Array 1 13-1627 **** Predicted by CRISPRDetect 2.4 *** >NZ_MCOY01000020.1 Salmonella enterica subsp. enterica serovar Kentucky strain ARS-CC8078 NODE_119_length_1638_cov_2.77707_ID_58128, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 13 29 100.0 32 ............................. CTCTCAGCCCCTCCGGGGCGCCCCGTGATAAT 74 29 100.0 32 ............................. GCATTGATGTAACACTCCTTAACTGCGGCGGC 135 29 100.0 32 ............................. CGGTCTGTAGTCGCATGGCACGTCCTTCGGGG 196 29 100.0 32 ............................. CATCCCCCCTCTTTTCCCCGGGTGTTTGTTGG 257 29 100.0 32 ............................. ACGGTAGGAATATTCACGTTTTTTAAATCGGA 318 29 100.0 32 ............................. ACCATGCATTGAAATGCCAGATGAAAATTGGG 379 29 100.0 32 ............................. CTGCGGGTATCAAAGCGTTCAACGTTCTTGTC 440 29 100.0 32 ............................. TTTCTGACTTTTGAGGGGGATATTTAGACGGG 501 29 100.0 32 ............................. CCGCCTTCACCCAGCCCGCCGGACATCTGATC 562 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 623 29 100.0 32 ............................. AAATTTATGAGGAAAATTATGTCAGACAGTAA 684 29 100.0 32 ............................. AGGAGTTGTTAGGCCAACTGTATAACGATTTA 745 29 100.0 32 ............................. AGATGACCATCCCACCAAGCAGGCGAAGAAAA 806 29 100.0 32 ............................. GTGCCGCTGATTTTCGTAACGCCTCAATGTAT 867 29 100.0 32 ............................. AAAAAACAATGGTTTTACCGTCCGGCTGAACA 928 29 100.0 32 ............................. CCGATGATCCAGAAAGTCACAAATGCGAGGAG 989 29 100.0 32 ............................. AGGGGTTCAGGGGCGAGCGGGCGTTAAAGCGC 1050 29 100.0 32 ............................. CAGACCAGGGAGTTTCTGGCCGAACTGGAGAG 1111 29 100.0 32 ............................. ATGTGCGCATTATTGCTAACCATAGAGACTCA 1172 29 100.0 32 ............................. GGCGACGGCACAAAACGCTCAAAACTCATAAC 1233 29 100.0 32 ............................. TGTTGGCTGGTAACCACCGCAGATCGTCACCT 1294 29 100.0 32 ............................. ACCAGGGGGTTTTTTCCACGTATCGCCGCTGC 1355 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 1416 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 1477 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 1538 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 1599 29 96.6 0 ............................T | ========== ====== ====== ====== ============================= ================================ ================== 27 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCTGCACCCCCTG # Right flank : GACAATCAGGG # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [5.0-8.3]%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 1 164718-163572 **** Predicted by CRISPRDetect 2.4 *** >NZ_MCOY01000110.1 Salmonella enterica subsp. enterica serovar Kentucky strain ARS-CC8078 NODE_1_length_611325_cov_150.192_ID_57892, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================================== ================== 164717 29 100.0 32 ............................. CGCCCCTCACCACCGTGGCCGCGTGCCGTTCG 164656 29 100.0 32 ............................. GCAACTATGTTTAACGCGGCCAATAACGATTT 164595 29 100.0 32 ............................. ACCGGGTTGCCGTAGGTGCTGGCCCCCTTGAT 164534 29 100.0 32 ............................. ATTTTCCTCTTGATCCGACTGATAAAACAAAC 164473 29 100.0 32 ............................. CCAGTCTGTATGAGGCTGCGATTGTGTGTTTT 164412 29 100.0 32 ............................. CCTGTAAAACTGATTTCAGGCTGGTTAGTGAC 164351 29 100.0 32 ............................. TAACGCCCGGCGGTATAGTCGATTTCGTGCTG 164290 29 100.0 32 ............................. ATTTATCCATTAGTCCCATAGCTGAGTCTCTT 164229 29 100.0 32 ............................. TCAACGTTACGACCGAACCACACCGATAAGAA 164168 29 100.0 32 ............................. GCACGGGTACGCCGAAAATCGGGGGCTATGCC 164107 29 100.0 32 ............................. GGGATCGGCGAGTCGTTCGTGTTTGCTATTTC 164046 29 100.0 32 ............................. GTCAACGCCAATGACCGGGAATTATCCCGGAA 163985 29 100.0 50 ............................. TTTCCGCTCTCTCTCGTCCATCATTCCGCGCCGGCATAACTGACGATCAG 163906 29 100.0 32 ............................. GCGCGCAACCCGGCATTTCACAGAAAATTTTT 163845 29 100.0 32 ............................. CTGGTCCCGCGTGTATACCAGTATTTACCGTG 163784 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 163723 29 96.6 32 ..........T.................. GCGTATGAGCGCCCAGCAGCGAACGTGAATCT 163662 29 100.0 32 ............................. CCGCTTTGCTGGCAACATTCACCACATAGCAT 163601 29 96.6 0 ............T................ | A [163574] ========== ====== ====== ====== ============================= ================================================== ================== 19 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGTCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTAGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCTATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.00, 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%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 182065-180878 **** Predicted by CRISPRDetect 2.4 *** >NZ_MCOY01000110.1 Salmonella enterica subsp. enterica serovar Kentucky strain ARS-CC8078 NODE_1_length_611325_cov_150.192_ID_57892, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 182064 29 100.0 32 ............................. CGTGCAGGGGGTTAAATAAAGAACACGCTGAC 182003 29 100.0 32 ............................. CGCTTGGCGGTTATCATGGCCGGTAATGACTC 181942 29 100.0 32 ............................. GACGCTTACATCTCACCGAGAGATTTTGAGGC 181881 29 100.0 32 ............................. CGGGGATTAGCTCTAAAAATATTTTTATTTTG 181820 29 100.0 32 ............................. CAGTATTTCGGCATGGCAAGCCGCAGCGCGAA 181759 29 100.0 32 ............................. ATAATCGGGATACATTTTGTTGTCCGGGTGGC 181698 29 100.0 32 ............................. TCAGAGCCTTTTTGATGAAGTACTACGGCAAC 181637 29 100.0 32 ............................. GCGTACAGCCGTATGCCTCAGACTCCCCACGA 181576 29 100.0 32 ............................. GGCCGATATACAGTTTTTACTGTGGGATGCGC 181515 29 100.0 32 ............................. CGGAAATTCAGGGAACCCCGGAAGCGATTAGA 181454 29 100.0 32 ............................. CAGCAGGACGACGACCCGCGCCCCCGCGTCGG 181393 29 93.1 32 A...........T................ GATGTAACGTCTCTCACCTGGCCCGGCGTAAC 181332 29 89.7 32 A...C.......T................ CGGACATTGTTCGTGAGCGAGCTGTTGTTCGT 181271 29 93.1 32 A...........T................ ACGGGTTAGCGCCTGCGGATAATGCCCAGCAC 181210 29 89.7 32 A...........T........G....... GTGGCAATGGTATCGCTATACGAAAGCGACGT 181149 29 96.6 32 .......T..................... TTCGTGTATTTTGAGTCGTTTACCGTATCTGC 181088 29 100.0 32 ............................. CGCGCCGCACGTTCGGTAGCGTGGCTGAGTTA 181027 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 180966 29 100.0 32 ............................. GCAACAGTGCTGGTGGAATTAAAAACACCGAC 180905 28 96.6 0 .........................-... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 97.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 [-8.90,-10.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1995-75 **** Predicted by CRISPRDetect 2.4 *** >NZ_MCOY01000332.1 Salmonella enterica subsp. enterica serovar Kentucky strain ARS-CC8078 NODE_97_length_2082_cov_3.45187_ID_58084, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1994 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 1933 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 1872 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 1811 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 1749 29 100.0 32 ............................. CCTTTCGTGTCGTCTGCCTCGCTGGTTACCGT 1688 29 100.0 32 ............................. CCTCGCATAAACGAGGCTCGCTCTGAATCTGG 1627 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 1566 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 1505 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 1444 29 100.0 32 ............................. TCTCGCAAACATCCTTCAGGCAAAACCACGGT 1383 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 1322 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 1261 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 1200 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 1139 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 1078 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 1017 29 96.6 32 ..G.......................... CACATAACCCGGCGCGATGGCCGATACATCAT 956 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 895 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 834 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 773 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 712 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 651 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 590 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 529 29 96.6 32 ..G.......................... CGCCATAAACGCGACTCCGTCACACATCCGTA 468 29 96.6 32 ..G.......................... ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 407 29 93.1 32 ..G........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 346 29 96.6 32 ..G.......................... GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 285 29 96.6 32 ..G.......................... ATAAATTATCGGGAAATCATAATCAGCGCCGC 224 29 96.6 32 ..G.......................... AAAACCCTCAAATATGCGTAACGGGAGGCTGG 163 29 96.6 32 ..G.......................... TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 102 28 79.3 0 ..G............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 32 29 97.5 32 GTATTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGG # Questionable array : NO Score: 5.90 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.76, # 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 : GTATTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # 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 GTATTCCCCGCGCCAGCGGGGATAAACCG 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 [10-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //