Array 1 750-49 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAHQTZ010000716.1 Salmonella enterica strain S16 NODE_716_length_845_cov_50.752604, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 749 29 100.0 32 ............................. CGGGTGATTTTAATGATGTGCTGACTACCGGC 688 29 100.0 32 ............................. GCGTTCTACAGTAAGGTTTACAGCCTGAGCAA 627 29 100.0 32 ............................. GTACGGAAATTTGTGTCAGATATTGCCGGGAA 566 29 100.0 32 ............................. TGCCCACAGTTCGTCGTGAATTGCGCAGGATA 505 29 100.0 32 ............................. GTTCTCAATAAATTTTCCCGGCTGCCGGATCT 444 29 100.0 32 ............................. ATTGGGACCATTCCAATGGTCAGTTTCACGGA 383 29 100.0 32 ............................. AAACCAGAATTGCTGAAGTAAATTGCAAAAGA 322 29 100.0 32 ............................. ATATCGAACGGGTTACGGCTGTCGGTGTAACT 261 29 96.6 32 ............T................ ATATTTTGGCAACTCGTCGTACATTATCGCCA 200 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 139 29 100.0 32 ............................. TCTTTGTGGTAAATATGGAATCGATTAACCCC 78 29 100.0 0 ............................. | A [51] ========== ====== ====== ====== ============================= ================================ ================== 12 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GGCCGGTCGACTACAGCGTCATATTCGCGATCGTAACGGTCTGGTGAAAAAGAGTGGGCAGGATGAGCGAGAGACGCTAGTGCTGCGCATTCTTG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTA # 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: 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [43.3-43.3]%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 6604-8568 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAHQTZ010000186.1 Salmonella enterica strain S16 NODE_186_length_8616_cov_75.691884, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 6604 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 6665 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 6726 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 6787 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 6848 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 6909 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 6970 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 7032 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 7093 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 7154 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 7215 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 7276 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 7337 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 7398 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 7459 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 7520 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 7581 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 7642 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 7703 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 7764 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 7825 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 7887 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 7990 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 8051 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 8112 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 8173 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 8234 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 8295 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 8356 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 8417 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 8478 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 8539 29 96.6 0 A............................ | A [8565] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTA # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.08, 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: F [71.7-43.3]%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], // Array 1 495-1987 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAHQTZ010000354.1 Salmonella enterica strain S16 NODE_354_length_2594_cov_90.553039, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 495 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 556 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 617 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 678 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 739 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 800 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 861 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 922 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 983 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 1044 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 1105 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 1166 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 1227 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 1288 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 1349 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 1410 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 1472 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 1533 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 1594 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 1655 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 1716 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 1777 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 1838 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 1899 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 1960 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGTG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [0-10] 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 1 1554-244 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAHQTZ010000440.1 Salmonella enterica strain S16 NODE_440_length_1681_cov_43.336035, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1553 29 100.0 32 ............................. CCTTCGTTATTTACGACATTAACATTAACCGT 1492 29 100.0 32 ............................. CTTAATGCTTTTTCGTCCGCCCATAGAAATAA 1431 29 96.6 33 ...................A......... GTATCAAAGGTCATCAGGTGTTCGCCTTTCAGC 1369 29 96.6 32 ............................A GCAGATTGGTATCTGGTACGACGACTGCCGCC 1308 29 100.0 32 ............................. ACTGTTAAAATGCTTCAGGACGGTGAAGTAAA 1247 29 100.0 32 ............................. TCCACTGTACCGCCGACAGGACTTTTTAACGT 1186 29 100.0 32 ............................. CGCAGGCGCTGGACGCGCTGCACAGACAGTCC 1125 29 100.0 32 ............................. GTGCGGTCGAGGTGGCGAGGTTGATAGCAGTA 1064 29 100.0 32 ............................. CGAATATGTTGATCGGGATTCTGGCCGCACTG 1003 29 100.0 32 ............................. CGTTTATCGCTCTGAGAGTGGCGCTCGTTACT 942 29 100.0 32 ............................. GCGCTGACCATGATTGCAGTCAGGGTCGGCAT 881 29 100.0 32 ............................. GGGGAATGATGAAACGAATTAGTAAAAACAAA 820 29 100.0 32 ............................. AAATGGCATAGCCACCCCAGACAGTGGCTTCT 759 29 100.0 32 ............................. GACCGATCCGGGAACAACCGGAACAACGCGGG 698 29 100.0 32 ............................. CCAGTAACGCTGGCGTGATAATTTTGGTCGCC 637 29 100.0 32 ............................. CAATACGACTGGACTGGATTTGATTCATTAAC 576 29 100.0 32 ............................. CAGAGCCTGGAGCTCTCGACTCCTGATTTTGG 515 29 100.0 32 ............................. GGGTAACGTCCTTTGCTGGTGTTTTTGTGTCT 454 29 100.0 32 ............................. AAACACCAACATTACGGCACGCAAGAGGTTAT 393 29 96.6 32 ........T.................... GTTGGAGGGCGGTTCTGATGGCGAAACTTATC 332 29 100.0 32 ............................. TACCAACAATTCAGCGTTACGCCAACGGTAAC 271 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 22 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATTATATCCGTTTAG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGAGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTA # 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 [6-2] 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], //