Array 1 77866-79726 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAHUA010000001.1 Salmonella enterica subsp. salamae serovar II 1,13,23:z29:e,n,x strain HAZEL-196 NODE_1_length_1349192_cov_23.583660, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 77866 29 96.6 32 ............................A TAGCGGTACGGGTTTTACCGGTACCGGTCGCC 77927 29 100.0 32 ............................. AATTCACATTTAAGAAACTGATCAAGGACAGC 77988 29 100.0 32 ............................. CCGGGCTTTGTGGTGATGAAATTCCGCTGTGC 78049 29 100.0 32 ............................. CGGTTTCAGAAAACGCAGCGCAACACACTGCT 78110 29 100.0 32 ............................. GACCCCCGGCAGACGATTGAATTAATCGATCG 78171 29 100.0 32 ............................. CAGATCGAGGTTATGCCAGGTGAGCCGAAAGA 78232 29 100.0 32 ............................. AAACGTGCCGCCGTCTGGTTAATCAGGATGGT 78293 29 100.0 32 ............................. CGATTGCCGCCGGGGTGATCTCCCTCTATATC 78354 29 100.0 32 ............................. CCTGGATATCTCTAATAAAGGTCATTTTCGTT 78415 29 100.0 32 ............................. TAATAGGTAAATTGTGAATCCGACAACAGCAG 78476 29 100.0 32 ............................. CTGTCCTGCATACGCTCTACCGCGCGCGCACA 78537 29 100.0 32 ............................. AAAAAACTATTACTCACCGCCGCGCTACTGGC 78598 29 100.0 32 ............................. GCATTGGCCCTGTTTTTGATGCGCTTCCGGAT 78659 29 100.0 32 ............................. TGGAGTGAGAGCGCTAACCTTTCTGATTGCCC 78720 29 100.0 32 ............................. TCGCACTCACCTCTCTCGCCACAAAACCACCT 78781 29 100.0 32 ............................. CCGCTGATACTGGTTCAGATGCGAACGGTGCT 78842 29 100.0 32 ............................. TGAGTATGGTGAACCCTCATCTGTCACCGGAT 78903 29 96.6 33 ............................T GGGTATTTTTGGCAAATTATCAGCGGCCATCGC 78965 29 100.0 32 ............................. CCAGTATAGATGCCCACGCATATCTGTAAGCA 79026 29 100.0 32 ............................. ACAACGTATTCAAAAAAATAGACTCCAGAGAC 79087 29 100.0 32 ............................. GTGGAAATAAAATCATCAATCATCTCAGGCGT 79148 29 100.0 32 ............................. CAGGCATTTCTGGCGAAGTCGTCCATGTTGAC 79209 29 100.0 33 ............................. GAGAGCGAGTCGCCGGCGGCTATTCAGGACAGC 79271 29 100.0 32 ............................. CTTACGGCACGGCCATAAAGCTGGCGCTATCA 79332 29 100.0 32 ............................. AAAAAATACGAATTAGTAACTGAATTATCAAA 79393 29 100.0 32 ............................. CGGAGCGTCGTAAATCGTGGCGTTCTGAAAAT 79454 29 100.0 32 ............................. GCCGCATCAACGCCAAACGGTTTAAATCCTCC 79515 29 100.0 32 ............................. CGCCCATATACCGGACCAAGAAGTTGACGGAT 79576 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGCT 79637 29 100.0 32 ............................. CGGATCATATAGGTGAGGATTTCCTCTTTTTT 79698 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 31 29 99.8 32 GTGTTCCCCGCGAGAGCGGGGATAAACCG # Left flank : TGCTGTTCCCGTTCTCGCGTCTGGTGCATATCTGGAGCGTGCCGGTTGAGTATCTGACCCGTAAATATCAGCTTGTTCGCGCACGTCACTGATTGTGTGCTGATTATCTCAAGCCGCCGTGGGGCTGAGGCGTATTCAGCACTATAGCGGGAAAATAGCGCGGGCATGGAGATTGACTTCATGCCCGTTTTTTTGCATTTCCTATCGGGCTCATCCCGTATCTCACGACCTGCCGCAGACGCTCCCTTGAGCTCTTTGCCGACGATATGCGCAAAATCTTACTCCCCCTTGATGTGATGATGTATTAATCTCCGAGTTTTCCGTCATATGACACTCGGCATAGTATGTTGGTAGATTTTAAGAGAGAATCATGGGTGTGGTTTTTTATTATATGAAATCAATTGGTTATATGCTCTTTAATAATGCGGTATTGTTATTTATGTGTTGGTAAGATGTTGCTGCATGAAAATGTTGTTTATAAACATAGGGATGGCACTAGA # Right flank : GGTCAGGAGGTGATTCACTTGGTACTGGCTGATGTGTTCCCCGCGCGAGCGCTGAGTTTGTGGGGTTAGTTCACTCCGGCAGGTTTTTTATGGCTGTTTGCCGGATGGCGGCATAAATGCCTTATCCGGCACCGATCTTATCTCGGAGTTGCATCGAACCTTCTCATCCTTCCCCGTACGGAGAGATATGAGGCAGTGTGCTTAATGGGGATAATATACGCGACGGAAGTGATGGTGGTGGGGGAAGGATTATTCGTCGCTCCGCTCCTCACCCTTCGGGTCGTTGCCTGCGGCAACGCTTTCTCGCTGCGCTCGAATCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGTACGGAGAGATATGAGGCAGTGTGCTTAATGGGGATAATATACGCGACGGAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCACCGGGGGTAA # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 : 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: F [6,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGAGAGCGGGGATAAACCG 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 [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-43.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0.41 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 206360-206087 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAHUA010000002.1 Salmonella enterica subsp. salamae serovar II 1,13,23:z29:e,n,x strain HAZEL-196 NODE_2_length_710749_cov_28.402923, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 206359 29 100.0 32 ............................. CCGTTACGGGTTAACAGGTCAATATCTTTACG 206298 29 100.0 32 ............................. TCTAAAACTTCCTGAAATTTACGCTCTAGTGC 206237 29 100.0 32 ............................. TGTTGTTTTTCTGACGGGATGACGCGTTGGGT 206176 29 100.0 32 ............................. GCGGTGTTAGCGGTGCTTTATTATCGCGGAGT 206115 29 93.1 0 ...........................GT | ========== ====== ====== ====== ============================= ================================ ================== 5 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GGCACGTTGGATCAGGCGATGATGGCGGTAATGCCATTTAAACATAACAACCTACGGTTACTGGGCCTTAGCAACAAGATCTTACTGGCGGATGAGATCCATGCCTGTGATGCCTGGATGTCCCGAATACTCGAAGGTTTGATCGAACGGCAGGCCAGTAATGGCAACGCCACTATTCTGTTATCCGCGACGCTATCGCAGCAGCAGCGAGATAAGCTGGTGGCGGCATTTTCCCGTGGGGTGAGGCGTAGTGTGCAGGCGCCGTTGCTAGGCCATGACGATTATCCCTGGCTGACTCAGGCCACGCAAACAGAGCTGATTTCTCAGCGGGTTGATACACGCAAGGAGGTTGAGCGTAGCGTAGATATTGGCTGGCTACACAGTGAAGTGTCGTGTCTTGAACGTATAGGCGAAGCAGTGGAAAAAGGAAACTGTATCGCCTGGATACGTAACTCCGTTGATGATGCGATTCGTATCTATCGCCAGCTTCAACTGAGTAA # Right flank : TTTTCACCAGCAGATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGTCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGACTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGACGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCGCTCATTCG # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:0.01, 8:0.8, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [50.0-55.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 216529-215706 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAHUA010000002.1 Salmonella enterica subsp. salamae serovar II 1,13,23:z29:e,n,x strain HAZEL-196 NODE_2_length_710749_cov_28.402923, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 216528 29 100.0 32 ............................. GAAAGCGGCGATATTTCCGGCGTATTGATCCA 216467 29 96.6 32 ............................A ATATGACATTTCGTCACGGTAATAAATTAAAC 216406 29 100.0 32 ............................. CTGGTGGAGCGCCGCGAGGAGTACCTGTCTGA 216345 29 100.0 32 ............................. CATCGGGTTAACGGTTTGTTCGTTCCCTGCCT 216284 29 100.0 32 ............................. GAATTACTGACCTGTACAAACGCTGTAGCGAG 216223 29 100.0 32 ............................. TTTGCAATCAAATAAAATTTTGTGCTTCCCTA 216162 29 96.6 33 ............................T AGGCATTTTCTACCCTGTTGGGTGCCAATACGT 216100 29 96.6 33 ...........................T. CGCTACGGCGCAACACGCGTCCAGTTCGACGGC 216038 29 100.0 32 ............................. GGCTACAAAATTGAACACGAACTGGAGTTCAA 215977 29 100.0 32 ............................. GCGCTGGCGGCGGAATGCGAGAGCAAAAAGAG 215916 29 100.0 32 ............................. GGTTCGCTTCCACTTTCCCCCGCTCATACGCC 215855 29 100.0 32 ............................. CGCGGGGGTGAGTGTGGTTATTCAGTTGGTTA 215794 29 100.0 32 ............................. GTGTGGTTCCAGGTCGTGCTCCGGGAAGGCCA 215733 28 89.7 0 .............C..........G-... | ========== ====== ====== ====== ============================= ================================= ================== 14 29 98.5 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : GAAATTAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGTCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGCATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTACATATCGCCTGATGTATTATCAATCTTACGGACGGCCTGTCGTTGCCGTCTGTGACTCATCTATTACCTTGCATTGTCTATTTTCTCTATACGAATTTCGATGAGTGTATAAAAGCACTGATAAATTTTCCCATAGCGAGGCATGGATCACGCTATTTTGGTAAATTAAAAGAAAAAATTATTCTATGAACTTTTTTGCATCAAAATCAGTAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTACGTTGGTAGAATGTAGTGCTGATAAAAAGTAGTTTATAAACAACGATATACATTTAGT # Right flank : TTGCATAATCATAATCTGTGTATCAGTAATGGCCGGTACAAACCTGTAAAGTAAAAAGGCCGCATTTTCCCAGGGAGGCTTTTATACAGGAGAAAGCCATGGCGTTAACGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCATTAAGGGCCAGACCAGGATTAAGCCTGTTGGTCCAGGATGAGTCTACGTCGATCTTGTTCGACACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACTTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCAGATATTGCGCGCGAACGCTATGCGGCAATGACTTTTCTCGGTATTACCCGAAGAATAAAAAAATTGTCGCGTGAGATAGACTATTCACGCTACCGAATGGTGTACACGCGTGACCCTCTGCTGATTGGC # 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 : 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 [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.28 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //