Array 1 3948-2578 **** Predicted by CRISPRDetect 2.4 *** >NZ_LVNO01000104.1 Escherichia coli strain swine38 swine38_contig_138, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 3947 29 100.0 32 ............................. CGCGAGCGCGTTAGCTGACGACATGATCCAAA 3886 29 100.0 32 ............................. CAACATATTTAAACGATTTAAGCCAGGCATAT 3825 29 100.0 32 ............................. TTCTGGGTAACTGGGCGTGGATATCCGGCGAT 3764 29 100.0 32 ............................. CAGCCCCTGAGTCAGTGGATGATTGCGAATGA 3703 29 100.0 32 ............................. AACTTTTTAACAGTGTGGCGCAGGCGATGGGC 3642 29 100.0 32 ............................. CAGCCCCTGAGTCAGTGGATGATTGCGAATGA 3581 29 100.0 32 ............................. AACTTTTTAACAGTGTGGCGCAGGCGATGGGC 3520 29 100.0 32 ............................. CAGCCCCTGAGTCAGTGGATGATTGCGAATGA 3459 29 100.0 32 ............................. AACTTTTTAACAGTGTGGCGCAGGCGATGGGC 3398 29 100.0 32 ............................. CAGCCCCTGAGTCAGTGGATGATTGCGAATGA 3337 29 100.0 32 ............................. AACTTTTTAACAGTGTGGCGCAGGCGATGGGC 3276 29 100.0 32 ............................. CAGCCCCTGAGTCAGTGGATGATTGCGAATGA 3215 29 100.0 32 ............................. AACTTTTTAACAGTGTGGCGCAGGCGATGGGC 3154 29 100.0 32 ............................. GTGCGGCAGATATTGACCGCGAAGCGGTTATC 3093 29 100.0 32 ............................. CATATCGCGATCGCGCCGGGTACGAAAATCAC 3032 29 100.0 32 ............................. AAACACCTGAACGATGTCATCAACGACGTAAA 2971 29 100.0 32 ............................. CTATGAAGGCGTAGTGGATTCAGTCATAAAAA 2910 29 100.0 32 ............................. AGGACGTAAACCCAATGAAAAACATGATTGCG 2849 29 100.0 32 ............................. CGCGGCAATGGATGCGCAGGTACGCGAATTAA 2788 29 100.0 32 ............................. GTGTTTGAGGTGCCGCAGCCAATCTGTACGTC 2727 29 96.6 32 ..............A.............. ATCTCGCTTCTGATGGTGCACCTCATCAATAG 2666 29 96.6 32 ..............A.............. AGATTTTGGGACAACGTATTCAGTCTGGACGA 2605 28 86.2 0 ............T.A..........-..A | ========== ====== ====== ====== ============================= ================================ ================== 23 29 99.1 32 GAGTTCCCCGCGCCTGCGGGGATAAACCG # Left flank : TGGATGAACTACTGGCAACGCTGACCGATGATAAACCGCGAGTCATTGCACTGCAGCCGATTAGCCAAAAGGATGATGCCACACGTTTGTGCATTGAAACCTGCATTGCGCGTAATTGGCGTTTGTCGATGCAAACCCATAAATATTTAAATATTGCCTGATTAAACATTTATAAGCGTTATAAATGGGTGGAACCTGTAAAGACTTCTACTCATTTATATTGTTTGTCGCCTCTGAAAACTCCTCCATTTTACCCATCCAGGGCTAATCATTAGCATTCTCTACAAATTCTGTGGCATTAATTTTTCGCTGGAGTGAAAATTATTGCGGTAAAGTTTGGTCGATTTTAGTTTGTATAGAGTTATTTTAATTATTTACTTTTTCAATCAATGGATTAAGTGCTCTTTAACATAATGGATGTGTTGTTTGTGTGATACTGTAAAGTTGGTAGATTGTGACTGGCTTAAAAAATCATTAATTAATAATAGGTTATGTTTAGA # Right flank : TTTAGGTATGTTCAGGCCGGGCAGTTTTCCGCCCGGCCTACCTCATTCACACATTCGACCAGCTCTGGATCGAATCCGCATTCCCCAATTCCCCATGCATCACTTCATACGATTTTTTCAGAATCACATCAGTGTGTTTGGTTAAATCTTTGAAAATGCCTTTATTCATCGCGTCGTAGCGTTTGGCATTGCTCTCAACAGGCATAAAGATATCTTTCACGCGAACCATTTTATCGACAGCCGTTGCGTAATCCGGGTATAGCCCCAGACCTACCGCTGTATTAATCGCTGCCCCCAGGCTTGCACAACCGTTAATGGCGTTACGTCGTGCCGGAAGGTTGAACACGTCGGCAAAAATCTGCATAAACAGATCGCTGTTCGAACCGCCGCCAGTAATGATCACATGCTTCGCAAAGTGATTCATTTCATTACACATATTGTCGTAATTGTTCTTCAGCGTCAGCGCCACGCTTTCCAGTATCGAACGATATATCCATGCG # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 : GAGTTCCCCGCGCCTGCGGGGATAAACCG # 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 [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GAGTTCCCCGCGCCTGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.10,-12.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [45.0-75.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 23284-23985 **** Predicted by CRISPRDetect 2.4 *** >NZ_LVNO01000115.1 Escherichia coli strain swine38 swine38_contig_150, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 23284 29 100.0 33 ............................. TTTGGATCGGGTCTGGAATTTCTGAGCGGTCGC 23346 29 100.0 33 ............................. CGAATCGCGCATACCCTGCGCGTCGCCGCCTGC 23408 29 100.0 32 ............................. TCAGCTTTATAAATCCGGAGATACGGAAACTA 23469 29 100.0 32 ............................. GACTCACCCCGAAAGAGATTGCCAGCCAGCTT 23530 29 100.0 32 ............................. CTGCTGGAGCTGGCTGCAAGGCAAGCCGCCCA 23591 29 100.0 32 ............................. CCCACCAGCGCGTTTTTTGCCGGGGCCATAGT 23652 29 100.0 32 ............................. TTGAACTCACCACGATTGTTAATATGGACGAT 23713 29 100.0 32 ............................. GGGGGCGCATGACCGTAAACATTATCCCCCGG 23774 29 100.0 32 ............................. GGAGTTCAGACATAGGTGGAATGATGGACTAC 23835 29 93.1 32 ............TT............... CCCGGTAGCCAGGTTTGCAACGCCTGAACCGA 23896 29 96.6 32 .................A........... GCAACGACGGTGAGATTTCACGCCTGACGCTG 23957 29 89.7 0 .T.........AT................ | ========== ====== ====== ====== ============================= ================================= ================== 12 29 98.3 32 GAGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CGTGCTTGCCGCTGGAGAAATACAACCGCCGGCCCCACCTGAAGATGCACAGCCTGTTGCCATTCCGCTTCCTGTTTCACTGGGAGATGCAGGCCATCGGAGTAGCTGAAATGAGTATGTTGGTCGTGGTCACTGAAAATGTACCTCCGCGCTTACGAGGCAGATTAGCCATCTGGTTGTTGGAGGTACGTGCAGGGGTATATGTAGGTGATGTATCCGCAAAAATTCGTGAAATGATCTGGGAACAAATAGCTGGACTGGCGGAAGAAGGCAATGTAGTGATGGCATGGGCAACGAATACGGAAACGGGATTTGAGTTCCAGACATTTGGGTTAAACAGGCGTACCCCGGTAGATTTGGATGGTTTAAGGTTGGTGTCTTTTTTACCTGTTTGAAAACAAAGAATTAGCTGATCTTTAATAATAAGGAAATGTTACATTAAGGTTGGTGGGTTGTTTTTATGGGAAAAAATGCTTTAAGAACAAATGTATACTTTTAGA # Right flank : GGGCGCACTGGATGCGATGATGGATATCACTTGGAGTTCCCCCGCCTCTGCGGTAGAACTCCCAGCTCCCATTTTCAAACCCATCAAGACGCCTTCGCCAACTCCTTCACCAGAGGTAGCATTATCCGCATAACGTCACGGCAGCGACGTTCTATTCTTCCAGGAAGAGCCTTATCAATATGTTGGTGATTATCCAGTCTTACGTCATGCCAGCTATTTCCCGCCGGGAAGGCAGGTGTTTTTGCGCGTTGCTGATAACCATCCTTATTCCCAAGATTCCAGTTAGTCGCTTCCACCGAAAGTACAGCAATGCCCGCTTTGTCGAATATTTCTGCGTCATTACAACACCCAGTGCCTTTCGGATAATTTTTATTCAAACCCGGATTGGTCGTTGCGGCTATTCCGTGACTGCGCGCAATTGCCAGCGCCCTGTCGCGCGTTAATTTCCTTACTGCCTCAGGGGTTTTTACACCGCTGTTGAAATACAATTTATCGCCAAC # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 : GAGTTCCCCGCGCCAGCGGGGATAAACCG # 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: F [6,3] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GAGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-41.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 120067-120269 **** Predicted by CRISPRDetect 2.4 *** >NZ_LVNO01000121.1 Escherichia coli strain swine38 swine38_contig_157, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================= ================== 120067 28 100.0 33 ............................ AACCTACCGTCTTGGCTAGCGGTTGCAGCGAAC 120128 28 100.0 32 ............................ GGAACAATCTTGCAAAGGCTGTGAAAGTTGGC 120188 28 100.0 28 ............................ TTCACAGGTAACATACTCCACCCACCAT 120244 26 85.7 0 ................A...-A..-... | ========== ====== ====== ====== ============================ ================================= ================== 4 28 96.4 31 GTTCACTGCCGTACAGGCAGCTTAGAAA # Left flank : GATAAATTCATCGTCGAGTTGCAGGTTCAGCTGGATCAGAAAGGTGTTTCTCTGGAAGTGAGCCAGGAAGCGCGTAACTGGCTGGCCGAGAAAGGTTACGACCGGGCAATGGGCGCACGTCCGATGGCGCGTGTCATCCAGGACAACCTGAAAAAACCGCTCGCCAACGAACTGCTGTTTGGTTCGCTGGTGGACGGCGGTCAGGTCACCGTCGCGCTGGATAAAGAGAAAAATGAGCTGACTTACGGATTCCAGAGTGCACAAAAGCACAAGGCGGAAGCAGCGCATTAATCTGATTGTCAGGTAGGTTGGTCAAGTCCGTAATCTCGAAAGAGGTTGCGGACTTTTTATTTATGGGGTGGAGGTTCAGACCCTTTTTTTAATGATGATGGTAAGTTGTTGATAATTAGTGCTGCGGGAAGGTAAGGATAAAAAAGGGTGCTGCAGGAGAATGGGATGGTTTTGCTTTATTAACAACGGGCTAAACGTGTAGTATTTGA # Right flank : ATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTTTTGCTGCCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTAAAACGGTCAAGAAGAATTTTAATGATAATTATTGTTTGCTCATACTGTAAACAACTTGTGCAGTATATCTACATCGAGACAAGTTATGGACTTATACTTCCAAAGTACTTCATACATATCACAAAATAAAAAGGCCGGTTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACGGGGTCAGTTCAACAGTCACTTTGTCGCCCGTCAGGATGCGGATGTAGTTTTTGCGCATTTTACCGGAGA # Questionable array : NO Score: 5.68 # Score Detail : 1:0, 2:3, 3:0, 4:0.82, 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 : GTTCACTGCCGTACAGGCAGCTTAGAAA # 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: F [8,6] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTCACTGCCGTACAGGCAGCTTAGAAA with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-8.00,-7.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [58.3-51.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], //