Array 1 51117-51387 **** Predicted by CRISPRDetect 2.4 *** >NZ_ASXB01000167.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN014 contig6_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 51117 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 51178 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 51239 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 51300 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 51360 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 5 29 94.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # Questionable array : NO Score: 5.70 # Score Detail : 1:0, 2:3, 3:0, 4:0.72, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 : 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 [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 10425-11307 **** Predicted by CRISPRDetect 2.4 *** >NZ_ASXB01000168.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN014 contig6_4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 10425 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 10486 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 10547 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 10608 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 10669 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 10730 29 100.0 32 ............................. GCTGAAGCGCCAGGATACCCTGAAACGCTACC 10791 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 10852 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 10913 29 100.0 32 ............................. GCATTCCCGATCGTCAACCAGAGAACTGGCAC 10974 29 100.0 32 ............................. AAACCCGCGCCCGTGAGCTCGATATGCTCGGC 11035 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 11096 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 11157 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 11218 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 11279 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 15 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # Right flank : CAGACGAAAATCAGCCCGCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA # 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 [68.3-81.7]%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 21-1007 **** Predicted by CRISPRDetect 2.4 *** >NZ_ASXB01000169.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN014 contig6_5, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 21 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 82 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 143 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 204 29 96.6 32 ............................A CCAATAACCGAAATATCCACGGTGGAAATTTC 265 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 326 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 387 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 448 29 100.0 32 ............................. GGGCGAAAACGCGCTTTGAAATTCGCACGGTC 509 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 570 29 100.0 32 ............................. CCGGACGACCCGATGGGGATCCTGCCGTTGCT 631 29 100.0 32 ............................. GGAGTATTTGAAATGTACTATAAGGACTTCAT 692 27 69.0 15 ................TTCT--.C.G.T. GCAACGACAGAATGC Deletion [734] 734 29 100.0 32 ............................. GGGGCTTGTTAATATTTCTCTCACTGACTACG 795 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 856 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 917 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 978 29 96.6 0 ......G...................... | A [1005] ========== ====== ====== ====== ============================= ================================ ================== 17 29 97.8 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AGCCCGCATATTCCGACACAG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: F [1-15] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [15.0-48.3]%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], //