Array 1 189-38 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAHTN010000102.1 Salmonella enterica subsp. salamae serovar II 1,4,12,27:e,n,x:e,n,x strain HAZEL-238 NODE_102_length_225_cov_1.602041, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 188 29 100.0 32 ............................. GCGAATGATCTTGGTATCTTGACAGGTGGCAG 127 29 100.0 32 ............................. CAAATCAATCGCAAAAACTTTGAGAAATATGG 66 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ACCGAAACCATTTGGCGAGTATTTCTCTCGCGAGGG # Right flank : GGCGATGAGCGCAATACCACAAAATTTTTCATAGTGTT # 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 : 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 [-14.00,-14.90] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [38.3-28.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 37-187 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAHTN010000103.1 Salmonella enterica subsp. salamae serovar II 1,4,12,27:e,n,x:e,n,x strain HAZEL-238 NODE_103_length_224_cov_2.000000, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 37 29 100.0 32 ............................. GCGAATGATCTTGGTATCTTGACAGGTGGCAG 98 29 100.0 32 ............................. GACGCTATCGATGACATGCTGATTAACGATGC 159 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCGAAACCATTTGGCGAGTATTTCTCTCGCGAGGGCG # Right flank : CGCGTTTAGATCTGTGGGCCCGCTGGATTGCTGTGTT # 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 : 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [26.7-26.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1133009-1132004 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAHTN010000001.1 Salmonella enterica subsp. salamae serovar II 1,4,12,27:e,n,x:e,n,x strain HAZEL-238 NODE_1_length_1347531_cov_22.830164, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1133008 29 100.0 32 ............................. GATGCCCGATAATTCTATATATCGGGCATTGA 1132947 29 100.0 32 ............................. GCGACAAATTAACTCAGGACATTGATGTCAAA 1132886 29 96.6 32 ............................C TCTGTAATCGCAGTTCCCATACCTGCAACTGC 1132825 29 100.0 32 ............................. TATGAGATAAGCAAATCTGACGCTTATGGATT 1132764 29 100.0 32 ............................. ATGAAGATAGCTAGAAATCTGGTTTTGGGTGA 1132703 29 100.0 31 ............................. ATTCCTACCCGCAGGGGGGGCAGGGCAATGC 1132643 29 100.0 32 ............................. GGAAAATCGTTTACCGCTGGAGCAATCAGGGC 1132582 29 100.0 33 ............................. TATTGTCATTGTGTTCAGGGAACAGGGCATAGC 1132520 29 100.0 32 ............................. CGTGATTTCGAAGCCGGATTGATTACGTTAGA 1132459 29 100.0 32 ............................. ACAAACGCACCGAATGTCAGGCTGACGCCTGA 1132398 29 96.6 32 ........G.................... AGTACAGCGATCTCTATCTCCTCCGAATCCCC 1132337 29 100.0 32 ............................. ACATATATACTCACCCCGTTTGCATTATCAGG 1132276 29 100.0 32 ............................. ATACGAGCTTCTGCGCCATGAACCAGAGAGGG 1132215 29 100.0 32 ............................. TTAGGGATCGGCGTGTCGGTGTATTTCTGCCC 1132154 29 100.0 32 ............................. CTGGCAGATTTTGCCCCATTGATGCCCCATAA 1132093 29 100.0 32 ............................. CAGGTTGGGTTTATCTACCGGGTAGATTCTAT 1132032 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 17 29 99.6 32 GTGTTCCCCGCGAGAGCGGGGATAAACCG # Left flank : TGCTGTTCCCGTTCTCGCGTCTGGTGCATATCTGGAGCGTGCCGGTTGAGTATCTGACCCGTAAATATCAGCTTGTTCGCGCACGTCACTGATTGTGTGCTGATTATCTCAAGCCGCCGTGGGGCTGAGGCGTATTCAGCACTATAGCGGGAAAATAGCGCGGGCATGGAGATTGACTTCATGCCCGTTTTTTTGCATTTCCTATCGGGCTCATCCCGTATCTCACGACCTGCCGCAGACGCTCCCTTGAACTCTTTGCCGACGATATGCGCAAAATCTTACTCCCCCTTGATGTGATGATGTATTAATCTCCGAGTTTTCCGTCATATGACACTCGGCATAGTATGTTGGTAGATTTTAAGAGAGAATCATGGGTGTGGTTTTTTATTATATGAAATCAATTGGTTATATGCTCTTTAATAATGCGGTATTGTTATTTATGTGTTGGTAAGATGTTGCTGCATGAAAATGTTGTTTATAAACATAGGGATGGCACTAGA # Right flank : ACGGAGTTTGAAGACGAACATCAGGGGCTGGGGTGTTCCCCGCGCGAGCGCTGAGTTTGTGGGGTTAGTTCACTCCGGCAGGTTTTTTATGGCTGTTTGCCGGATGGCGGCATAAATGCCTTATCCGGCACCGATCTTATCTCGGAGTTGCATCGAACCTTCTCATCCTTCCCCGTACGGAGAGATATGAGGCAGTGTGCTTAATGGGGATAATATACGCGACGGAAGTGATGGTGGTGAGGGAAGGATTATTCGTCGCTCCGCTCCTCACCCTTCGGGTCGTTGCCTGCGGCAACGCTTTCTCGCTGCGCTCGAATCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGTACGGAGAGATATGAGGCANNNNNGGGGGGAAGGATTATTCGTCGCTCCGCTCCTCACCCTTCGGGTCGTTGCCTGCGGCAACGCTTTCTCGCTGCGCTCGAATCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGTACGGAGAGATAT # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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: 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: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [40.0-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 186491-187372 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAHTN010000006.1 Salmonella enterica subsp. salamae serovar