Array 1 219614-219096 **** Predicted by CRISPRDetect 2.4 *** >NZ_SMQX01000002.1 Salmonella enterica subsp. enterica serovar Stanley strain SL_66_D001 contig00002, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 219613 29 100.0 32 ............................. GCGGGACCTCCAGCGCCACTGCTAATATTCGT 219552 29 96.6 32 ............................T GTCCCGTACGAGATACTCCAGCGCCTGCCCGC 219491 29 100.0 32 ............................. GAGTAATGGATGCCCTGCCCGGCGATTGGATT 219430 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 219369 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 219308 29 100.0 32 ............................. GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 219247 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 219186 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 219125 29 93.1 0 A...........T................ | A [219098] ========== ====== ====== ====== ============================= ================================ ================== 9 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGTTGCGGAAATGCCGTCATGGCTTGGGCGACCAACACGGAGTCGGGATTTGAGTTTCAGACATGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTTGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 237046-235737 **** Predicted by CRISPRDetect 2.4 *** >NZ_SMQX01000002.1 Salmonella enterica subsp. enterica serovar Stanley strain SL_66_D001 contig00002, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 237045 29 100.0 32 ............................. TTAGTCGCACCACCGGAACCTACCTGCGCCTC 236984 29 100.0 32 ............................. TTGTCATGCGGCGCTGCGAGCGTGCGGCCTTT 236923 29 100.0 32 ............................. CGTCCAATACGAGCCGAGTGCGCACGCCCTTA 236862 29 100.0 32 ............................. CGCCGCGAGGTGATCGAGATGCTTGAGGGTAT 236801 29 100.0 32 ............................. GTATCTCGAAGAGCGTCAAAAAAGCCGGAATG 236740 29 100.0 32 ............................. GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 236679 29 100.0 32 ............................. ATAAATTATCGGGAAATCATAATCAGCGCCGC 236618 29 100.0 32 ............................. TCGAGTTCTGGCATGTCAGACTGACGTATCGC 236557 29 100.0 32 ............................. AAAACCCTCAAATATGCGTAACGGGAGGCTGG 236496 29 100.0 32 ............................. GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 236435 29 100.0 32 ............................. TCAGCGTAGGTTGTTGACGTCCCCACCAGCCC 236374 29 100.0 32 ............................. CCATTTTTGATCATCTCCTCCAGCCTGCTGAG 236313 29 96.6 32 .............T............... GATTGTTCAGATTGGGAATTTGACCAACGCCC 236252 29 96.6 32 .............T............... GTTACTGTATTATCTCTCGCATAGACCCGGCA 236191 29 96.6 32 .............T............... CCTGAGGAGATATTCACCTTCCTGCATTTCAT 236130 29 96.6 32 .............T............... TCTGGTGGCTGCCTCATATTGTTGCGCATCTA 236069 29 96.6 32 .............T............... TCTGGTGGCTGCCTCATATTGTTGCGCATCTA 236008 29 96.6 32 .............T............... AAAAAAATGCGATCGGTACTCAACCCGGCCAC 235947 29 100.0 32 ............................. CGCCGGTTTCGGTGGGGGCTGAATCCTGAACC 235886 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 235825 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 235764 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 22 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGATCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTAGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTTGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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 [5-0] 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], //