Array 1 165141-163525 **** Predicted by CRISPRDetect 2.4 *** >NZ_NABJ01000030.1 Salmonella enterica subsp. enterica serovar Newport strain R9_3261_R1 NODE_2_length_414870_cov_1.06487_ID_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 165140 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 165079 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 165018 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 164957 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 164896 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 164835 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 164774 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 164713 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 164652 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 164591 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 164530 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 164469 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 164408 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 164347 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 164286 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 164225 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 164164 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 164103 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 164042 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 163981 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 163920 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 163859 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 163798 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 163737 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 163676 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 163615 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 163554 29 100.0 0 ............................. | A [163527] ========== ====== ====== ====== ============================= ================================ ================== 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 182996-181810 **** Predicted by CRISPRDetect 2.4 *** >NZ_NABJ01000030.1 Salmonella enterica subsp. enterica serovar Newport strain R9_3261_R1 NODE_2_length_414870_cov_1.06487_ID_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 182995 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 182934 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 182873 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 182812 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 182751 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 182690 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 182629 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 182568 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 182507 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 182446 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 182385 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 182324 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 182263 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 182202 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 182141 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 182080 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 182019 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 181958 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 181897 28 96.6 32 .............-............... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 181837 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], //