAGATGAATAATGAGTGAGATCTTGAATAAGAAGTCGACGGATTCCAGGCTGACTGACTAATGGAATACCCTATAAAATTTATGGTGGAGTCACAAAAACGCGCCAGGGTAAAAGTAAGGATCGGAAGTGCGAAGAGATAGTGAACATCTTCTTCGCTGCCAAAATACTTGATTGAAATATAAAAATTTTGATCAAATCCCTAAAGTAGTAAGAAGAAAGTGTATAAGTGGGGCCATATCCCCATCGATACACGCAAAAGAGACTGTAAAAAGTCCTTTTGCT # Right flank : CATCAACCGCGGCGACCAACTGCCGCGCATCTTTAGTCGCACCCTTCACGGGTGCGTGGATTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCACCCTTCACGGGTGCGTGGATTGAAACGATTTGGTTGAAATAATACGCAATTTAGGAGATAGTCGCACCCTTCACGGGTGCGTGGATTGAAACAAGTATGTTGCCATATACTGCTGGAAACGGATGTAGTCGCACCCTTCACGGGTGCGTGGATTGAAACTATTATCCTCCTATTCGACTTTTATACCATACCCGTCGCACCCTTCACGGGTGCGTGGATTGAAACAAAATTACCCGGTTTGCCCTCTAACTCTAAAGCAAGTCGCACCCTTCACGGGTGCGTGGATTGAAACTTCGGTGGACCCGTCCGGGGCAAAACAAGCCGAGTCGCACCCT # Questionable array : NO Score: 9.26 # Score Detail : 1:0, 2:3, 3:3, 4:1.00, 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 : GTCGCACCCTTCACGGGTGCGTGGATTGAAAC # 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: R [7,8] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTCGCACCCTTCGCGGGTGCGTGGATTGAAAT with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-6.40,-5.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [56.7-36.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [10.05,0.37 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 2 3067-3495 **** Predicted by CRISPRDetect 2.4 *** >NZ_KQ958211.1 Megasphaera sp. MJR8396C Scaffold626, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================ =================================== ================== 3067 32 87.5 34 NNNN............................ GATTTGGTTGAAATAATACGCAATTTAGGAGATA 3133 32 100.0 35 ................................ AAGTATGTTGCCATATACTGCTGGAAACGGATGTA 3200 32 100.0 34 ................................ TATTATCCTCCTATTCGACTTTTATACCATACCC 3266 32 100.0 35 ................................ AAAATTACCCGGTTTGCCCTCTAACTCTAAAGCAA 3333 32 100.0 33 ................................ TTCGGTGGACCCGTCCGGGGCAAAACAAGCCGA 3398 32 100.0 34 ................................ TAGTATGATTTCATCCGATGGTATCCTAATCATA 3464 32 84.4 0 ...........................NNNNN | ========== ====== ====== ====== ================================ =================================== ================== 7 32 96.0 34 GTCGCACCCTTCACGGGTGCGTGGATTGAAAC # Left flank : TGGATTGAAACATGCCGATGATCGAGGGGCGTTCTTCTGTCGGGCGTCGCACCCTTCACGGGTGCGTGGATTGAAACATAGCAACTCCGTATCATGTTTCTATGGTATAATGTCGCACCCTTCACGGGTGCGTGGATTGAAACAAAGGCGGCGATAGGAGACTGCAAAGCCTTAACGTCGCACCCTTCACGGGTGCGTGGATTGAAACATATCCGAGGCCGAGCATATGAAGGCCCAGAACGAGTCGCACCCTTCACGGGTGCGTGGATTGAAACTTTATGACGACGTATGGAACGACCGAGAAGACCCAGTCGCACCCTTCACGGGTGCGTGGATTGAAACATCAACCGCGGCGACCAACTGCCGCGCATCTTTAGTCGCACCCTTCACGGGTGCGTGGATTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN # Right flank : NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCACCCTTCACGGGTGCGTGGATTGAAACATGTTTGACTGGGCGAAGTCGCTTAACTGGACGAGTCGCACCCTTCACGGGTGCGTGGATTGAAACTTTTCGGATCATACGTTAATACGTTAGACATTAAGTCGCACCCTTCACGGGTGCGTGGATTGAAACCTCGATCAAGTACAGCGGACTTGCGATAATCATCGTCGCACCCTTCATGGGTGCGTGGATTGAAACTTATAATCGCATGTAAGGAGATGTGTATATATGAGTCGCACCCTTCATGGGTGCGTGGATTGAAACGGTTATATAGGCCTCGATCATTTGTTTTTGCTCAAGTCGCACCCTTCATGGGTGCGTGGATTGAAACTTCGTATTCACCCAGGACATAACGGCGCTGGTAGTCGCACCCTTC # Questionable array : NO Score: 9.06 # Score Detail : 1:0, 2:3, 3:3, 4:0.80, 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 : GTCGCACCCTTCACGGGTGCGTGGATTGAAAC # 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: NA [7,7] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTCGCACCCTTCGCGGGTGCGTGGATTGAAAT with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-7.10,-8.60] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [5-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [9.41,0.37 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 3 3653-3950 **** Predicted by CRISPRDetect 2.4 *** >NZ_KQ958211.1 Megasphaera sp. MJR8396C Scaffold626, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ================================== ================== 3653 33 97.0 33 .............C................... TTTCGGATCATACGTTAATACGTTAGACATTAA 3719 33 93.9 33 .............C..................C TCGATCAAGTACAGCGGACTTGCGATAATCATC 3785 33 100.0 33 ................................. TATAATCGCATGTAAGGAGATGTGTATATATGA 3851 33 97.0 34 ................................G GTTATATAGGCCTCGATCATTTGTTTTTGCTCAA 3918 33 100.0 0 ................................. | ========== ====== ====== ====== ================================= ================================== ================== 5 33 97.6 34 GTCGCACCCTTCATGGGTGCGTGGATTGAAACT # Left flank : GTGGATTGAAACAAGTATGTTGCCATATACTGCTGGAAACGGATGTAGTCGCACCCTTCACGGGTGCGTGGATTGAAACTATTATCCTCCTATTCGACTTTTATACCATACCCGTCGCACCCTTCACGGGTGCGTGGATTGAAACAAAATTACCCGGTTTGCCCTCTAACTCTAAAGCAAGTCGCACCCTTCACGGGTGCGTGGATTGAAACTTCGGTGGACCCGTCCGGGGCAAAACAAGCCGAGTCGCACCCTTCACGGGTGCGTGGATTGAAACTAGTATGATTTCATCCGATGGTATCCTAATCATAGTCGCACCCTTCACGGGTGCGTGGATTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCACCCTTCACGGGTGCGTGGATTGAAACATGTTTGACTGGGCGAAGTCGCTTAACTGGACGA # Right flank : TTCGTATTCACCCAGGACATAACGGCGCTGGTAGTCGCACCCTTCATGGGTGCGTGGATTGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCACCCTTCATGGGTGCGTGGATTGAAACTATATCTTCGATTGCCGATTGAATTTGATCTTCACGTCGCACCCTTCATGGGTGCGTGGATTGAAACTGTACGCGGATTGTCGGACTTCATCATAGCGATCGTCGCACCCTTCATGGGTGCGTGGATTGAAACGTGCTGGCGGTATCCGTGACAGACGGCGCGTTGGGTCGCACCCTTCATGGGTGCGTGGATTGAAACTGCGTCCCAGCAAGGGTTATGCAGCGTATACAAGGTCGCACCCTTCATGGGTGCGTGGATTGAAACGTTTATATGTCGGATGCGGTTGACAGCCTTGCGTCGTCGCACCC # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:0.92, # 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 : GTCGCACCCTTCATGGGTGCGTGGATTGAAACT # Alternate repeat : AGTCGCACCCTTCACGGGTGCGTGGATTGAAAC # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: F Score: 4.5/4.5 # A,T distribution in repeat prediction: R [7,8] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTCGCACCCTGCGTGGGTGCGTGGATTGAAACA with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-7.80,-7.80] Score: 0/0.37 # Array degeneracy analysis prediction: R [0-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [46.7-45.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [9,0.78 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 4 4109-4473 **** Predicted by CRISPRDetect 2.4 *** >NZ_KQ958211.1 Megasphaera sp. MJR8396C Scaffold626, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ================================== ================== 4109 33 87.9 34 NNN.............................T ATATCTTCGATTGCCGATTGAATTTGATCTTCAC 4176 33 97.0 33 ................................T GTACGCGGATTGTCGGACTTCATCATAGCGATC 4242 33 100.0 33 ................................. TGCTGGCGGTATCCGTGACAGACGGCGCGTTGG 4308 33 97.0 33 ................................T GCGTCCCAGCAAGGGTTATGCAGCGTATACAAG 4374 33 100.0 34 ................................. TTTATATGTCGGATGCGGTTGACAGCCTTGCGTC 4441 33 100.0 0 ................................. | ========== ====== ====== ====== ================================= ================================== ================== 6 33 97.0 34 GTCGCACCCTTCATGGGTGCGTGGATTGAAACG # Left flank : GGATTGAAACATGTTTGACTGGGCGAAGTCGCTTAACTGGACGAGTCGCACCCTTCACGGGTGCGTGGATTGAAACTTTTCGGATCATACGTTAATACGTTAGACATTAAGTCGCACCCTTCACGGGTGCGTGGATTGAAACCTCGATCAAGTACAGCGGACTTGCGATAATCATCGTCGCACCCTTCATGGGTGCGTGGATTGAAACTTATAATCGCATGTAAGGAGATGTGTATATATGAGTCGCACCCTTCATGGGTGCGTGGATTGAAACGGTTATATAGGCCTCGATCATTTGTTTTTGCTCAAGTCGCACCCTTCATGGGTGCGTGGATTGAAACTTCGTATTCACCCAGGACATAACGGCGCTGGTAGTCGCACCCTTCATGGGTGCGTGGATTGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN # Right flank : GGAAGGCAGCGCACGGTATAAACAAGTAAATCAAGGTCGCACCCTTCACGGGTGCGTGGATTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCACCCTTCACGGGTGCGTGGATTGAAACTCTTCAAAAATTAAAGCCCCGGAAATGGTCAAGTCGCACCCTTCACGGGTACGTGGATTGAAACGGGAAATTACGCGGCATTATCAAGTGGAAATCAACGTCGCACCCTTCACGGGTGCGTGGATTGTAATGGAACCTACAATCCGCCTCGGTCGAAGAATAACTGTCGCACCCTCAATGGGTGCGTGGATTGAAACGAAAAAGGCCCAATGAAACCGTTTTCGAATGTCAGTCGCACCCTTCATGGGTGCGTGGATTGAAACCACGCCGACACAGTTAACTACTGTTGCGCTCGTAGTCGCCCCTCAC # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 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 : GTCGCACCCTTCATGGGTGCGTGGATTGAAACG # 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: R [6,8] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTCGCACCCTGCGTGGGTGCGTGGATTGAAACA with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-5.50,-4.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-45.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [9.37,1.05 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 1 1954-2679 **** Predicted by CRISPRDetect 2.4 *** >NZ_KQ958205.1 Megasphaera sp. MJR8396C Scaffold431, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ======================= ========================================================================================= ================== 1954 23 95.7 50 ........T.............. GCGTTAAGCTTGCAGTCGATCCAGTTTCTAGCCTTGATGTTAAGAAACTC 2027 23 95.7 52 .......A............... TTGGTATACTTACCAATGTAGCTATCTTCAGCTGTTTTCTGTTAAGAACCAC 2102 23 95.7 51 ........C.............. TTGTTAAATAACATACACATGTTTCAATCCGCGCCGCCCGTTAAGAACCTT 2176 23 87.0 89 ............A...T.A.... AAGCTAACTTGTGATTCCGAACAACCAATTATTTTGTTAAGAACGACTGAACATACTCCTTTCCTGATAAGAAAGGAGGCTATGCAGAG 2288 23 100.0 51 ....................... CGCATTTTCATATACTTCATTTGACCTATATTTCTTGCTGTTAAGAACCTT 2362 23 100.0 53 ....................... CCCCTGATTCTCGGGATTGTTCCCAGCCGCCAATCATGTTTGTTAAGAACCTT 2438 23 95.7 49 ........C.............. ACCTCTGACTCATAAGTCGTATATGAAATCATATCTTGTTAAGAACCTG 2510 23 95.7 47 ........C.............. GACTGGACTTTGTCCGGGTCCTAGGTTTGCGACTCGTTAAGAAACTT 2580 23 95.7 54 ........C.............. CTTGCATCTTGCGTATGCCATTGCAATTTCTCGCTTTCTGCCGTTAAGAACCTC 2657 23 91.3 0 .....................CG | ========== ====== ====== ====== ======================= ========================================================================================= ================== 10 23 95.3 55 AATCCCCGAAAGGGGACGGAAAC # Left flank : TTAGGCAAACCGCTTTTTGATGATGATATGGAAGCTTGGGATTATGGCCCTGTGGTCCCTCCTGTCTATCAGACTTATAAAGGATTTGGGCGAGAACCAATAAAAGATGGTGTTGACTATCAGGACACATTCTCTGAACAGGAAAAAAATGTCTTGTTTGATGTACTTCGCTACTATGGACAGTTTTCCACATCGGCTCTCGTATCTCTGTCGCATGAGGCGCAGTCTCCGTGGGCTGCTGCGCATAAAAATGGCGATAAGCACGCTACCATATCAAAAGAATCGATTAAAGCCTTCTTTGAAAGTAAGCCGCCCATCCCTGAATTCACTATTCCCTACCAAGAAAACCACTTTGCAGGATATAGAGATAAGGACGGATATTTAGTACTTCCCAAGGAATGGGATGATGAAGCGTAGTTGGGAAGTATGGTGGGGCGCCTCGCAAACTGTAAAATTGATGGCGTAGTTAAGCCAGTTGTAAGGGGGCTGTTAAGAACCTT # Right flank : GTTGTAAGATGTAAATTTGAAGACGGTATGAAAAAAGCCGGTACCAGGCATCTGTTGTGATGTCTGGTACCGGCTTTTTGTGTCGGGCTATTCTGTTGAATTGTACTGTTTTACGTGAAAAGGAGCAGTTATACCTTTATCGGTATGAAATGGGTTGGGGCAGCGTTAGGGGGAGCTTGTTCCGGATCTTATGGCCGGCATACTTTGCAGGGAACGTAGCCATAGGAGACGGCTTGGTCCCGGCTGTCGAAATAGGCGCGATTGGATTCGTTCATTTTTTGTTCCCAGCGGCAGCCTTGGTTGTGGAATTTCATGCTGGTCATGTTTCCCACATAGGTGGCTGAGGCGATGGCGGCCGTAGCTGTCCATAGGATTGTCGTTAAGGCAATGGCTATTTTCTTTTTCATGGCGAGGCTCTCCTTTTTTGTAATCTTTATTATCATTATAGCGAATATAATTAATTATGGAAAGTAAATTCATGGTATTCATTAAAATCTGCG # Questionable array : NO Score: 4.56 # Score Detail : 1:0, 2:3, 3:0, 4:0.76, 5:0, 6:0.25, 7:-0.81, 8:1, 9:0.36, # 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 : AATCCCCGAAAGGGGACGGAAAC # 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:51.43%AT] # Reference repeat match prediction: F [matched AATCCCCGAAAGGGGACGGAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-9.10,-9.60] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [7-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [46.7-61.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.64 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 1 7276-7627 **** Predicted by CRISPRDetect 2.4 *** >NZ_KQ958212.1 Megasphaera sp. MJR8396C Scaffold628, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== =============================== =========================================================================================== ================== 7276 31 100.0 36 ............................... AGATTCCAGCCGAACCCGCTTCAGACGACGAAGGAG 7343 31 87.1 91 ...........................NNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN 7465 31 83.9 35 NNNNN.......................... GAATGGCACGATGCAAGAACGAACACACCTACGTG 7531 31 100.0 35 ............................... GTTGCGCTGCCGATGGGCAGCGATTACAATACCGG 7597 31 100.0 0 ............................... | ========== ====== ====== ====== =============================== =========================================================================================== ================== 5 31 94.2 50 TCGCACCCCGTGAGGGTGCGTGGATTGAAAC # Left flank : CGACCCGAAGGCAGCATTGAAATGACGAAATTCTATTGGGTCCGCCATGACAATAAAACGGGCAACGCCTCGTCAGCTCGCGTCCATCACAGCATCACGACCAGCTTAAAAGAAGGCGTCACGTCACCGCATATCTTTGACGACTACGTCATCGACGACAGCGCTTTGAAAAATATCGAAGGCCTCAGTATTGAAATCTACCAAGAAGGCGAAAAAATACAGTAAATAACTACTTATAAGGGTAGTCAGATTTTGGATTTGTTCGACTAATATGATGTCATATGGATACGATATATGTCGAAAGTCATGAATTGAAACCTGTGTAAAAACAGCTTTATGTAGTGCGAAGGTATAGTGAACATCATATTAGTCGTCAGAATCCTTAAGCAAAATATAAAAAATTTGATGAAATCCCTAAATTTAGTAAGAATAAACCGTATCTGTGGGAATATATTCCCATAGGTACAAGCAAAAGTGACTGCAAAAAAGCCCTTTTGCTG # Right flank : CAGTTATATCGTTTAAATCGGTGCCCGCATCAATAGTCGCACCCCGTGAGGGTGCGTGGATTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCACCCCGTGAGGGTGCGTGGATTGAAACGGCGATAAACTTACAGCATTACATAATAACGTTTGTCGCACCCCGTGAGGGTGCGTGGATTGAAACATACTCCCAATGGGCTTTTTCGACCAGCACCCGCGTCGCACCCCGTGAGGGTGCGTGGATTGAAACATATGCATCACGCAGTTCCGCATCGCTCTCCAGCGTCGCACCCCGTGAGGGTGCGTGGATTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCCGTGAGGGTGCGTG # Questionable array : NO Score: 7.34 # Score Detail : 1:0, 2:3, 3:3, 4:0.71, 5:0, 6:0.25, 7:-1.42, 8:0.8, 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 : TCGCACCCCGTGAGGGTGCGTGGATTGAAAC # 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: NA [6,6] Score: 0.37/0.37 # Reference repeat match prediction: F [matched TCGCACCCCATGCGGGTGCGTGGATTGAAAT with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-4.40,-5.10] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [60.0-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [9.27,0.78 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 2 7786-8014 **** Predicted by CRISPRDetect 2.4 *** >NZ_KQ958212.1 Megasphaera sp. MJR8396C Scaffold628, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== =============================== =================================== ================== 7786 31 90.3 35 NNN............................ GGCGATAAACTTACAGCATTACATAATAACGTTTG 7852 31 100.0 35 ............................... ATACTCCCAATGGGCTTTTTCGACCAGCACCCGCG 7918 31 100.0 35 ............................... ATATGCATCACGCAGTTCCGCATCGCTCTCCAGCG 7984 31 87.1 0 ...........................NNNN | ========== ====== ====== ====== =============================== =================================== ================== 4 31 94.3 35 TCGCACCCCGTGAGGGTGCGTGGATTGAAAC # Left flank : TGAGGGTGCGTGGATTGAAACAGATTCCAGCCGAACCCGCTTCAGACGACGAAGGAGTCGCACCCCGTGAGGGTGCGTGGATTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCCCGTGAGGGTGCGTGGATTGAAACGAATGGCACGATGCAAGAACGAACACACCTACGTGTCGCACCCCGTGAGGGTGCGTGGATTGAAACGTTGCGCTGCCGATGGGCAGCGATTACAATACCGGTCGCACCCCGTGAGGGTGCGTGGATTGAAACAGTTATATCGTTTAAATCGGTGCCCGCATCAATAGTCGCACCCCGTGAGGGTGCGTGGATTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN # Right flank : NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCCGTGAGGGTGCGTGGATTGAAACGTGGTATGCTAATAGTTAAAAACGGAGTGATTATAGTCGCACCCCGTGAGGGTGCGTGGATTGAAACATTCCATATAACATTATCGCCTGCTTTGATGGCAACGTCGCACCCCGTGAGGGTGCGTGGATTGAAACTTGATGACCAGAATCGTGTTCCGGACGTCCTCACACGTCGCACCCCGTGAGGGTGCGTGGATTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCACCCCGTGAGGGTGCGTGGATTGAAACGCGGTCCTTGCTATTGGCATCAACTCCGGAGTCGGTCGCACCCCGTGAGGGT # Questionable array : NO Score: 8.57 # Score Detail : 1:0, 2:3, 3:3, 4:0.71, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 : TCGCACCCCGTGAGGGTGCGTGGATTGAAAC # 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 [7,6] Score: 0.37/0.37 # Reference repeat match prediction: F [matched TCGCACCCCATGCGGGTGCGTGGATTGAAAT with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-4.40,-5.10] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [5-5] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [9.37,0.37 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 3 8497-10846 **** Predicted by CRISPRDetect 2.4 *** >NZ_KQ958212.1 Megasphaera sp. MJR8396C Scaffold628, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== =============================== =========================================================================================== ================== 8497 31 100.0 36 ............................... TTTTAGGACCTCGCCAATCTTATTCACGCATCGGCG 8564 31 100.0 35 ............................... TTTCCGCTGCGGCGTCAATCGTCGGAGCTTCGATG 8630 31 100.0 36 ............................... TCAAGTTGGCGTCGGTGCTCGGAAAGACAATCGATG 8697 31 77.4 88 ........................NNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN 8816 31 83.9 35 NNNNN.......................... ATGTCTGCCGAGAACGTAACCGTTTCCAGCTGGCG 8882 31 100.0 34 ............................... AGATACAGCTGATACTGGTCAACTAGATTCTGAG 8947 31 100.0 33 ............................... AGCTACGAACTGCAAAAATATGAATTACAAAAG 9011 31 100.0 35 ............................... GTTATATTTTTTCGATAGTTAGGTAGCTAAGTAAG 9077 31 100.0 35 ............................... GAGGATGCGGTCTTGACGGTATCAAGTACCAGGTG 9143 31 100.0 35 ............................... AATGATGGACAGATTGTCCAAGTTAAGTTTGAGTG 9209 31 100.0 35 ............................... TTGACGCATAGGCTGTAATTTTCATACGTCCCGGG 9275 31 100.0 35 ............................... AGGCGTTTCCTTGGCCGCTTCTTTCTTTTCCGGCG 9341 31 80.6 90 .........................NNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN 9462 31 87.1 35 NNNN........................... GGGCCTTACGCCTACGCCAACCCCGCCAACATCCG 9528 31 100.0 34 ............................... ATCTCTCCGACATTGTTGGTAATGACCTGTGCTG 9593 31 100.0 35 ............................... TCCTCTGTTTCGAAGGCCCAGGGATTTTCTTTCTG 9659 31 100.0 36 ............................... AGTATGCCGTGTACATAAGCCAATGAACGCTTATTG 9726 31 100.0 37 ............................... TCTGCCAATTCATGGTGGTAGGTGTAGCGTCTTCTCG 9794 31 83.9 90 ..........................NNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN 9915 31 83.9 35 NNNNN.......................... ACCAAAAAGAAGACATTCGTTATCAAATACCTTCG 9981 31 96.8 35 ....C.......................... ATTTTGACGGCGTGTTGTTGGTGCCGATGGTCCCG 10047 31 100.0 34 ............................... ATCATATTTGCCGGACGACTTAATTTTACACGAG 10112 31 80.6 90 .........................NNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN 10233 31 87.1 35 NNNN........................... GGGGTCATACGGGATTGACATGTTGCCAATGGTCG 10299 31 100.0 35 ............................... TTCCATGGCATTAAGACATCGGAGGTCGATACTGG 10365 31 100.0 35 ............................... TCTGTTCCTGTGTCAATAACAAAAGTTGCAATTAG 10431 31 100.0 36 ............................... ATTTTTTAATCTGATTGTTCCTATTATGGAACAAAG 10498 31 80.6 91 .........................NNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN 10620 31 90.3 35 NNN............................ GACAGCGACATGGGGCTTGACCTACTGGGAAGATG 10686 31 100.0 35 ............................... CAGTTTCCGTAAAATCCGGCAGCTGAAGTGATTCG 10752 31 90.3 34 .......................C..TG... CAGTGCGCCCACACTGCCGTTATAGCTACAAACG 10817 30 74.2 0 .T.......-.TT...C......T...GG.. | ========== ====== ====== ====== =============================== =========================================================================================== ================== 32 31 93.6 44 TCGCACCCCGTGAGGGTGCGTGGATTGAAAC # Left flank : GGGTGCGTGGATTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCCGTGAGGGTGCGTGGATTGAAACGTGGTATGCTAATAGTTAAAAACGGAGTGATTATAGTCGCACCCCGTGAGGGTGCGTGGATTGAAACATTCCATATAACATTATCGCCTGCTTTGATGGCAACGTCGCACCCCGTGAGGGTGCGTGGATTGAAACTTGATGACCAGAATCGTGTTCCGGACGTCCTCACACGTCGCACCCCGTGAGGGTGCGTGGATTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCACCCCGTGAGGGTGCGTGGATTGAAACGCGGTCCTTGCTATTGGCATCAACTCCGGAGTCGG # Right flank : CTTGGTGCCGAGGGAGGGACTTGAACCTTCACTGTGAGTGCGTAGCGTGAAACGACATACTAAAAACAGAATGGACGAGAGCGAGAAAAACTCACTCACGTCCATTCTGTTTTGTTGCAATGATTAGAATAGCTCACTGTGACTCCCGGTTCGGGTCAAGGTTAATATCAGGATATCCTCTTCTACCTTGTAGATCAGCAGCCAATCAGGCAAAATGTGGCACTCACGGAAGTCGGCATAGTTGCCGGATAAGGCATGGTCACGATACTTCTCTGGGAGTGGTTGCTCTTGGACGAGATAGTCAAGCACTTCCTGCAACAGCTCCGGTGTATGCCCGGGTTGCTTTAACACGCGCTTGTAATCCTTTCGGAACTGTTTGCGGAAGCGGATTTTAAGCATTTAGTGCCTCCATGGCATCTTTAACCGAATCATAGGTTTTGCTGAGATTGCGATGATGATTTACGTCGTCAATGGCTCTCAGGGTCTCAAGTTCATTGGGG # Questionable array : NO Score: 8.24 # Score Detail : 1:0, 2:3, 3:3, 4:0.68, 5:0, 6:0.25, 7:-0.69, 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 : TCGCACCCCGTGAGGGTGCGTGGATTGAAAC # 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: NA [6,6] Score: 0.37/0.37 # Reference repeat match prediction: F [matched TCGCACCCCATGCGGGTGCGTGGATTGAAAT with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-4.40,-5.10] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [13-33] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [40.0-46.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [9.41,0.37 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 4 12432-12660 **** Predicted by CRISPRDetect 2.4 *** >NZ_KQ958212.1 Megasphaera sp. MJR8396C Scaffold628, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ================================= ================== 12432 33 75.8 33 NNNNNN......A...................G TTTTGGAAAGTATCCGGAGACCGCCGGAATCTG 12498 33 100.0 32 ................................. GATCATTTCGATGGGTCCGCGGTGTAGTGTAT 12563 32 90.9 33 ....C........-..................G AGGTGGAAATCAGCCTTTCGACCGCATCCCATT 12628 33 87.9 0 ....C...............A..A........G | ========== ====== ====== ====== ================================= ================================= ================== 4 33 88.7 33 GTCGTACCCTTCGTGGGTGCGTGGATTGAAACC # Left flank : TGCGTGGATTGAAGATATTTCATCTACTTCAAATTCTTCGATGGGTAAGTCATACCCTTGTGGGTGCGTGGATTGAAACGTCTATGATTACGATATTTGCGTAGACGATAAGAGTCGCACCCCTTTGCGGGTGTGTGGATTGAAACGACGGCGTGCCTACCAGCGGCAGTAATAATCCTGGTCGCACCCTTTGCGGGGTGCGTGGATTGAAACTGGGGAATAATTAACAGCTCGTATGTAATCGTAGGTCACACCCTTTGCGGGATGCGTGGATTGAAACCTGTACGTTAATCATTTCGGTCCCTCACCACATGTCGCACCCTTCGTGGGTGCGTGGATTGAAACTGTCGCCATCGTGTCCTCCTACTTCAAAAAAGAGTCGCACCCTTCATGGGTGCGTGGATTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN # Right flank : GCGCCAGACTTAGGATCTGGCGTCTTATTTGTAGTCGCATTATAAAGAGGGCCTGCATTAAATCTTATCTTGCAACGGCGCTTTTTTTCTTATTTTTCAACTTTTCTTCTCGTTCCGCCTTTCGTTGACAGTCATCTGTTTCTCATGCTATAGTAAGAACGATATAATATAAGTAATAGGTCAGGTGTCACAGACTTAATAGAGAAGCCGGTTCAACGCCGGCGCGGTCCCGCCGCTGTAAGGTGGAGCCAGGCTGCAAGGATGTCACTGTACTTTTGTATGGGAAGGCGCAGCTTTGGCCATGAAACCAAGCCAGAAGAACTGCCTGACGGATAATCACCGATAGACCTGCGAGCGATGGGAAGGAGATTGTACGGAGCATATTCGGGGACTGTCGTCTATACGACGGTCCCTTTATCTTTGTATGTCCTTCTCCCGCAGGTGTGCTACAGGAAGGGGATAATACTTACGATGGAAGCAATCATTCACGGTTTTCAGTT # Questionable array : NO Score: 3.49 # Score Detail : 1:0, 2:3, 3:0, 4:0.44, 5:-1.5, 6:0.25, 7:0.01, 8:0.6, 9:0.69, # 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 : GTCGTACCCTTCGTGGGTGCGTGGATTGAAACC # 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: R [4,7] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTCGCACCCTGCGTGGGTGCGTGGATTGAAACA with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.30,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [1-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-53.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [9.41,0.64 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], //