Array 1 242679-241856 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAHTO010000002.1 Salmonella enterica subsp. salamae serovar II 1,4,12,27:e,n,x:e,n,x strain HAZEL-237 NODE_2_length_745869_cov_31.161722, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 242678 29 100.0 32 ............................. GCTAGCAAATACAGTGGTGATTTAAAACTTAC 242617 29 100.0 33 ............................. AAACCATTTGGCGAGTATTTCTCTCGCGAGGGC 242555 29 100.0 32 ............................. GCGAATGATCTTGGTATCTTGACAGGTGGCAG 242494 29 100.0 32 ............................. GGAGTTAGCTAGCTTTATTTCACTGATTCGCA 242433 29 100.0 32 ............................. TCCATTATCCCGTGTGTACGCCTGTAATTTGA 242372 29 100.0 32 ............................. CAAATCAATCGCAAAAACTTTGAGAAATATGG 242311 29 100.0 32 ............................. GCGATGAGCGCAATACCACAAAATTTTTCATA 242250 29 100.0 32 ............................. TCGATTTGCAATATTTTTTACCCAATTGGATC 242189 29 100.0 32 ............................. ATAGACACGAAGTGATTTCAACGTTTCCCCGT 242128 29 100.0 32 ............................. GACGCTATCGATGACATGCTGATTAACGATGC 242067 29 100.0 32 ............................. CGCGTTTAGATCTGTGGGCCCGCTGGATTGCT 242006 29 100.0 32 ............................. ATCGGGCGGGATATGTGCTGGATTCGTATTAG 241945 29 93.1 32 ...........A.T............... TTTTTCTGTCGCTGGTGGGCACTGACACGGCG 241884 29 89.7 0 ........A..................GC | ========== ====== ====== ====== ============================= ================================= ================== 14 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCTGAGCCGGAATCTCTGGGTGACAGCGGACATCGGGGGCATGGTTAATGAGCATGGTGGTGGTGGTGACAGAAAACGTACCGCCGCGCCTGCGAGGGCGGCTTGCCATATGGTTACTGGAGATTCGTGCAGGGGTTTATGTTGGCGATACATCGAAACGCATTCGAGAGATGATCTGGCAACAGATTACACAACTGGGCGGAGTCGGAAACGTAGTAATGGCTTGGGCAACAAATACTGAGTCTGGTTTTGAGTTTCAGACCTGGGGGGAAAACCGCCGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCCCTTGAAAATCAATGAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTAACGTTGGTAGTTTGTTGAGCAGTAAAAAAAATCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTTCACCAGCAGATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGTCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGACTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGACGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCGCTCATTCG # 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: 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 [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [48.3-75.0]%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 260133-259251 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAHTO010000002.1 Salmonella enterica subsp. salamae serovar II 1,4,12,27:e,n,x:e,n,x strain HAZEL-237 NODE_2_length_745869_cov_31.161722, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 260132 29 100.0 32 ............................. CAATGGCTACCGCTGTTGACTCGCTTTTAACT 260071 29 100.0 32 ............................. ACATAAAAAACGAGAGGGCAACAATAACACAG 260010 29 100.0 32 ............................. GCCTCTAACACGGAGCAGAAATGATAAGTGAC 259949 29 100.0 32 ............................. AACACGTATTACACAATATTGCAGACTAGAAT 259888 29 100.0 32 ............................. CGAATACGGCGTCCGGCGTGTCTCCGGTGGTG 259827 29 100.0 32 ............................. CCAACTCCTCCCCTCGCTGCTGCGTGATTTTC 259766 29 100.0 32 ............................. CATCCGGCAATCTGGGAGCTATTCCAGATAAA 259705 29 96.6 32 ............T................ CGATCACCAGCTCGTTTGTCCCTGGCTGGCAG 259644 29 96.6 32 ............................T TGATACGTAGTTTGGCTGAATCTTCCAGAAAA 259583 29 100.0 32 ............................. GTTTAATCTGATATCCCCAGTACTAAAGGAGT 259522 29 100.0 32 ............................. TGAATGATAATTTCATATTAGTTCCTTAATCA 259461 29 100.0 32 ............................. CTATTATTTCCAAAATCGCCACGCTACAGCAC 259400 29 100.0 32 ............................. AAAGGACACCTATTAAGCGCTGAACTATCTAA 259339 29 96.6 32 ......A...................... GTGTGGTTCCAGGTCGTGCTCCGGGAAGGCCA 259278 28 86.2 0 .............C..T.......G-... | ========== ====== ====== ====== ============================= ================================ ================== 15 29 98.4 