Array 1 109246-107874 **** Predicted by CRISPRDetect 2.4 *** >NZ_ATFA01000002.1 Salmonella enterica subsp. salamae str. DMA-1 DMAI_CGATGT_contig_2_consensus, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 109245 29 100.0 32 ............................. GGCTTTATAAACTGGGCCGCATAGCTTGGGCT 109184 29 100.0 32 ............................. CGCTGTGCTAACAGCCCCATGTCGTATCCCTG 109123 29 100.0 32 ............................. GCAGGTACTGAATCGCGGCGGATTCGGCGACA 109062 29 100.0 32 ............................. ACCCGGTTTTGATAGTCGTCCCAGCTATCTCC 109001 29 100.0 32 ............................. GCTAAATGAGTATTACGGCACGTCTTACGGTT 108940 29 100.0 32 ............................. TGTCGATATATTCACGTACCTGTCCGGGGTAA 108879 29 100.0 32 ............................. ATTCTACCTGGAGCGATTGCTACGACTACACC 108818 29 100.0 32 ............................. TTACTCGATCATCTAAACACCCCTCCGGACCA 108757 29 100.0 32 ............................. CCGCGTAGAGAGTTGATCTTGTCGCAACTGGA 108696 29 100.0 32 ............................. GATCTGATTCAACATGTAAGAGTCGTACAGGA 108635 29 100.0 32 ............................. CTGCGCGACAAACGCCATACGCAGGAGGAAAT 108574 29 100.0 32 ............................. TTCAATGCTAAATCAGGTCGCCGCACCGAGAT 108513 29 100.0 32 ............................. GCCAGTCATTTGCTGGCCAGATCTGAAAAGCA 108452 29 100.0 32 ............................. GCGCTACAAAAACGAGGAATATCGTTAAACGA 108391 29 100.0 32 ............................. TTTTCTTTTCCTGCCGGAACAGCGCTTTTTCA 108330 29 100.0 32 ............................. AGTTCAACCGATTTTTTACACGGCGTTCGCAC 108269 29 100.0 32 ............................. AGCCCAAACTGCGGGATAAAATCTTATTCAGC 108208 29 100.0 32 ............................. AATGGGCGGGCGTGCGGTCCCAGTTCGTTGAT 108147 29 100.0 32 ............................. CTCCACGCGTTTGATCTCCCGCTGGTACTGGT 108086 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 108025 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 107964 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 107903 29 96.6 0 .......T..................... | A [107876] ========== ====== ====== ====== ============================= ================================ ================== 23 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTACCGCCAGCGATACCAGAACCTGAATCCCTGGGGGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGACTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGATAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCTATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 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 : 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%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 2 126262-125502 **** Predicted by CRISPRDetect 2.4 *** >NZ_ATFA01000002.1 Salmonella enterica subsp. salamae str. DMA-1 DMAI_CGATGT_contig_2_consensus, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 126261 29 100.0 32 ............................. CGGTTGCTGTCGTTGACGGCGTCGCGGTACAT 126200 29 100.0 32 ............................. ATGGAAAATATGAATTTAATGTTTATCCTGGT 126139 29 100.0 32 ............................. CCCCATATCCTTGATGAGGTAAATTTTTATTT 126078 29 100.0 32 ............................. TTTTACACACTGGCTGAGGGCGCATCATATCC 126017 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 125956 29 100.0 32 ............................. CCACGGCGCGATTTGCTGTAGTTCCCGCGTGA 125895 29 100.0 32 ............................. ATCGCCGTGTTGGTCAAATATATGACGACTAA 125834 29 100.0 32 ............................. TTCGCGCCAGATTTTAGCGAGGTGATACAGGT 125773 29 100.0 32 ............................. TGCTGATGGTAGTGTGTTTGTGTTCCATGCTG 125712 29 100.0 32 ............................. TCTGTGTTGCTGCAAAAACGTAGGTGCCAGGG 125651 29 100.0 32 ............................. TAGCGGGAAGTGGAAACCGAATTGAACCATGA 125590 29 100.0 32 ............................. CATTGAAAACTATGTTCATGCCAGCATTTACT 125529 28 89.7 0 ............T...........G-... | ========== ====== ====== ====== ============================= ================================ ================== 13 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTACAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCATTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGCCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //