Array 1 3012390-3010913 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039558.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014846 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3012389 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3012328 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3012266 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3012205 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3012144 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3012083 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3012022 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3011961 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3011900 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3011839 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3011778 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3011717 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3011656 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3011594 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3011491 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3011430 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3011369 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3011308 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3011247 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3011186 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3011125 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3011064 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3011003 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3010942 29 96.6 0 A............................ | A [3010915] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.11, 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 [3-1] 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 3030137-3028522 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039558.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014846 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3030136 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 3030075 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 3030014 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 3029953 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3029892 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3029831 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3029770 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3029709 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3029648 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3029587 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3029526 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3029465 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3029404 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3029343 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3029282 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3029221 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3029160 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 3029099 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3029037 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3028976 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3028915 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3028854 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3028793 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3028732 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3028671 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3028610 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3028549 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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 : 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 [10-1] 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], //