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGTCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGCATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTACATATCGCCTGATGCATTATCAATCTTACGGACGGCCTGTCGTTGCCGTCTGTGACTCATCTATTACCTTGCATTGTTTATTTTCTCTATACGAATTTCGATGAGTGTATAAAAGCACTGATAAATTTTCCCATAGCGAGGCATGGATCACGCTATTTTGGTAAATTAAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGTAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTACGTTGGTAGAATGTAGTGCTGATAAAAAGTAGTTTATAAACAACGATATACATTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCCGGTACAAACCTGTAAAGTAAAAAGGCCGCATTTTCTCAGGGAGGATTTTATACAGGAGAAAGCCATGGCGTTAACGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCATTAAGGGTCAGACCAGGATTAAGCCTGTTGGTCCAGGATGAGTCTACGTCGATCTTGTTCGACACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACTTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCAGATATTGCGCGCGAACGCTATGCGGCAATGACTTTTCTCGGTATTACCCGAAGAATAAAAAAATTGTCGCGTGAGATAGACTATTCACGCTACCGAATGGTGTACACGCGTGACCCTCTGCCGATTAGC # 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: 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 [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [61.7-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.55 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1128882-1127877 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAHTO010000001.1 Salmonella enterica subsp. salamae serovar II 1,4,12,27:e,n,x:e,n,x strain HAZEL-237 NODE_1_length_1452045_cov_25.973216, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1128881 29 100.0 32 ............................. GATGCCCGATAATTCTATATATCGGGCATTGA 1128820 29 100.0 32 ............................. GCGACAAATTAACTCAGGACATTGATGTCAAA 1128759 29 96.6 32 ............................C TCTGTAATCGCAGTTCCCATACCTGCAACTGC 1128698 29 100.0 32 ............................. TATGAGATAAGCAAATCTGACGCTTATGGATT 1128637 29 100.0 32 ............................. ATGAAGATAGCTAGAAATCTGGTTTTGGGTGA 1128576 29 100.0 31 ............................. ATTCCTACCCGCAGGGGGGGCAGGGCAATGC 1128516 29 100.0 32 ............................. GGAAAATCGTTTACCGCTGGAGCAATCAGGGC 1128455 29 100.0 33 ............................. TATTGTCATTGTGTTCAGGGAACAGGGCATAGC 1128393 29 100.0 32 ............................. CGTGATTTCGAAGCCGGATTGATTACGTTAGA 1128332 29 100.0 32 ............................. ACAAACGCACCGAATGTCAGGCTGACGCCTGA 1128271 29 96.6 32 ........G.................... AGTACAGCGATCTCTATCTCCTCCGAATCCCC 1128210 29 100.0 32 ............................. ACATATATACTCACCCCGTTTGCATTATCAGG 1128149 29 100.0 32 ............................. ATACGAGCTTCTGCGCCATGAACCAGAGAGGG 1128088 29 100.0 32 ............................. TTAGGGATCGGCGTGTCGGTGTATTTCTGCCC 1128027 29 100.0 32 ............................. CTGGCAGATTTTGCCCCATTGATGCCCCATAA 1127966 29 100.0 32 ............................. CAGGTTGGGTTTATCTACCGGGTAGATTCTAT 1127905 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 17 29 99.6 32 GTGTTCCCCGCGAGAGCGGGGATAAACCG # Left flank : TGCTGTTCCCGTTCTCGCGTCTGGTGCATATCTGGAGCGTGCCGGTTGAGTATCTGACCCGTAAATATCAGCTTGTTCGCGCACGTCACTGATTGTGTGCTGATTATCTCAAGCCGCCGTGGGGCTGAGGCGTATTCAGCACTATAGCGGGAAAATAGCGCGGGCATGGAGATTGACTTCATGCCCGTTTTTTTGCATTTCCTATCGGGCTCATCCCGTATCTCACGACCTGCCGCAGACGCTCCCTTGAACTCTTTGCCGACGATATGCGCAAAATCTTACTCCCCCTTGATGTGATGATGTATTAATCTCCGAGTTTTCCGTCATATGACACTCGGCATAGTATGTTGGTAGATTTTAAGAGAGAATCATGGGTGTGGTTTTTTATTATATGAAATCAATTGGTTATATGCTCTTTAATAATGCGGTATTGTTATTTATGTGTTGGTAAGATGTTGCTGCATGAAAATGTTGTTTATAAACATAGGGATGGCACTAGA # Right flank : ACGGAGTTTGAAGACGAACATCAGGGGCTGGGGTGTTCCCCGCGCGAGCGCTGAGTTTGTGGGGTTAGTTCACTCCGGCAGGTTTTTTATGGCTGTTTGCCGGATGGCGGCATAAATGCCTTATCCGGCACCGATCTTATCTCGGAGTTGCATCGAACCTTCTCATCCTTCCCCGTACGGAGAGATATGAGGCAGTGTGCTTAATGGGGATAATATACGCGACGGAAGTGATGGTGGTGAGGGAAGGATTATTCGTCGCTCCGCTCCTCACCCTTCGGGTCGTTGCCTGCGGCAACGCTTTCTCGCTGCGCTCGAATCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGTACGGAGAGATATGAGGCNNNNNNNNGGGGAAGGATTATTCGTCGCTCCGCTCCTCACCCTTCGGGTCGTTGCCTGCGGCAACGCTTTCTCGCTGCGCTCGAATCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGTACGGAGAGATAT # 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], //