Array 1 452115-451110 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAIFX010000001.1 Salmonella enterica subsp. salamae serovar II 1,4,12,27:e,n,x:e,n,x strain HZ257 NODE_1_length_612751_cov_28.146330, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 452114 29 100.0 32 ............................. GATGCCCGATAATTCTATATATCGGGCATTGA 452053 29 100.0 32 ............................. GCGACAAATTAACTCAGGACATTGATGTCAAA 451992 29 96.6 32 ............................C TCTGTAATCGCAGTTCCCATACCTGCAACTGC 451931 29 100.0 32 ............................. TATGAGATAAGCAAATCTGACGCTTATGGATT 451870 29 100.0 32 ............................. ATGAAGATAGCTAGAAATCTGGTTTTGGGTGA 451809 29 100.0 31 ............................. ATTCCTACCCGCAGGGGGGGCAGGGCAATGC 451749 29 100.0 32 ............................. GGAAAATCGTTTACCGCTGGAGCAATCAGGGC 451688 29 100.0 33 ............................. TATTGTCATTGTGTTCAGGGAACAGGGCATAGC 451626 29 100.0 32 ............................. CGTGATTTCGAAGCCGGATTGATTACGTTAGA 451565 29 100.0 32 ............................. ACAAACGCACCGAATGTCAGGCTGACGCCTGA 451504 29 96.6 32 ........G.................... AGTACAGCGATCTCTATCTCCTCCGAATCCCC 451443 29 100.0 32 ............................. ACATATATACTCACCCCGTTTGCATTATCAGG 451382 29 100.0 32 ............................. ATACGAGCTTCTGCGCCATGAACCAGAGAGGG 451321 29 100.0 32 ............................. TTAGGGATCGGCGTGTCGGTGTATTTCTGCCC 451260 29 100.0 32 ............................. CTGGCAGATTTTGCCCCATTGATGCCCCATAA 451199 29 100.0 32 ............................. CAGGTTGGGTTTATCTACCGGGTAGATTCTAT 451138 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 17 29 99.6 32 GTGTTCCCCGCGAGAGCGGGGATAAACCG # Left flank : TGCTGTTCCCGTTCTCGCGTCTGGTGCATATCTGGAGCGTGCCGGTTGAGTATCTGACCCGTAAATATCAGCTTGTTCGCGCACGTCACTGATTGTGTGCTGATTATCTCAAGCCGCCGTGGGGCTGAGGCGTATTCAGCACTATAGCGGGAAAATAGCGCGGGCATGGAGATTGACTTCATGCCCGTTTTTTTGCATTTCCTATCGGGCTCATCCCGTATCTCACGACCTGCCGCAGACGCTCCCTTGAACTCTTTGCCGACGATATGCGCAAAATCTTACTCCCCCTTGATGTGATGATGTATTAATCTCCGAGTTTTCCGTCATATGACACTCGGCATAGTATGTTGGTAGATTTTAAGAGAGAATCATGGGTGTGGTTTTTTATTATATGAAATCAATTGGTTATATGCTCTTTAATAATGCGGTATTGTTATTTATGTGTTGGTAAGATGTTGCTGCATGAAAATGTTGTTTATAAACATAGGGATGGCACTAGA # Right flank : ACGGAGTTTGAAGACGAACATCAGGGGCTGGGGTGTTCCCCGCGCGAGCGCTGAGTTTGTGGGGTTAGTTCACTCCGGCAGGTTTTTTATGGCTGTTTGCCGGATGGCGGCATAAATGCCTTATCCGGCACCGATCTTATCTCGGAGTTGCATCGAACCTTCTCATCCTTCCCCGTACGGAGAGATATGAGGCAGTGTGCTTAATGGGGATAATATACGCGACGGAAGTGATGGTGGTGAGGGAAGGATTATTCGTCGCTCCGCTCCTCACCCTTCGGGTCGTTGCCTGCGGCAACGCTTTCTCGCTGCGCTCGAATCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGTACGGAGAGATATGAGGCCTGTNNNNGGGGAAGGATTATTCGTCGCTCCGCTCCTCACCCTTCGGGTCGTTGCCTGCGGCAACGCTTTCTCGCTGCGCTCGAATCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGTACGGAGAGATAT # 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 186481-187362 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAIFX010000007.1 Salmonella enterica subsp. salamae serovar II 1,4,12,27:e,n,x:e,n,x strain HZ257 NODE_7_length_366764_cov_36.748250, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 186481 29 100.0 32 ............................. CAATGGCTACCGCTGTTGACTCGCTTTTAACT 186542 29 100.0 32 ............................. ACATAAAAAACGAGAGGGCAACAATAACACAG 186603 29 100.0 32 ............................. GCCTCTAACACGGAGCAGAAATGATAAGTGAC 186664 29 100.0 32 ............................. AACACGTATTACACAATATTGCAGACTAGAAT 186725 29 100.0 32 ............................. CGAATACGGCGTCCGGCGTGTCTCCGGTGGTG 186786 29 100.0 32 ............................. CCAACTCCTCCCCTCGCTGCTGCGTGATTTTC 186847 29 100.0 32 ............................. CATCCGGCAATCTGGGAGCTATTCCAGATAAA 186908 29 96.6 32 ............T................ CGATCACCAGCTCGTTTGTCCCTGGCTGGCAG 186969 29 96.6 32 ............................T TGATACGTAGTTTGGCTGAATCTTCCAGAAAA 187030 29 100.0 32 ............................. GTTTAATCTGATATCCCCAGTACTAAAGGAGT 187091 29 100.0 32 ............................. TGAATGATAATTTCATATTAGTTCCTTAATCA 187152 29 100.0 32 ............................. CTATTATTTCCAAAATCGCCACGCTACAGCAC 187213 29 100.0 32 ............................. AAAGGACACCTATTAAGCGCTGAACTATCTAA 187274 29 96.6 32 ......A...................... GTGTGGTTCCAGGTCGTGCTCCGGGAAGGCCA 187335 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 203935-204757 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAIFX010000007.1 Salmonella enterica subsp. salamae serovar II 1,4,12,27:e,n,x:e,n,x strain HZ257 NODE_7_length_366764_cov_36.748250, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 203935 29 100.0 32 ............................. GCTAGCAAATACAGTGGTGATTTAAAACTTAC 203996 29 100.0 33 ............................. AAACCATTTGGCGAGTATTTCTCTCGCGAGGGC 204058 29 100.0 32 ............................. GCGAATGATCTTGGTATCTTGACAGGTGGCAG 204119 29 100.0 32 ............................. GGAGTTAGCTAGCTTTATTTCACTGATTCGCA 204180 29 100.0 32 ............................. TCCATTATCCCGTGTGTACGCCTGTAATTTGA 204241 29 100.0 32 ............................. CAAATCAATCGCAAAAACTTTGAGAAATATGG 204302 29 100.0 32 ............................. GCGATGAGCGCAATACCACAAAATTTTTCATA 204363 29 100.0 32 ............................. TCGATTTGCAATATTTTTTACCCAATTGGATC 204424 29 100.0 32 ............................. ATAGACACGAAGTGATTTCAACGTTTCCCCGT 204485 29 100.0 32 ............................. GACGCTATCGATGACATGCTGATTAACGATGC 204546 29 100.0 32 ............................. CGCGTTTAGATCTGTGGGCCCGCTGGATTGCT 204607 29 100.0 32 ............................. ATCGGGCGGGATATGTGCTGGATTCGTATTAG 204668 29 93.1 32 ...........A.T............... TTTTTCTGTCGCTGGTGGGCACTGACACGGCG 204729 29 89.7 0 ........A..................GC | ========== ====== ====== ====== ============================= ================================= ================== 14 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCTGAGCCGGAATCTCTGGGTGACAGCGGACATCGGGGGCATGGTTAATGAGCATGGTGGTGGTGGTGACAGAAAACGTACCGCCGCGCCTGCGAGGGCGGCTTGCCATATGGTTACTGGAGATTCGTGCAGGGGTTTATGTTGGCGATACATCGAAACGCATTCGAGAGATGATCTGGCAACAGATTACACAACTGGGCGGAGTCGGAAACGTAGTAATGGCTTGGGCAACAAATACTGAGTCTGGTTTTGAGTTTCAGACCTGGGGGGAAAACCGCCGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCCCTTGAAAATCAATGAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTAACGTTGGTAGTTTGTTGAGCAGTAAAAAAAATCTTTTAGAACAAATATATAGTTTTAGT # Right flank : CTTTTCACCAGCAGATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGTCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGACTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGACGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCGCTCATTC # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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: F [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [75.0-48.3]%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], //