Array 1 65285-63621 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYRH01000028.1 Salmonella enterica strain CVM 43790 43790_contig_28, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 65284 29 100.0 32 ............................. GGGAAAAATCAATAAAATCAATGATAAGCAGT 65223 29 100.0 32 ............................. GCTGGGTAGTGGAGTAATCATTATGTGTGGTG 65162 29 100.0 32 ............................. CAGTGAGATGCCGCCAATTTGTCAAATAAAAT 65101 29 100.0 38 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGACCGAGA 65034 29 100.0 32 ............................. CCTTTAATCGCCTCTTATCGCCTGGATTGGTT 64973 29 100.0 32 ............................. TTAAATCCATATACGGGCCTTGCGGGTTTGCC 64912 29 100.0 32 ............................. GCGGCTCTGTGTTGGGCGATGGCTCCGGTGGT 64851 29 100.0 32 ............................. GCGCGCCAATAATTTTATTGACGATTTCATCA 64790 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 64729 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 64668 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 64607 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 64546 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 64485 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 64424 29 96.6 32 ......T...................... GTTTGCCGTATCTTCGATCATACCGGAACGGT 64363 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 64302 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 64241 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 64180 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 64077 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 64016 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 63955 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 63894 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 63833 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 63772 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 63711 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 63650 29 96.6 0 A............................ | A [63623] ========== ====== ====== ====== ============================= ========================================================================== ================== 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], // Array 1 212719-213844 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYRH01000005.1 Salmonella enterica strain CVM 43790 43790_contig_5, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 212719 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 212780 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 212841 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 212902 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 212963 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 213024 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 213085 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 213146 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 213207 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 213268 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 213329 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 213390 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 213451 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 213512 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 213573 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 213634 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 213695 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 213756 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 213817 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTAGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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], //