Array 1 5608-6673 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADOGM020000003.1 Salmonella enterica strain LJH 1234 contig00003, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 5608 29 100.0 32 ............................. GGTCAGGCGATCATATTCGCGTGGATTGACGA 5669 29 100.0 32 ............................. GTTCAGGTTTCGCGTCATCTGACGTTGGTAAT 5730 29 100.0 32 ............................. TGTCCGCAATTGAGCGTTTCTCGGCTGATATC 5791 29 100.0 32 ............................. ATCCGAGTAGCTCAACTGGGGGATATCCCCAA 5852 29 100.0 32 ............................. GCGGTGCGGCAGGCGTTCCATGCCTCCATAGC 5913 29 100.0 32 ............................. TTCACCTTTCCCCACAATGTCAGAGGTTATTT 5974 29 100.0 32 ............................. ACCACTGTCCGCAATCTGTCGGCGAACTACCG 6035 29 100.0 32 ............................. GAGATCCCCCAGCGTGAATATCTGGGAGTGTC 6096 29 100.0 33 ............................. GCTGAATTGCTAAATAAAGCGGCCTGCGCTGCC 6158 29 100.0 32 ............................. ACGATTTATGAAATCCACCCGGTAAAAATGAA 6219 29 100.0 32 ............................. ATGATCCGTGAGGGGGTGGCAACGCACGCGTT 6280 29 100.0 32 ............................. GGACAGGTAACAGCGTGCTTGGTTCTGGTAAC 6341 29 100.0 32 ............................. AGTGAGTATCAACTCAACCTTATTGAAGATAT 6402 29 100.0 32 ............................. AAATAATTGCGCAGTTTTAAATGCCTGAATAT 6463 29 100.0 32 ............................. TCACAGTCACCGGTGATGACGGCGTCGTCGCT 6524 29 100.0 32 ............................. CGCAAATGAGCCAGGCGGACAGGCATTTTAAT 6585 29 100.0 32 ............................. CCATACCATTTCCACTGGCGCAACGATTTTTG 6646 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 18 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGCGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCATAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGATGATAAAAAGTGCTTTATAAAGAACGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGTTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCATGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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 : GTGTTCCCCGCGCCAGCGGGGATAAACCG # 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 [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG 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 [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 22809-24302 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADOGM020000003.1 Salmonella enterica strain LJH 1234 contig00003, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 22809 29 100.0 32 ............................. GTCGCGGTGTGAGCGGAAAGCCTGGCGAACAG 22870 29 100.0 32 ............................. CGAGCTCGTCAGGGAGGGAAAGGTTATCCGGG 22931 29 100.0 32 ............................. GTAGGTAGCGCCCAATGGATGTTGGGGGAAAT 22992 29 100.0 32 ............................. GTTTATCTCTCCGTTATGTGTCGGACACCAAA 23053 29 100.0 32 ............................. AAAACAACATTAATAAAAACCGGTTTAAGCGC 23114 29 100.0 32 ............................. GAGTTGTTTTTCTTGCGGAGCAGGACGGCGTA 23175 29 100.0 32 ............................. ATCCGATCCACATCAGCAGCCAGCTCTTTAAA 23236 29 100.0 32 ............................. ACCAAAGCTCGATATCAGTCAATTATGGCCAG 23297 29 100.0 32 ............................. GTTTATCTCTCCGTTATGTGTCGGACACCAAA 23358 29 100.0 32 ............................. CCGGTCACGATTGTTCACCCCAAAAGCGGACA 23419 29 100.0 32 ............................. CACTCTGCGTAATGGCAAATTCCAATTCTTTC 23480 29 100.0 32 ............................. TTGACACAATAGCGAAATCAATTACTGAAAAG 23541 29 100.0 32 ............................. GACGCCAATTATACATTGGCTCTATATGAATT 23602 29 100.0 32 ............................. CTCCCGGCCGAGGCCGTGACGGTGAAACAGAA 23663 29 100.0 32 ............................. GTACAGAAAAAAGAGGCGTCGCATGTGGCGAT 23724 29 100.0 32 ............................. GGCCTCACAGCGGCGCCCGCTGGTCACGACCA 23785 29 100.0 32 ............................. CCCGCCGTCTGTCACACCTGTTATGTAATTGT 23846 29 100.0 32 ............................. TTATCCACCAGCAATCAGGGGCCGGATATACA 23907 29 100.0 32 ............................. CAAACAGTGCATAATTCGCAAAATTTGCGCTA 23968 29 100.0 32 ............................. GTTCCACAGGACGTTGAGAACGGCTTTATACA 24029 29 100.0 32 ............................. ACGAGCACTGCAACGGCGAACTGGCAATGGCA 24090 29 100.0 32 ............................. GAATTATTTAGTTGATCTGAAGAATTCAGGAA 24151 29 100.0 32 ............................. AACAGTGCAACCAGAAAGTATTAAAAAACCAA 24212 29 100.0 32 ............................. CAAAAGGCCGACGGTGTGTACACCTCTAAAAA 24273 29 93.1 0 A...........T................ | A [24299] ========== ====== ====== ====== ============================= ================================ ================== 25 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCGCCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCCTTGGGGGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGTGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTCCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCACTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 : GTGTTCCCCGCGCCAGCGGGGATAAACCG # 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 [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-48.3]%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], //