Array 1 104123-105675 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXLM01000004.1 Salmonella enterica subsp. enterica serovar Stanley strain DMS 1112 NODE_4_length_285505_cov_2.32512, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 104123 29 100.0 32 ............................. TTAGTCGCACCACCGGAACCTACCTGCGCCTC 104184 29 100.0 32 ............................. TTGTCATGCGGCGCTGCGAGCGTGCGGCCTTT 104245 29 100.0 32 ............................. CGTCCAATACGAGCCGAGTGCGCACGCCCTTA 104306 29 100.0 32 ............................. CCTGACTGCCGCCGGTGTAGGTGGCGAATGCA 104367 29 100.0 32 ............................. TGAAACGTGGCCCCGCGTGTGTTTTGGTTCGT 104428 29 100.0 32 ............................. AAAACGGATTCTGGTGGAGTAAATCAAATCAG 104489 29 100.0 32 ............................. CGCCACGGAATATCTCCATCGGTCGGGTGAGG 104550 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 104611 29 100.0 32 ............................. CAGATCGGCCTCTGATTTAGACAATTTCAGTT 104672 29 100.0 32 ............................. CGCCGCGAGGTGATCGAGATGCTTGAGGGTAT 104733 29 100.0 32 ............................. GTATCTCGAAGAGCGTCAAAAAAGCCGGAATG 104794 29 100.0 32 ............................. GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 104855 29 100.0 32 ............................. ATAAATTATCGGGAAATCATAATCAGCGCCGC 104916 29 100.0 32 ............................. TCGAGTTCTGGCATGTCAGACTGACGTATCGC 104977 29 100.0 32 ............................. AAAACCCTCAAATATGCGTAACGGGAGGCTGG 105038 29 100.0 32 ............................. GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 105099 29 100.0 32 ............................. TCAGCGTAGGTTGTTGACGTCCCCACCAGCCC 105160 29 100.0 32 ............................. CCATTTTTGATCATCTCCTCCAGCCTGCTGAG 105221 29 96.6 32 .............T............... TGGGAACCGTCAAGGCCCGAGGGTGACGGCTG 105282 29 96.6 32 .............T............... GATTGTTCAGATTGGGAATTTGACCAACGCCC 105343 29 96.6 32 .............T............... GTTACTGTATTATCTCTCGCATAGACCCGGCA 105404 29 96.6 32 .............T............... AAAAAAATGCGATCGGTACTCAACCCGGCCAC 105465 29 100.0 32 ............................. CGCCGGTTTCGGTGGGGGCTGAATCCTGAACC 105526 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 105587 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 105648 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 26 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGATCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTAGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: 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 [0-5] 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 121799-122316 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXLM01000004.1 Salmonella enterica subsp. enterica serovar Stanley strain DMS 1112 NODE_4_length_285505_cov_2.32512, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 121799 29 100.0 32 ............................. TTGTTTTGTTTATTTAATTAAATCATTATCAG 121860 29 100.0 32 ............................. GTTATTCAGTTTATTAAATTTTTCCGCCAAGT 121921 29 100.0 32 ............................. AGTATTGCAACTACGGCTGACGCGCTGATCGA 121982 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 122043 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 122104 29 100.0 32 ............................. GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 122165 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 122226 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 122287 29 93.1 0 A...........T................ | A [122313] ========== ====== ====== ====== ============================= ================================ ================== 9 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGTTGCGGAAATGCCGTCATGGCTTGGGCGACCAACACGGAGTCGGGATTTGAGTTTCAGACATGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTTGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%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], //