Array 1 259403-257786 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP079839.1 Salmonella enterica strain LHICA_E3 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 259402 29 96.6 32 .........A................... CCTCTCCCGATAATTTGTATCCACCGGGTTTC 259341 29 96.6 32 .........A................... GCTATCACCGCGGCGCATAGCCTTACCTATTT 259280 29 96.6 32 .........A................... CTGCCGGGGGCACAGGTTCATATTCCAGAAAA 259219 29 96.6 32 .........A................... ATCCGGCTGTTTTCCCGGCAGATTGACGGTAA 259158 29 96.6 32 .........A................... GCGGGCTCAGGCGGGGCGATCGAGGGGAGTAG 259097 29 96.6 32 .........A................... CAGATCTACGTTTCGTTCGGTGTAAAGCAGAG 259036 29 96.6 32 .........A................... CAGATAGGTATCTATACATGTTGATTAATTCC 258975 29 96.6 32 .........A................... CGACTTTGTGTACTGAGGGCTAACCCATGACC 258914 29 96.6 32 .........A................... TCATCAGCAACTGCGTCGTATTCTTCCTTGGT 258853 29 96.6 32 .........A................... GGAAAACGGAAATTGTCCGCATGTTGAAAACC 258792 29 96.6 32 .........A................... TTCCAGAATGGTGCGTTCTACTTTTTGCGCTG 258731 29 100.0 32 ............................. GAGTGGAGCAACAAAACGGACTGGGTGCAGGG 258670 29 100.0 32 ............................. TCGGTGATACTTCGTCGCTGTCGTCTCATGCC 258609 29 100.0 32 ............................. CGTCGGGCAGGCGGTAACAATTGCGCCCGCTT 258548 29 100.0 32 ............................. ATGTTCGCGAGCCAGTGAGTAATCGTGAAATC 258487 29 100.0 32 ............................. TGATCGGTCAACTGTCCAACTGTCGGGAATTT 258426 29 100.0 32 ............................. AACGACAAAACCCACTGGGTAATTTTTGTTAA 258365 29 100.0 32 ............................. AAATTAAAGTCGCGCGCGATCGGGCGTTTGCG 258304 29 100.0 32 ............................. GATCGTGCTTCAAGACACTGGCGTAATATGCG 258243 29 100.0 33 ............................. TTCTCGCTCTCCATTCCACACCTTGCCGCTGAC 258181 29 100.0 32 ............................. CCGCTCATAACGTCGATTTTTACGGGGATAAT 258120 29 100.0 33 ............................. GAACAGGATTTTACTGGCTCCCTCCATCGCTGC 258058 29 100.0 32 ............................. TAACCAGGGAAAGCCATCTTTTCATTAATTAA 257997 29 100.0 32 ............................. CTGTTCTGTTATCAGAGTGCCGTCAGCATCGC 257936 29 96.6 32 .............T............... CAACTGCTTAACGTTCAGATCGAGAATGAAAA 257875 29 100.0 32 ............................. CTAAACCAGTTGCTCCATTCTGGTGCCTGGCC 257814 29 89.7 0 ............C..............GC | ========== ====== ====== ====== ============================= ================================= ================== 27 29 98.1 32 GTGTTCCCCGCGTCAGCGGGGATAAACCG # Left flank : GTGCTAGCCGCCGGAGAAATCGAACGCCCTCAACCTGCGCCGGATATGTTGCCGCCAGCAATACCTGAGCCGGAATATCTGGGTGACAGCGGACATCGGGGGCATGGTTAATGAGCATGGTGGTGGTGGTGACAGAAAACGTACCGCCGCGCCTGCGAGGGCGGCTTGCCATATGGTTACTGGAGATTCGTGCAGGGGTTTATGTTGGCGATACATCGAAACGCATTCGAGAGATGATCTGGCAACAGATTACACAACTGGGCGGAGTCGGAAACGTAGTAATGGCTTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGGGAAAACCGCCGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCCCTTTAAAATCAATGAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTAACGTTGGTAGTTTGTTGAGTGGTAAAAAAAGGCTTTTAGAACAAATACATAGTTTTAGT # Right flank : TTTTCACCAGCAGATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGTTCAATCCGTCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGACATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGACGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCTGCGTCGCTCATTCG # Questionable array : NO Score: 5.97 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.81, # 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 : GTGTTCCCCGCGTCAGCGGGGATAAACCG # Alternate repeat : GTGTTCCCCACGTCAGCGGGGATAAACCG # 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 GTGTTCCCCGCGTCAGCGGGGATAAACCG 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 [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [48.3-70.0]%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 275865-275471 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP079839.1 Salmonella enterica strain LHICA_E3 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 275864 29 100.0 32 ............................. CCGTTTTTACTGCCAACTCATCATTCATTCCA 275803 29 100.0 32 ............................. GTGCTGGACCTCGATTTATTTAATACGTTTAT 275742 29 100.0 32 ............................. TTGCCGGTTTTGTACGTGGAGTAATCAAAACC 275681 29 100.0 32 ............................. CTACCTACGGAACGGAACGAGAGTTACTTGAT 275620 29 100.0 32 ............................. GTACACACATGAAACCTATCACCCTGTTTAAT 275559 29 96.6 32 ............................C TGTATGTCGTTAATATGGGGATCGCTGAGGTC 275498 28 86.2 0 ....C........C..........G-... | ========== ====== ====== ====== ============================= ================================ ================== 7 29 97.5 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : GAAATTAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGTCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGCATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTATCAATCTTACGGACGGCCTGTCGTTGCCGTCTGTGACTCATCTATTACCTTGCATTGTCTATTTTCTCTATACGAATTTCGATGAGTGTATAAAAGCACTGATAAATTTTCCCATAGCGAGGCATGGATCACGCTATTTTGGTAAATTAAAAGAAAAAATTATTCTATGAACTTTTTTGCATCAAAATCAGTAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTACGTTGGTAGAATGTAGTGCTGATAAAAAGTAGTTTATAAACAATGATATACATTTAGA # Right flank : TTGCATAATCATAATCTGTATACCAGTAATGGCCGGTACAAACCTGTAAAGTAAAAAGGCCGCATTTTCCCGGGGAGGCTTTTATACAGGAGAAAGCCATGGCGTTAACGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGACAAATCATTAAGGGCCAGACCAGGATTAAGCCTGTTGGTCCAGGATGAGTCTACGTCGATCTTGTTCGACACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACTTGTCCGATGTGCCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCAGATATTGCGCGCGAACGCTATGCGGCAATGACTTTTCTCGGTATTACCCGAAGAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGGTGTACACGCGTGACCCTCTGCCGATTGGC # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 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 : NA # 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 [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [63.3-73.3]%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 3 4054996-4054845 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP079839.1 Salmonella enterica strain LHICA_E3 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 4054995 29 100.0 32 ............................. CAATTCGTCTATATCACACAGCAATTTCCCCC 4054934 29 100.0 32 ............................. GTTCAGGTTTCGCGTCATCTGACGTTGGTAAT 4054873 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGCGAGAGCGGGGATAAACCG # Left flank : TGCTGTTCCCGTTCTCGCGTCTGGTGCATATCTGGAGCGTGCCGGTTGAGTATCTGACCCGTAAATATCAGCTTGTTCGCGCACGTCACTGATTGTGTGCTGATTATCTCAAGCCGCCGTGGGGCTGAGGCGTATTCAGCACTATAGCGGGAAAATAGCGCGGGCATGGAGATTGACTTCATGCCCGTTTTTTTGCATTTCCTATCGGGTTCATCCCGTACCTCACGACCTGCCGCAGACGCTCCCTTGAGCTCTTCGCCGACGATATGTGCAAAATCTTACTCCCCCTTGATGTAATGATGTATTAATCCCCGAATTTTCCGTCATACGACACTCGGCATAGTATGTTGGTAGATTTTAAGAGAGAATCATGGGCGTGGTTTTTTATTATATGAAATCAATTGGTTATATGCTCTTTAATAATGCGGTATTGTTATTTATGTGTTGGTAAGATGTTGCTGTGTGAAAATGTTGTTTATAAACATAGGGATGGCACTAGA # Right flank : GTCACGAGGTGATTCACTTGGTACTGGCTGATGTGTTCCCCGCGCGAGCGCTGAGTTTGTGGGGTTAGTTCACTCCGGCAGGTTTTTTATGGCTGTTTGCCGGATGGCGGCGTAAATGCCTTATCCGGCACCGATCTTATCTCGGCGTTGCCTATTTTTATAGTGAAGGCATGCCTCAGGATTATCGTCAGCTTCTCATCCTTCCCCGTACGGAGAAATATGAGGCAGTGTGCTTAACGGGGATAATATATGCGACGTAAGTGATGGTGGTGGGGGAAGGATTATTCGTCGCTCCGCTCCTCACCCTTCGGGTCGTTGCCTGCGGCAACGCTTTCTCGCTGCGCTCGAATCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGTACGGAGAAATATGAGGCAGTATGCTTAATGGGGATAATATACGCGACGGAAGTGATGGTGGTGGGGGAAGGATTATTCGTCGCTCCGCTCCTCACCCTCCGGGTCGTTGCCTGCGG # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : GTGTTCCCCGCGAGAGCGGGGATAAACCG # 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 [4,6] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGAGAGCGGGGATAAACCG 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: R [43.3-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //