Array 1 108398-105437 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAIXBQ010000009.1 Salmonella enterica strain L3-29 contig00009, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 108397 29 100.0 32 ............................. CCCCACAAATCACTGGTCGATTTCGTCGCACG 108336 29 100.0 32 ............................. GTTGCGACTAAACCGGACCAGCGCCCGCCCAC 108275 29 100.0 32 ............................. CCAGTGCTCGCTTGCTTCTACCCGTCCCGATC 108214 29 100.0 32 ............................. GCGGTTTTATTCGGCAGGGCATTGAATTTAAT 108153 29 100.0 32 ............................. AATTATCTATTTTTCTGGCCCGTTTTCAATGC 108092 29 100.0 32 ............................. CCCGCGTTTTGCGTCAGCATATAGCCAATATG 108031 29 100.0 32 ............................. GCTTTGCATACGTCACTCATAGACAAATCACG 107970 29 100.0 32 ............................. CGATTCTGGTAACGTCGCTGTACTGCCTGACA 107909 29 100.0 32 ............................. GGCGCATGAAACAACCGGCGGGGATCTCTATT 107848 29 100.0 32 ............................. ACAGCGTTAAAATGACGCCCGACGTTGTGGTG 107787 29 100.0 32 ............................. AGGGCTAACACATCACCATTATTACCAAATTC 107726 29 100.0 32 ............................. GACATTGCCCGCTGGGATGCGCGGCAACTGGA 107665 29 100.0 32 ............................. AATTGCCTTTGCTGCCCGGCTCTTCTACGGTC 107604 29 100.0 32 ............................. AGATGAATAACGCGATTTACGAGGTTACGTAT 107543 29 100.0 32 ............................. ATTAAATACCTGGAAAAATACCCCAAAGGGGC 107482 29 100.0 32 ............................. AAAAATAGCGATAACGCGCCAGATCGTGAGGT 107421 29 100.0 32 ............................. TCATTTTTTATTTTCACGTTCGGCTTTCTCAC 107360 29 100.0 32 ............................. TTAAATCGACCTACCTGTTAAACGCGTCAATG 107299 29 100.0 32 ............................. TTCGCAGTAACAGTGTCGTTTTTATAACCGAC 107238 29 100.0 32 ............................. GCGGCATTAATGCGGGATTGTGTTTTCTGAGC 107177 29 100.0 32 ............................. ACGGCAGAAACAATGGCGTCAGTAGCTCAGGA 107116 29 100.0 33 ............................. CAGTCAATGAGACTTTTCACACTGATAATGTTG 107054 29 100.0 32 ............................. CCCCTATTCCTGATCATCGCGCATTTGGCGGC 106993 29 100.0 32 ............................. ACCACCACGTAGCCGTAGGCTGTCGCCAGTTG 106932 29 100.0 32 ............................. GAATTACGTTGCGAACAGCGCGGCGAGAGACG 106871 29 100.0 32 ............................. CGGATTGCATTCAATAAACATGTAAATAGGAA 106810 29 100.0 32 ............................. TTACCGACACCTGCGTGGCTAGCGTTTTTTCG 106749 29 100.0 32 ............................. CCAAAAACATTGAGTGCTTCTTGTACGTTCAT 106688 29 100.0 32 ............................. CCTGCGTGCGTGCAACGGGTAACTAAGGGGAA 106627 29 100.0 32 ............................. CATTGGGTAATTATATTCGCAATTTAAGCGAT 106566 29 100.0 32 ............................. ATATTTTAAACCAGACTGACGCGATGATCGTT 106505 29 100.0 32 ............................. CCATCAAAGCTGCTGCGCTGGTGGCATAACCC 106444 29 100.0 32 ............................. ACTACGCGGCATGGCTGAACCCCGGATTCAAG 106383 29 100.0 32 ............................. CCCCAGGCGGTGCCTACGTCGGATGAAGAGCC 106322 29 100.0 32 ............................. CCGTGGAAAGAACCAGAGCGTTGGTTATTGGT 106261 29 100.0 32 ............................. CTCCCAAACCTCTACAGCGCTACCAACAGGAA 106200 29 100.0 33 ............................. GATCGCCCACCGGCATAAACGCGATAGCCGCGT 106138 29 100.0 32 ............................. CTGTTCCCGATCGCTTTATATCGGGGGCCATC 106077 29 100.0 32 ............................. TACCAGACGGACAGCTACGATACCGCTGACGA 106016 29 100.0 32 ............................. GCAGTACTGGCTCTAAATTTAAAACTGGTCAG 105955 29 100.0 32 ............................. TGGCCCACGTGCGCGGAGACGGCAACCGGTTC 105894 29 100.0 32 ............................. TCTCGACGCCAGATTTAATATTAATTCCCGCA 105833 29 100.0 32 ............................. CAGACGTAGAGATTGAGAACACAAATGACTCA 105772 29 100.0 32 ............................. GATTGCTCAGATTGGGAATTTGACCAGCGACC 105711 29 96.6 32 ........................G.... ACTATTTTTCAGGTGAATTACAGCGCCGCAAC 105650 29 100.0 33 ............................. GCGAAAAATTGACGCTATCAGGGAGAGCGCCGG 105588 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 105527 29 100.0 32 ............................. GCCGTGAACGCGTCGCCCGCTTTTTTGTAGCA 105466 29 96.6 0 ............T................ | A [105439] ========== ====== ====== ====== ============================= ================================= ================== 49 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCCCTGGGGGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTAGTCACGGAAAACGTACCGCCGCGCCTGCGGGGTCGCCTTGCCGTCTGGTTACTGGAGATTCGTGCCGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATTTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTTTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 [50.0-70.0]%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 126030-124657 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAIXBQ010000009.1 Salmonella enterica strain L3-29 contig00009, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 126029 29 100.0 32 ............................. ATTAAATTTTCGGGAACGGCGACGGAATCCGG 125968 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 125907 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 125846 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 125785 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 125724 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 125662 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 125601 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 125540 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 125479 29 100.0 32 ............................. AACCCGGCAGCAGGGGTAATTCATACAGCATA 125418 29 100.0 32 ............................. ATTTGGTGAAGGGCGCATTTGAGGACCCGTTA 125357 29 96.6 32 ............T................ CTTGCAGCCGAATACGGTATAGAGTGGGACGG 125296 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 125234 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 125173 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 125112 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 125050 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 124989 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 124928 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 124867 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 124806 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 124745 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 124684 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 23 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCATGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCACTGCCGATTGGC # 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 [6-0] 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], //