Array 1 15-2364 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYTX01000017.1 Salmonella enterica subsp. enterica serovar Hartford strain BCW_4013 NODE_17_length_110471_cov_2.41732, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 15 29 100.0 32 ............................. CAACCGAGCTTATCACGAAGCTAGGCGGCAAT 76 29 100.0 32 ............................. TATGAGTATATTGATTTATTTGAGACTTCTGC 137 29 100.0 32 ............................. CCGGTAAATTTAATGGCGGATTTAATTAAACC 198 29 100.0 32 ............................. AATGATGAGGGGCTGGCAACGTTTAGCGCCAC 259 29 100.0 32 ............................. CTGGCCACTCAACAGGGAAATATCGCGTGCGC 320 29 96.6 32 A............................ TTAATCCCCACGGCCAGGAGGTATTGATCAAC 381 29 100.0 32 ............................. GTGCACGTTAGCCGCGTAGCTGAATTAGGTTG 442 29 100.0 32 ............................. AGGCACGAAAAGCCATGGCCGCCGCAAAATCC 503 29 100.0 32 ............................. GGCGAGCAGATAAACACCGAAAACCTGCACGC 564 29 100.0 32 ............................. CCCATCAAGATAAACATCATAGCGAGCACCTG 625 29 100.0 32 ............................. CCATTAAGGCACTACTGGCTAAAAATGATGCC 686 29 100.0 32 ............................. CGGCCGAACGTTACGGCGACGAGGTCGAGAAA 747 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 808 29 100.0 32 ............................. AAAAATCTCCTTCACAACCTGGGGGGCTCTGG 869 29 100.0 32 ............................. AAAACAATATTAGACAGCGCGCTATATAAAGA 930 29 100.0 32 ............................. CGCTGATATTGTTCGCGCAGATCGTCGTACTG 991 29 100.0 32 ............................. CCCTTGGATTCACAGTAAAGCCGCGCCTTATA 1052 29 100.0 32 ............................. GTCCGTGAATCAGGGGCGCGATAAATTTTTGT 1113 29 100.0 32 ............................. AAATCGCGCGGCGATCGACTCAAGGCGGCGAC 1174 29 100.0 32 ............................. CATTCGATGCCAGTAAAATTGAAGCACACCAC 1235 29 100.0 32 ............................. AAAATCGTGAGTGACTATCGTTCTGTTATTGC 1296 29 100.0 32 ............................. TCTCTGTGATTACCCCGGAGCATGGCGGTGCG 1357 29 100.0 32 ............................. TGGCCGGGGAAACAAGGAAAGTCCTGGTTTTT 1418 29 100.0 32 ............................. TTTGAAATCGCTATTCTTATTGCTGTAGCAGT 1479 29 100.0 32 ............................. CGTTAACTAAAACGAACAAAACAGGGAAATCA 1540 29 100.0 33 ............................. GCCGTGCGTCAGATCACCCCAAACGCTTTCTTT 1602 29 100.0 33 ............................. GCATTAGATTGCGTTGACGGTCACGTTCTTATC 1664 29 100.0 32 ............................. CGCCTCACTGATATTCTGCGGCGAGCTGAAAA 1725 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 1786 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 1847 29 100.0 32 ............................. GAGACGCCAGATGAATTCTGCGGGACAAGAGA 1908 29 100.0 32 ............................. AACGCAGGAGAACCAGCCGCCGGTCATCCTGC 1969 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 2030 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 2091 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 2152 29 96.6 32 ............T................ AAGCCATTGACGCAACGGAAAACGCCAATGCT 2213 29 96.6 32 .................A........... GTATGATTTGGACATAGCTAATGATGTAAAGT 2274 29 100.0 32 ............................. AAGACAACTCCTGTCTTTCCATCACTCGAAGC 2335 29 100.0 0 ............................. | A [2362] ========== ====== ====== ====== ============================= ================================= ================== 39 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCTTTCGTATGCACG # Right flank : GTTTCAACAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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 : 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 [1-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [13.3-50.0]%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], // Array 1 28025-30127 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYTX01000033.1 Salmonella enterica subsp. enterica serovar Hartford strain BCW_4013 NODE_33_length_47195_cov_2.15464, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 28025 29 100.0 32 ............................. TCGGCCACGATGCAGAGGGCTACGAGCAGGTG 28086 29 100.0 32 ............................. GCATCGACTATATGCACGGAGTTAAACGCCGC 28147 29 100.0 32 ............................. AATCGCGCGCGCTGGCAGGGGATATGATGGTC 28208 29 100.0 32 ............................. GTGTTTAATCCGCAGACTGAGAAAGAAGAGGA 28269 29 100.0 32 ............................. ATATCGAATGGCGAATACAGCAAAGCGGTAAA 28330 29 96.6 32 ..........................A.. CGGCTTCTGCTATTAAATCTGGACTAATGTGG 28391 29 100.0 32 ............................. CGAATGGCTCAACTTTGAAGAGTTCAAGAAAG 28452 29 100.0 32 ............................. GCCATGTTTTTCGTTTTTGCATTCATATAGTA 28513 29 100.0 32 ............................. CCTACAGCAACGAGGAATATCACTAAACGACT 28574 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 28635 29 100.0 32 ............................. CGGGCCATGTTCTTTTCCCTCTAAAAAATCCG 28696 29 100.0 32 ............................. ATTGTGTTGTCGCCGCTAGTGGCTTGGGTTAA 28757 29 100.0 32 ............................. AATATCCACTTAAACACAACCATTATTCGCTA 28818 29 100.0 32 ............................. GCATCGAACCGCTTATCCGTCTGTACCCACTC 28879 29 100.0 32 ............................. CTTTCATTGCGCAGGGTATGCAGTCGGTTTCC 28940 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 29001 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 29062 29 100.0 32 ............................. CAGTACGACTGGACGGGATTTGATTCATTAAC 29123 29 100.0 32 ............................. AATGGGATGTTCTCGATAATGGCGACGACGAA 29184 29 100.0 32 ............................. CGGTCATTTTAAAGAATCCCGTTAAACAACAC 29245 29 100.0 32 ............................. GACATTTCAGTTTTGAGCATGAACCTGATTCA 29306 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGTTGTTTAGTTCCT 29367 29 100.0 32 ............................. AAAACCGTACAACAGACAAAATATAAATATTG 29428 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 29489 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 29550 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 29611 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 29672 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 29733 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 29795 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 29856 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 29917 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 29978 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 30039 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 30100 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 35 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTCCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTAGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [1-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%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 2 46797-47191 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYTX01000033.1 Salmonella enterica subsp. enterica serovar Hartford strain BCW_4013 NODE_33_length_47195_cov_2.15464, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 46797 29 100.0 32 ............................. TAATGCGCTCACTAAATGGATGGTTACCGGGA 46858 29 100.0 32 ............................. CATGGCTGAGGGGATGGCGCTTAAAGACTGGC 46919 29 100.0 32 ............................. CCAGTAAAGAGGCTGACGTTTGCAGTCTGCAT 46980 29 100.0 32 ............................. GGATCGACCAGTCGATGCACTCTGCCGCCGTT 47041 29 100.0 32 ............................. CTGGCATAGTCTTTTGCAATCGCGATAGCAGT 47102 29 100.0 32 ............................. CCATCAGGCCGGATGCCTTCTTTCGTATGCAC 47163 29 79.3 0 ...................A...CGGAA. | ========== ====== ====== ====== ============================= ================================ ================== 7 29 97.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCACAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAAGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : AGCA # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 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 [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-3.3]%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], //