Array 1 131307-129142 **** Predicted by CRISPRDetect 2.4 *** >NZ_MLJQ01000002.1 Salmonella enterica subsp. enterica serovar Kentucky strain SAL2606 NODE_2_length_472834_cov_35.1069, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 131306 29 100.0 32 ............................. TTTTTTATAAATCTGGCGAACCTGCACCCCCT 131245 29 100.0 32 ............................. CTCTCAGCCCCTCCGGGGCGCCCCGTGATAAT 131184 29 100.0 32 ............................. GCATTGATGTAACACTCCTTAACTGCGGCGGC 131123 29 100.0 32 ............................. CGGTCTGTAGTCGCATGGCACGTCCTTCGGGG 131062 29 100.0 32 ............................. CATCCCCCCTCTTTTCCCCGGGTGTTTGTTGG 131001 29 100.0 32 ............................. ACGGTAGGAATATTCACGTTTTTTAAATCGGA 130940 29 100.0 32 ............................. ACCATGCATTGAAATGCCAGATGAAAATTGGG 130879 29 100.0 32 ............................. CTGCGGGTATCAAAGCGTTCAACGTTCTTGTC 130818 29 100.0 32 ............................. TTTCTGACTTTTGAGGGGGATATTTAGACGGG 130757 29 100.0 32 ............................. CCGCCTTCACCCAGCCCGCCGGACATCTGATC 130696 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 130635 29 100.0 32 ............................. AAATTTATGAGGAAAATTATGTCAGACAGTAA 130574 29 100.0 32 ............................. AGGAGTTGTTAGGCCAACTGTATAACGATTTA 130513 29 100.0 32 ............................. AGATGACCATCCCACCAAGCAGGCGAAGAAAA 130452 29 100.0 32 ............................. GTGCCGCTGATTTTCGTAACGCCTCAATGTAT 130391 29 100.0 32 ............................. AAAAAACAATGGTTTTACCGTCCGGCTGAACA 130330 29 100.0 32 ............................. CCGATGATCCAGAAAGTCACAAATGCGAGGAG 130269 29 100.0 32 ............................. AGGGGTTCAGGGGCGAGCGGGCGTTAAAGCGC 130208 29 100.0 32 ............................. CAGACCAGGGAGTTTCTGGCCGAACTGGAGAG 130147 29 100.0 32 ............................. ATGTGCGCATTATTGCTAACCATAGAGACTCA 130086 29 100.0 32 ............................. GGCGACGGCACAAAACGCTCAAAACTCATAAC 130025 29 100.0 32 ............................. TGTTGGCTGGTAACCACCGCAGATCGTCACCT 129964 29 100.0 32 ............................. ACCAGGGGGTTTTTTCCACGTATCGCCGCTGC 129903 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 129842 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 129781 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 129720 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 129659 29 100.0 32 ............................. GACAATCAGGGGGCGCTGGTTGACAGTATTAA 129598 29 100.0 32 ............................. TTAGTCAGGACGACTTTTACGGCTATGTAGGC 129537 29 100.0 32 ............................. CTATGAGCAACGATATCACCGCACTGGCGCAG 129476 29 100.0 32 ............................. CCGTAATGCTTTTATGTCCTCGCTTCGCTGCG 129415 29 96.6 32 ...................A......... GAGGTAAAACTAACTGGCCGCGTTGTCCGTCA 129354 29 100.0 32 ............................. TACGCCAGAGGAATGGCTTTCAGTGTTTTGGT 129293 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 129232 29 100.0 32 ............................. TGATATTTTTGGTTATTTGCGATTTAGTTTTT 129171 29 100.0 0 ............................. | A [129144] ========== ====== ====== ====== ============================= ================================ ================== 36 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCTCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 [50.0-70.0]%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 151164-148939 **** Predicted by CRISPRDetect 2.4 *** >NZ_MLJQ01000002.1 Salmonella enterica subsp. enterica serovar Kentucky strain SAL2606 NODE_2_length_472834_cov_35.1069, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 151163 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 151102 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 151041 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 150980 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 150918 29 100.0 32 ............................. CCTCGCATAAACGAGGCTCGCTCTGAATCTGG 150857 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 150796 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 150735 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 150674 29 100.0 32 ............................. TCTCGCAAACATCCTTCAGGCAAAACCACGGT 150613 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 150552 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 150491 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 150430 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 150369 29 100.0 32 ............................. ATTTCTTGCCTATAATTTCCGGTTCGACGCCA 150308 29 100.0 32 ............................. CACAGATCGCGAGTTTGCTGGGTATATCTGAA 150247 29 100.0 32 ............................. GGGAATGGCTGGATCTGGTGTTGGTTATTTGC 150186 29 100.0 32 ............................. CCGCCGCTGTTCTTCTGTGTCTGCTTTTGTCC 150125 29 96.6 32 ...C......................... GCAGTAATCCCGGGTATTCCGAGTTATATGAA 150064 29 100.0 32 ............................. GCGTCAACCAGTTCTGGCATACCCTCCTCTTC 150003 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 149942 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 149881 29 96.6 32 ..G.......................... CACATAACCCGGCGCGATGGCCGATACATCAT 149820 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 149759 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 149698 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 149637 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 149576 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 149515 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 149454 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 149393 29 96.6 32 ..G.......................... CGCCATAAACGCGACTCCGTCACACATCCGTA 149332 29 96.6 32 ..G.......................... ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 149271 29 93.1 32 ..G........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 149210 29 96.6 32 ..G.......................... GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 149149 29 96.6 32 ..G.......................... ATAAATTATCGGGAAATCATAATCAGCGCCGC 149088 29 96.6 32 ..G.......................... AAAACCCTCAAATATGCGTAACGGGAGGCTGG 149027 29 96.6 32 ..G.......................... TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 148966 28 79.3 0 ..G............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 37 29 97.8 32 GTATTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGAGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.84, # 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 : GTATTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [4,6] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTATTCCCCGCGCCAGCGGGGATAAACCG 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 [10-0] 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], //