Array 1 20-1069 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYRS01000057.1 Salmonella enterica strain CVM 43801 43801_contig_57, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 20 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 82 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 143 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [185] 185 29 100.0 32 ............................. CTGGCCACTCAACAGGGAAATATCGCGTGCGC 246 29 96.6 32 A............................ CCCATCAAGATAAACATCATAGCGAGCACCTG 307 29 100.0 32 ............................. TTTGAAATCGCTATTCTTATTGCTGTAGCAGT 368 29 100.0 32 ............................. CGTTAACTAAAACGAACAAAACAGGGAAATCA 429 29 100.0 33 ............................. GCCGTGCGTCAGATCACCCCAAACGCTTTCTTT 491 29 100.0 33 ............................. GCATTAGATTGCGTTGACGGTCACGTTCTTATC 553 29 100.0 32 ............................. CGCCTCACTGATATTCTGCGGCGAGCTGAAAA 614 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 675 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 736 29 100.0 32 ............................. GAGACGCCAGATGAATTCTGCGGGACAAGAGA 797 29 100.0 32 ............................. AACGCAGGAGAACCAGCCGCCGGTCATCCTGC 858 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 919 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 980 29 100.0 32 ............................. AAGCCATTGACGCAACGGAAAACGCCAATGCT 1041 29 96.6 0 .................A........... | ========== ====== ====== ====== ============================= ================================= ================== 18 29 97.7 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TGTTGGCCCCATCGGTCCAG # Right flank : GTATGATTTGGACATAGCTAATGATGTAAAGTGTGTTCCCCGCGCCAGC # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:-0.08, 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: R [11-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [11.7-43.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0.68 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 2-335 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYRS01000066.1 Salmonella enterica strain CVM 43801 43801_contig_66, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2 29 100.0 32 ............................. CCCGCGTATTAACAACGACGAGCAGGGCGTGC 63 29 100.0 32 ............................. GTTGCGCAGCCATTGAGCTGCAAACGGATCAA 124 29 100.0 32 ............................. CGCCCCCCGCATACAGCGAGAGACGGGCCATG 185 29 100.0 32 ............................. CGCCGGGCGCGGGAGTCCCGGGCGATCCTCCC 246 29 100.0 32 ............................. GCCCGAAATCAACTTGCAACATTTCAGTTGGC 307 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 6 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CG # Right flank : | # 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: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 2-213 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYRS01000085.1 Salmonella enterica strain CVM 43801 43801_contig_85, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2 29 100.0 32 ............................. CTCCAGCCACATTGCGCCGCAAACGCGATCAA 63 29 100.0 32 ............................. GACAGGACTTACGACCGGCTGGACTACGCATC 124 29 100.0 32 ............................. CCACAGCCGCCGCGACAATAAATTAACTCACT 185 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 4 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CG # Right flank : GCTGACCAGTGGCGTGGGGGG # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.6, 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: NA [0.0-8.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 11767-10458 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYRS01000009.1 Salmonella enterica strain CVM 43801 43801_contig_9, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 11766 29 100.0 32 ............................. TAATGAATCGCCTTTCTAAAATGAAAGACGAC 11705 29 100.0 32 ............................. GCATCGAACCGCTTATCCGTCTGTACCCACTC 11644 29 100.0 32 ............................. TGGTGGAGTGCCGAACCGCTACCGTTTCAAAG 11583 29 100.0 32 ............................. TCATGGCGTCATTCGGTACTGATATGCCAATG 11522 29 100.0 32 ............................. TCGTTTGTAGCCGAAAACCGGCTGGCGCTGAT 11461 29 100.0 32 ............................. TAATGAATCGCCTTTCTAAAATGAAAGACGAC 11400 29 100.0 32 ............................. GCATCGAACCGCTTATCCGTCTGTACCCACTC 11339 29 100.0 32 ............................. CTTTCATTGCGCAGGGTATGCAGTCGGTTTCC 11278 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 11217 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 11156 29 100.0 32 ............................. AATGGGATGTTCTCGATAATGGCGACGACGAA 11095 29 100.0 32 ............................. CGGTCATTTTAAAGAATCCCGTTAAACAACAC 11034 29 100.0 32 ............................. GACATTTCAGTTTTGAGCATGAACCTGATTCA 10973 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGTTGTTTAGTTCCT 10912 29 100.0 32 ............................. AAAACCGTACAACAGACAAAATATAAATATTG 10851 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 10790 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 10729 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 10668 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 10607 29 100.0 32 ............................. GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 10546 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 10485 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 22 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTGATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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 [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-0.0]%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], //