Array 1 94582-95464 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYTE01000023.1 Salmonella enterica strain CVM 43839 43839_contig_23, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 94582 29 96.6 32 ..........T.................. GAACGAGTAATCTTTGTTTTCCCCGTACCTTC 94643 29 96.6 32 ..........T.................. GAACGAGTAATCTTTGTTTTCCCCGTACCTTC 94704 29 96.6 32 ..........T.................. CAAAATCAAAATTTCGAAATAAATGATTGGAA 94765 29 96.6 32 ..........T.................. TCAAACGGTTCTGGAACATCTAAAAATACATG 94826 29 96.6 32 ..........T.................. CTGGCTGTCTGCGTGATAAATGCAGAGTGTGA 94887 29 100.0 32 ............................. CAGGAATTGGGGATGTTACCTGAAGATGTGAA 94948 29 100.0 32 ............................. TTCAGAACGATTATATTTTGATTTGTGTTCAG 95009 29 100.0 32 ............................. ACCGAGAGTGACATTTTCCCACTACTGGCTGG 95070 29 100.0 32 ............................. GACGCCATGCGCTACGTAGCGACGCGTGTTGA 95131 29 100.0 32 ............................. GAGAGTCGTGGTGAACTGGCAGTGCTCCGGTG 95192 29 100.0 32 ............................. AGATTGGCTATTGCGGTAGCATACTGACTCTT 95253 29 100.0 32 ............................. ATTTTTTGCGGTTCAATCAGCTCATACCACAG 95314 29 100.0 32 ............................. ACAAAGCCAAGCGCTATATGGCCGGTATTTTT 95375 29 100.0 32 ............................. CGCAATGAACTTTGTCGCGCCGCGAGGCGTGC 95436 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 15 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGTGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : ATGGTAAATATGAATTTAATGTCTATCCTGGGGTGTTCCCCGCGCCAGCG # 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 : GTGTTCCCCGTGCCAGCGGGGATAAACCG # 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: F [73.3-43.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 198860-196753 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYTE01000013.1 Salmonella enterica strain CVM 43839 43839_contig_13, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 198859 29 100.0 32 ............................. GCGGACTCCTGCACCTCTTTGAGCCCGTCGAT 198798 29 100.0 32 ............................. TCAGCGTAGGTTGTTGATGTTCCCACCAGCCC 198737 29 100.0 32 ............................. GCCACAATCAGATCGAAACGCTCCGGATCACC 198676 29 100.0 33 ............................. TTGTCACTGCCCCTGTTGAATCAATACAGCCAC 198614 29 100.0 32 ............................. CAGGTCGGTTATCTCGAAGCTGCCCGCTCTGC 198553 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 198492 29 100.0 32 ............................. GGGCTATATCCACGCCAAAGGGCCGCGCGACA 198431 29 100.0 32 ............................. CCAGGCACTAACTCGCAGTATCACTCCCTGCC 198370 29 100.0 32 ............................. GTCATCGCCGGTGAGGTATTTTTTTGGCTTAG 198309 29 100.0 32 ............................. GATAGCGCGGAAATTGCCGAGGTTATAGCTAA 198248 29 100.0 32 ............................. CGTCCAATACGAGCCGAGTGCTCACGCCCTTA 198187 29 100.0 32 ............................. TTGAGGAATTCTTCCCGCAACGCCTGTTTGTC 198126 29 100.0 32 ............................. CCCTGCCCGGCGATTGGATTATTCGCGGTGTT 198065 29 100.0 32 ............................. GGGGCTATTGAGGTTTGCCAGCACAACCTGTC 198004 29 100.0 32 ............................. TTCCACGCGTCGTCGTCAAACCTCGATTTCGG 197943 29 100.0 33 ............................. CAGAACCTGGCTGATGAGGAACTTTCAATCTGC 197881 29 100.0 32 ............................. TGCGATCTAATCTCCTCTGGCGTGACTGTACG 197820 29 100.0 33 ............................. TTGCCAGCCGAGGCCGTTACCGTTCGCCAGAAC 197758 29 100.0 32 ............................. CGCTGAATTCCGATATTCCGCCGTATTGCACG 197697 29 96.6 32 ............................T TTACGCAATATTAACAGACCAGGGAGCAGCGC 197636 29 100.0 32 ............................. GGGTTATCTCCCTGCCGTTAAAACGGACGTTT 197575 29 100.0 32 ............................. CTCATTTGCCTTGCTTGATGACCACTGCGGTA 197514 29 100.0 32 ............................. TCATCGAGTACGGAAAATCCGTTTTTATTGTA 197453 29 96.6 32 .............C............... CTACGAAGGCGTCTTTATGGCGCACAGTACCA 197392 29 96.6 32 .............C............... CCGTCCAGCTCCACATGCTCGCCAATCTCCTG 197331 29 96.6 32 .............C............... GTTGGCAGCATGATCGCTAAATCTAAAATGCC 197270 29 96.6 32 .............C............... TTAGCCATCCCCATACCAAAGTTAAAGTCGTA 197209 29 96.6 32 .............C............... CCTGGCAAATTATTTCCTGGATACTCGATATC 197148 29 96.6 32 .............C............... GCTGCGTTCAACAACGGGGAAATGCCGGAGAA 197087 29 96.6 32 .............C............... GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 197026 29 96.6 32 .............C............... CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 196965 29 96.6 32 .............C............... GGGATTATGTCCTCTAAAGACTGGCTAATCAC 196904 29 93.1 32 .............C...........G... TTGAATACGTCGCGATACCAGTCACTCCGGAA 196843 29 96.6 32 ..C.......................... AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 196782 29 89.7 0 A...........TC............... | A [196755] ========== ====== ====== ====== ============================= ================================= ================== 35 29 98.4 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTAGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGCAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.18 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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: NA [5,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCTAGCGGGGATAAACCG 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 [7-0] 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 [0,5.55 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 215390-215118 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYTE01000013.1 Salmonella enterica strain CVM 43839 43839_contig_13, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 215389 29 100.0 32 ............................. ATGGTAAATATGAATTTAATGTCTATCCTGGG 215328 29 100.0 32 ............................. CCATGCTCCAGGGTAGCCAACCTGCAAGTAAT 215267 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 215206 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 215145 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 5 29 95.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGGACGCCATGCGCTTTGTCGCGCCGCGTGTCGTG # Right flank : TTGCATAATCATAATCTGTGTACCAGTGATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGAGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 5:0, 6:0.25, 7:0.01, 8:0.8, 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: F [61.7-26.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //