Array 1 109580-107964 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAMN01000026.1 Salmonella enterica subsp. enterica serovar Newport str. CVM30171 contig_26, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 109579 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 109518 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 109457 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 109396 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 109335 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 109274 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 109213 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 109152 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 109091 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 109030 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 108969 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 108908 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 108847 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 108786 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 108725 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 108664 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 108603 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 108542 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 108481 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 108420 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 108359 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 108298 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 108237 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 108176 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 108115 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 108054 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 107993 29 100.0 0 ............................. | A [107966] ========== ====== ====== ====== ============================= ================================ ================== 27 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: R [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-68.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 127435-126249 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAMN01000026.1 Salmonella enterica subsp. enterica serovar Newport str. CVM30171 contig_26, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 127434 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 127373 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 127312 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 127251 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 127190 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 127129 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 127068 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 127007 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 126946 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 126885 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 126824 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 126763 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 126702 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 126641 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 126580 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 126519 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 126458 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 126397 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 126336 28 96.6 32 .............-............... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 126276 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [8-1] 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 [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //