Array 1 354-19 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAEHDY010000901.1 Salmonella enterica subsp. enterica serovar Infantis strain SI-01 NODE_901_length_1204_cov_2.050139, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 353 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 292 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 231 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 170 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 108 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 47 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 6 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTGGCGAAACAGGCCAGAG # 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 [-14.00,-14.90] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [11.7-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 5844-4350 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAEHDY010000151.1 Salmonella enterica subsp. enterica serovar Infantis strain SI-01 NODE_151_length_8309_cov_2.219628, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 5843 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 5781 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 5720 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 5659 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 5598 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 5537 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 5476 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 5415 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 5354 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 5293 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 5232 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 5171 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 5110 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 5049 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 4988 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 4927 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 4865 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 4804 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 4743 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 4682 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 4621 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 4560 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 4499 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 4438 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 4377 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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 [6-0] 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], // Array 1 44-1574 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAEHDY010000387.1 Salmonella enterica subsp. enterica serovar Infantis strain SI-01 NODE_387_length_4510_cov_2.329455, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================== ================== 44 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 105 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 166 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 227 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 288 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 349 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 410 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 471 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 532 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 593 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 654 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 715 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 776 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 837 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 895 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 956 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 1017 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 1078 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 1139 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 1200 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 1261 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 1322 29 100.0 72 ............................. CGGCCAGCCATTTAAACAGCGCTGCAGCGGGGATAAACCGACAGGGTATATGAGCTTATACGTCATGAACCA 1423 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 1484 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1545 29 93.1 0 A...........T................ | A [1571] ========== ====== ====== ====== ============================= ======================================================================== ================== 25 29 98.2 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GGGATAAACCGTGGCGAAACAGGCCAGAGAACGCGAATTGCAGG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:-0.09, 8:1, 9:0.92, # 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [31.7-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //