Array 1 334897-336022 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXJH01000002.1 Salmonella enterica subsp. enterica serovar 4,[5],12:r:- strain BCW_2031 NODE_2_length_340211_cov_2.74826, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 334897 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 334958 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 335019 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 335080 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 335141 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 335202 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 335263 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 335324 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 335385 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 335446 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 335507 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 335568 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 335629 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 335690 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 335751 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 335812 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 335873 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 335934 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 335995 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAAAAAAAAATTGTCGTGTGAGGTAGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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 [0-7] 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 163241-161577 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXJH01000006.1 Salmonella enterica subsp. enterica serovar 4,[5],12:r:- strain BCW_2031 NODE_6_length_175353_cov_2.87432, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 163240 29 100.0 32 ............................. GGGAAAAATCAATAAAATCAATGATAAGCAGT 163179 29 100.0 32 ............................. GCTGGGTAGTGGAGTAATCATTATGTGTGGTG 163118 29 100.0 32 ............................. CAGTGAGATGCCGCCAATTTGTCAAATAAAAT 163057 29 100.0 38 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGACCGAGA 162990 29 100.0 32 ............................. CCTTTAATCGCCTCTTATCGCCTGGATTGGTT 162929 29 100.0 32 ............................. TTAAATCCATATACGGGCCTTGCGGGTTTGCC 162868 29 100.0 32 ............................. GCGGCTCTGTGTTGGGCGATGGCTCCGGTGGT 162807 29 100.0 32 ............................. GCGCGCCAATAATTTTATTGACGATTTCATCA 162746 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 162685 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 162624 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 162563 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 162502 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 162441 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 162380 29 96.6 32 ......T...................... GTTTGCCGTATCTTCGATCATACCGGAACGGT 162319 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 162258 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 162197 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 162136 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 162033 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 161972 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 161911 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 161850 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 161789 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 161728 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 161667 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 161606 29 96.6 0 A............................ | A [161579] ========== ====== ====== ====== ============================= ========================================================================== ================== 27 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.09, 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], //