II 1,4,12,27:e,n,x:e,n,x strain HAZEL-238 NODE_6_length_277976_cov_26.536547, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 186491 29 100.0 32 ............................. CAATGGCTACCGCTGTTGACTCGCTTTTAACT 186552 29 100.0 32 ............................. ACATAAAAAACGAGAGGGCAACAATAACACAG 186613 29 100.0 32 ............................. GCCTCTAACACGGAGCAGAAATGATAAGTGAC 186674 29 100.0 32 ............................. AACACGTATTACACAATATTGCAGACTAGAAT 186735 29 100.0 32 ............................. CGAATACGGCGTCCGGCGTGTCTCCGGTGGTG 186796 29 100.0 32 ............................. CCAACTCCTCCCCTCGCTGCTGCGTGATTTTC 186857 29 100.0 32 ............................. CATCCGGCAATCTGGGAGCTATTCCAGATAAA 186918 29 96.6 32 ............T................ CGATCACCAGCTCGTTTGTCCCTGGCTGGCAG 186979 29 96.6 32 ............................T TGATACGTAGTTTGGCTGAATCTTCCAGAAAA 187040 29 100.0 32 ............................. GTTTAATCTGATATCCCCAGTACTAAAGGAGT 187101 29 100.0 32 ............................. TGAATGATAATTTCATATTAGTTCCTTAATCA 187162 29 100.0 32 ............................. CTATTATTTCCAAAATCGCCACGCTACAGCAC 187223 29 100.0 32 ............................. AAAGGACACCTATTAAGCGCTGAACTATCTAA 187284 29 96.6 32 ......A...................... GTGTGGTTCCAGGTCGTGCTCCGGGAAGGCCA 187345 28 86.2 0 .............C..T......-.G... | ========== ====== ====== ====== ============================= ================================ ================== 15 29 98.4 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGTCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGCATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTACATATCGCCTGATGCATTATCAATCTTACGGACGGCCTGTCGTTGCCGTCTGTGACTCATCTATTACCTTGCATTGTTTATTTTCTCTATACGAATTTCGATGAGTGTATAAAAGCACTGATAAATTTTCCCATAGCGAGGCATGGATCACGCTATTTTGGTAAATTAAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGTAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTACGTTGGTAGAATGTAGTGCTGATAAAAAGTAGTTTATAAACAACGATATACATTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCCGGTACAAACCTGTAAAGTAAAAAGGCCGCATTTTCTCAGGGAGGATTTTATACAGGAGAAAGCCATGGCGTTAACGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCATTAAGGGTCAGACCAGGATTAAGCCTGTTGGTCCAGGATGAGTCTACGTCGATCTTGTTCGACACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACTTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCAGATATTGCGCGCGAACGCTATGCGGCAATGACTTTTCTCGGTATTACCCGAAGAATAAAAAAATTGTCGCGTGAGATAGACTATTCACGCTACCGAATGGTGTACACGCGTGACCCTCTGCCGATTAG # Questionable array : NO Score: 6.18 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 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: F [matched GTGTTCCCCGCGCTAGCGGGGATAAACCG 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 [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-61.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.55,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 204722-204994 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAHTN010000006.1 Salmonella enterica subsp. salamae serovar II 1,4,12,27:e,n,x:e,n,x strain HAZEL-238 NODE_6_length_277976_cov_26.536547, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 204722 29 100.0 32 ............................. GACGCTATCGATGACATGCTGATTAACGATGC 204783 29 100.0 32 ............................. CGCGTTTAGATCTGTGGGCCCGCTGGATTGCT 204844 29 100.0 32 ............................. ATCGGGCGGGATATGTGCTGGATTCGTATTAG 204905 29 93.1 32 ...........A.T............... TTTTTCTGTCGCTGGTGGGCACTGACACGGCG 204966 29 89.7 0 ........A..................GC | ========== ====== ====== ====== ============================= ================================ ================== 5 29 96.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ATTATCCCGTGTGTACGCCTGTAATTTGAGTGTTCCCCGCGCCAGCGGGGATAAACCGCAAATCAATCGCAAAAACTTTGAGAAATATGGGTGTTCCCCGCGCCAGCGGGGATAAACCGGCGATGAGCGCAATACCACAAAATTTTTCATAGTGTTCCCCGCGCCAGCGGGGATAAACCGTCGATTTGCAATATTTTTTACCCAATTGGATCGTGTTCCCCGCGCCAGCGGGGATAAACCGATAGACACGAAGTGATTTCAACGTTTCCCCGTGTGTTCCCCGCGCCAGCGGGGATAAACCGGACGCTATCGATGACATGCTGATTAACGATGCGTGTTCCCCGCGCCAGCGGGGATAAACCGCGCGTTTAGATCTGTGGGCCCGCTGGATTGCTGTGTTCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNT # Right flank : CTTTTCACCAGCAGATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGTCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGACTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGACGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCGCTCATTC # Questionable array : NO Score: 5.89 # Score Detail : 1:0, 2:3, 3:0, 4:0.83, 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: 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 [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [1.7-48.3]%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], //