Array 1 27-1092 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAGLB010000111.1 Salmonella enterica subsp. enterica serovar Infantis strain 3842 NODE_111_length_1133_cov_3.266402, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 27 29 100.0 32 ............................. CAGTTTGAAGAGCGCGCCCGACAGGAATATGA 88 29 100.0 32 ............................. TTACAGACCGCTCATTTGTTATAAATATGTTG 149 29 100.0 32 ............................. CCTGGAATGGTTTAACGGTGCAATCCAGGATA 210 29 100.0 32 ............................. CTGGCTAATCTGCGTGTTGATGTTGTCCATGC 271 29 100.0 32 ............................. GTCCCTACAACCGGGACCGCCCGCCCGACCAG 332 29 100.0 32 ............................. CCGAACGCTCAACGGGGAGTGATCGAGAATCT 393 29 100.0 32 ............................. CGATCAGGAAATCAAGGAGAAGCGGGTGCGTA 454 29 100.0 32 ............................. ATGGAGCGCGGTGGTTACATCGGCGTTCCGGA 515 29 100.0 32 ............................. GTCGGGATCTCGACCTTTTCAATTTCTTCTAT 576 29 100.0 32 ............................. TTTGCGACATTTATATTAATGATTATAAATAT 637 29 100.0 32 ............................. ACTTGCTTCATTGACATGCCTGCCACTGCTCC 698 29 100.0 32 ............................. GCGCGCCATTGCTGAGGGTAAACCGGCGATTA 759 29 100.0 32 ............................. CCAGCTCAATTTCGCCAACCTTCGCGCTAATG 820 29 100.0 32 ............................. TCCGTCTCCGCCAACGCCTTTAGCCCATCCAG 881 29 100.0 32 ............................. CTCTTTGATCTCTCCGTTTGCCGTTGAGTGGT 942 29 100.0 32 ............................. TTGACCGGACTCGCGGTTATTCAACTAACCGT 1003 29 100.0 32 ............................. TAGAATAATTGTGTTTTTGCTACCAATGGTTG 1064 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 18 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ACATTGAGTGCTTCTTGTACGTTCATG # Right flank : AATCTTCAGAGGACTCAGATCCTGATTACGTTGTGTTCCCC # 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: 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [26.7-36.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 30-365 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAGLB010000237.1 Salmonella enterica subsp. enterica serovar Infantis strain 3842 NODE_238_length_391_cov_2.787879, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 30 29 100.0 32 ............................. GGGGCGTCACCATTTTTGAATTTATCAGCCGC 91 29 100.0 32 ............................. ACCAGGCTACCCGCGCGGTAGTTCGTCGACAG 152 29 100.0 32 ............................. AGCAATGATTGAAAAGCTGGCGATAAACAAGG 213 29 100.0 33 ............................. ATAAATCTAATTTATTTGATTAGTAGTGCTAAA 275 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 336 29 96.6 0 ............T................ | A [363] ========== ====== ====== ====== ============================= ================================= ================== 6 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAATGCTTTTGTGTGTTCTGCTGCCACTTG # Right flank : TTTCACCAGCATATCAGGACGTTTTT # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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: 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 [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [26.7-26.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-697 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAGLB010000126.1 Salmonella enterica subsp. enterica serovar Infantis strain 3842 NODE_126_length_784_cov_2.045662, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 27 89.7 32 --......................C.... CCACGACTAACCGGTACTACTCCTGAGTTCAT 60 29 100.0 32 ............................. TATGAGTTTTCAACATCACCAACTAGTCATGT 121 29 100.0 32 ............................. GCCAAACAGGTTGAGATAGGGCTTCATTATGA 182 29 100.0 32 ............................. ATGGAACAGGCCCAGGCTGCGCAGCAGCAACA 243 29 100.0 32 ............................. TCAATAAAATCAATGATAAGCAGTGTCGTTAA 304 29 100.0 32 ............................. AGAATCGCCAGCGGAAAGAGAAGGGGTTAGCG 365 29 100.0 32 ............................. CGGGAGCACGGGTGTTGCAGCATTGCAGGAAG 426 29 100.0 32 ............................. TGCGGCGCGGTAGTTGGCCTACATGATAGCCA 487 29 100.0 32 ............................. GATGATCGTTTTTTTCGTTACGTCGCGCAAAT 548 29 100.0 32 ............................. CACCTCAGATGTTTGGGGTGCAATTTGTAATG 609 29 100.0 32 ............................. AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 670 28 89.7 0 ............T..........-.G... | ========== ====== ====== ====== ============================= ================================ ================== 12 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATAC # 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: 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 [2-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 494-38 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAGLB010000170.1 Salmonella enterica subsp. enterica serovar Infantis strain 3842 NODE_170_length_493_cov_3.718579, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 493 29 100.0 32 ............................. TACACACCTAGCAATTAATTACGATTTTGTTT 432 29 100.0 32 ............................. GAGGGTCGGTGCGCGGTATTAAAACACGCTAT 371 29 100.0 32 ............................. TACACCAAATGGGGGCCAGCAAAGAAAATGCT 310 29 100.0 32 ............................. TCGTTTATAGCTGAGAACAAGCTGGCGCTGAT 249 29 100.0 32 ............................. CGCTGGCGCAACGAGTCGTACCTGTACGCCAG 188 29 100.0 32 ............................. ATTCGACGCTCAGGCCGTTCTCTTTTAACCGG 127 29 100.0 32 ............................. TACACACCTAGCAATTAATTACGATTTTGTTT 66 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 8 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GGAGGGTCGGTGCGCGGTATTAAAACACGCTATGTGTT # 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [30.0-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 222393-221692 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAGLB010000003.1 Salmonella enterica subsp. enterica serovar Infantis strain 3842 NODE_3_length_332755_cov_41.016060, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 222392 29 100.0 32 ............................. CGGGTGATTTTAATGATGTGCTGACTACCGGC 222331 29 100.0 32 ............................. GCGTTCTACAGTAAGGTTTACAGCCTGAGCAA 222270 29 100.0 32 ............................. GTACGGAAATTTGTGTCAGATATTGCCGGGAA 222209 29 100.0 32 ............................. TGCCCACAGTTCGTCGTGAATTGCGCAGGATA 222148 29 100.0 32 ............................. GTTCTCAATAAATTTTCCCGGCTGCCGGATCT 222087 29 100.0 32 ............................. ATTGGGACCATTCCAATGGTCAGTTTCACGGA 222026 29 100.0 32 ............................. AAACCAGAATTGCTGAAGTAAATTGCAAAAGA 221965 29 100.0 32 ............................. ATATCGAACGGGTTACGGCTGTCGGTGTAACT 221904 29 96.6 32 ............T................ ATATTTTGGCAACTCGTCGTACATTATCGCCA 221843 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 221782 29 100.0 32 ............................. TCTTTGTGGTAAATATGGAATCGATTAACCCC 221721 29 100.0 0 ............................. | A [221694] ========== ====== ====== ====== ============================= ================================ ================== 12 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTGATTTCTCAGCGGGTTGATACACGCAAAGAGGTTGAGCGCAGCGTAGATATTGGCTGGCTACATAGTGAAGAGGCGTGTCTTGAACATATAGGTGAAGCAGTGGAAAAAGGAAACTGTATCGCCTGGATACGTAACTCCGTTGATGATGCGATTCGTATCTATCGCCAGCTTCAACTGAGTAAGGTCGTCGCCACGGAAAACCTTTTACTCTTCCATAGTCGCTTTGCTTTTCACGATCGTCAGCGGATTGAGTCGCAGACGCTGAATCTCTTTGGCAAACAGAGCGGCGCGCAACGTGCCGGTAAGGTCATTATCGCCACGCAGGTCATCGAACAAAGTCTGGATATTGACTGCGATGAGATGATCTCTGATTTAGCGCCGGTGGATTTATTAATTCAGCGGGCCGGTCGACTACAGCGTCATATTCGCGATCGTAACGGTCTGGTGAAAAAGAGTGGGCAGGATGAGCGAGAGACGCTAGTGCTGCGCATTCTTGC # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 [50.0-43.3]%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 2 233466-232156 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAGLB010000003.1 Salmonella enterica subsp. enterica serovar Infantis strain 3842 NODE_3_length_332755_cov_41.016060, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 233465 29 100.0 32 ............................. CCTTCGTTATTTACGACATTAACATTAACCGT 233404 29 100.0 32 ............................. CTTAATGCTTTTTCGTCCGCCCATAGAAATAA 233343 29 96.6 33 ...................A......... GTATCAAAGGTCATCAGGTGTTCGCCTTTCAGC 233281 29 96.6 32 ............................A GCAGATTGGTATCTGGTACGACGACTGCCGCC 233220 29 100.0 32 ............................. ACTGTTAAAATGCTTCAGGACGGTGAAGTAAA 233159 29 100.0 32 ............................. TCCACTGTACCGCCGACAGGACTTTTTAACGT 233098 29 100.0 32 ............................. CGCAGGCGCTGGACGCGCTGCACAGACAGTCC 233037 29 100.0 32 ............................. GTGCGGTCGAGGTGGCGAGGTTGATAGCAGTA 232976 29 100.0 32 ............................. CGAATATGTTGATCGGGATTCTGGCCGCACTG 232915 29 100.0 32 ............................. CGTTTATCGCTCTGAGAGTGGCGCTCGTTACT 232854 29 100.0 32 ............................. GCGCTGACCATGATTGCAGTCAGGGTCGGCAT 232793 29 100.0 32 ............................. GGGGAATGATGAAACGAATTAGTAAAAACAAA 232732 29 100.0 32 ............................. AAATGGCATAGCCACCCCAGACAGTGGCTTCT 232671 29 100.0 32 ............................. GACCGATCCGGGAACAACCGGAACAACGCGGG 232610 29 100.0 32 ............................. CCAGTAACGCTGGCGTGATAATTTTGGTCGCC 232549 29 100.0 32 ............................. CAATACGACTGGACTGGATTTGATTCATTAAC 232488 29 100.0 32 ............................. CAGAGCCTGGAGCTCTCGACTCCTGATTTTGG 232427 29 100.0 32 ............................. GGGTAACGTCCTTTGCTGGTGTTTTTGTGTCT 232366 29 100.0 32 ............................. AAACACCAACATTACGGCACGCAAGAGGTTAT 232305 29 96.6 32 ........T.................... GTTGGAGGGCGGTTCTGATGGCGAAACTTATC 232244 29 100.0 32 ............................. TACCAACAATTCAGCGTTACGCCAACGGTAAC 232183 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 22 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACACTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGAGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [6-2] 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], //