Array 1 109812-107891 **** Predicted by CRISPRDetect 2.4 *** >NZ_QUUO01000001.1 Salmonella enterica strain CFSAN071961 CFSAN071961_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 109811 29 100.0 32 ............................. GATGATTTAAACACCCAAACGCTGGGAATAAT 109750 29 100.0 32 ............................. TTCCTGGACACTGAGACCGGATCTGATTGGGT 109689 29 96.6 32 ............................A ATTCGACGACTTTCCACTCCTGAGAGTGTGTC 109628 29 100.0 32 ............................. TAGATGCTTGTATGTGGGTGAGAGAAGAACAA 109567 29 100.0 32 ............................. CCCGCATCAACGATTTGTTGACACATCCAGAG 109506 29 100.0 32 ............................. CGCAATTAACTCACACTATTGCGCTGATATAC 109445 29 100.0 32 ............................. CGCTTCATCGACAGCGTGTTGTCGCGGTGCTT 109384 29 100.0 32 ............................. GTGGGATGGAAAAAATGGGAGCCAGTTTTAAA 109323 29 100.0 32 ............................. TATGCCACGAAAGCGGCGCGTTTCTAGCGGAG 109262 29 100.0 32 ............................. GTAGCCTTCAGACACTTTAGCCAGGTTCCCTA 109201 29 100.0 32 ............................. AGCGAAAAAAAAGACGACGAACTCGTCACAAC 109140 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 109079 29 100.0 32 ............................. CTGGCGCAGGTTCGCCTTTCGGGCCTTTGAGT 109018 29 100.0 32 ............................. AATAAACGTCTTTTGCTAGGTAGCATTCTATT 108957 29 100.0 32 ............................. CGCGCCACCGAGCTATTCGGGCCGCTCGGTTC 108896 29 100.0 32 ............................. GGATTTTATGACGACTGGCCGAAATCGTACAA 108835 29 100.0 32 ............................. AAAAAATACTCTCCAAAATGAGTCAGTCCGAG 108774 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 108713 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 108652 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 108591 29 100.0 32 ............................. TCGTTTTTTTTATCGGTGTGGTTCGGTCGTAA 108530 29 96.6 32 ............................T GGCGCAACGTTCCCTGAGTCCCGGTTAATAGA 108469 29 100.0 32 ............................. ACAGACCAGACAAATAACGTATTTTCTGTTGA 108408 29 100.0 32 ............................. GCGGAGATCCGGAGGAGCTATTTCAGGTCATA 108347 29 100.0 32 ............................. TGCGGCCACGCCCGCGTAGCAGATAGCCGCCA 108286 29 100.0 32 ............................. AATAGCGTTCCTGACGTCTGAATTTCATATCC 108225 29 100.0 32 ............................. TCGATATCGAACATTTGATGCGTATTGCGGGG 108164 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 108103 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 108042 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 107981 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 107920 29 93.1 0 A...........T................ | A [107893] ========== ====== ====== ====== ============================= ================================ ================== 32 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCATTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTAGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCTTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACACGTTGCTGGTATCCGTCTTTTTTACCCAGGTTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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 [4-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-70.0]%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 2 129319-126423 **** Predicted by CRISPRDetect 2.4 *** >NZ_QUUO01000001.1 Salmonella enterica strain CFSAN071961 CFSAN071961_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 129318 29 100.0 32 ............................. GGGCACGCGGAGGTCTACGGCGAATATATTTA 129257 29 100.0 32 ............................. GCGCTGCTTTCCTGAAGAGTGCCCATGCCAAA 129196 29 100.0 32 ............................. ACTCATTAACTCCCAGTTCATGCCGTGATCAC 129135 29 100.0 32 ............................. CGATCTTCTCTTTTGAAAACCACTGTTGGGAT 129074 29 100.0 32 ............................. GCAGTAACGGGAAATCCAGTGGCGGCAGTATT 129013 29 100.0 32 ............................. GCCACCGGTGCGGCATACAGTGGGATCAATAT 128952 29 100.0 32 ............................. ACAAGGATATTCTCGTCTACGTTATCCAGTTC 128891 29 100.0 32 ............................. GCCGACGCCATCCGGATAGCGCTGTCAGCTGC 128830 29 100.0 32 ............................. ATTGCGGCAGAGGGTGTCAACACAGAGGGCGT 128769 29 100.0 32 ............................. AGCCGTGAAACGCTAATCGCGCTATTGAGCGA 128708 29 100.0 32 ............................. TGTCCACCGGCACGACCTATTCCAACAGCGCC 128647 29 100.0 32 ............................. CTCCAGTATTTAAAAAGCTGCTGATCGCGATC 128586 29 100.0 32 ............................. GAGATCGACCTCTCCCATGTTGTGCCGGTTAC 128525 29 100.0 32 ............................. CTGTTTAGTAGCGAGATAGTCAAACGGGAGTA 128464 29 100.0 32 ............................. TTTGTCAGCTCGTTATGTGGGGTATAGCGATA 128403 29 100.0 32 ............................. CGCATCGCGTCAGTGCGTCTGGGTGACGTTCC 128342 29 100.0 32 ............................. CCGGATCAAACATTGCTCCAGATTGCCACTGA 128281 29 100.0 32 ............................. CAGTAATTGAGGCAATTAGCGCGGCCGGCATC 128220 29 100.0 32 ............................. AATCTACTTCCTGCCGGGTCATAGGGGTACGC 128159 29 100.0 32 ............................. TTAATTCAGAAATTCAGGCAGGGGCAGCGCGT 128098 29 100.0 32 ............................. CCTATAACCGACGAGGGCAAACGCCGTGCGCG 128037 29 100.0 32 ............................. TTTTTGCGTCAAGTCCCATTTCATCTGCCTGG 127976 29 100.0 32 ............................. GCACCGGCACTGCGGTCAGCACCGCCAATATG 127915 29 100.0 32 ............................. GCAGTCCACGACTACAGCCCCGGGCAGCGGTT 127854 29 100.0 32 ............................. GGGGGCCTGGTCGGGAACGTAGATATCCCGAA 127793 29 100.0 32 ............................. TGAAATTGTCGTGCCAGCGCCACCTTGATGAT 127732 29 100.0 32 ............................. CTACGCACGCTGATTAAGGTCACGTGCGGTTA 127671 29 100.0 32 ............................. CCGGGATCCGTCATCGGTCGTGGTTCACTGCA 127610 29 100.0 32 ............................. ACGATAGAGATCTGGCAAAAGGCTGTTATTGC 127549 29 100.0 32 ............................. GGACTGATAAATAATTCATACGTTGAAACGGG 127488 29 100.0 33 ............................. ATAGCGTATCGTGGAAATCTGTAGCAGACGAGC 127426 29 100.0 32 ............................. AAATTTTCAGCATCGCCATCTGTAGGCTGCCA 127365 29 100.0 32 ............................. AGTGAGGAATAGCGCGGGCTGGGGATGGTATT 127304 29 100.0 32 ............................. ACGGGTATTCCAGATTAATTCCGGTCGGTGTT 127243 29 100.0 32 ............................. AGGGCGTCAGCCTCGGACGAATCGATAACAAT 127182 29 100.0 32 ............................. GCAGGCGTTCAGGCGCTAATTAGCTCTACCGA 127121 29 100.0 32 ............................. AAATGATTAAGGTGCTAAAAGCGCTTAATAGT 127060 29 100.0 32 ............................. TGGTTAATCGCGGCGCCACGATATCAACAGGA 126999 29 100.0 32 ............................. ACTCGCGAATAATCGGAAACCAGCCACCATCC 126938 29 100.0 32 ............................. GGCGCGCAGATTCTCGGCGGCTGGGAAAACAC 126877 29 100.0 32 ............................. GAAAAGGCAGCTCCAGTCTGGCACCTGCATGA 126816 29 100.0 32 ............................. GATGAAAGAAGCGTTAAACGCCTGCTGGACCC 126755 29 100.0 32 ............................. TTTTTCGGCTGTATCCAGCGTTATCCCTTGTT 126694 29 100.0 32 ............................. TTTTTCGGCTGTATCCAGCGTTATCCCTTGTT 126633 29 100.0 32 ............................. GTAGTGACTTCCGGCGACACAGATCCTGTTAA 126572 29 100.0 32 ............................. ACCAACCCCCGATACCCGCGAAGAAGTGGCAC 126511 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 126450 28 93.1 0 ........................G-... | ========== ====== ====== ====== ============================= ================================= ================== 48 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCACTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATTACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: NA [63.3-70.0]%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], //