Array 1 90142-89033 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXDG01000019.1 Salmonella enterica subsp. enterica serovar 4,[5],12:r:- strain SAL3269 NODE_19_length_90150_cov_4.4858, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 90141 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 90080 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 90019 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 89958 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 89897 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 89836 29 96.6 32 ......T...................... GTTTGCCGTATCTTCGATCATACCGGAACGGT 89775 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 89714 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 89653 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 89592 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 89489 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 89428 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 89367 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 89306 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 89245 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 89184 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 89123 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 89062 29 96.6 0 A............................ | A [89035] ========== ====== ====== ====== ============================= ========================================================================== ================== 18 29 99.2 35 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GACGCAAC # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:-0.15, 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 [3-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-5.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 5297-4171 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXDG01000035.1 Salmonella enterica subsp. enterica serovar 4,[5],12:r:- strain SAL3269 NODE_35_length_58806_cov_4.03887, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 5296 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 5235 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 5174 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 5113 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 5052 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 4991 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 4930 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 4869 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 4808 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 4747 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 4686 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 4625 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 4564 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 4503 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 4442 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 4381 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 4320 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 4259 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 4198 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTAGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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], // Array 1 12124-12585 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXDG01000065.1 Salmonella enterica subsp. enterica serovar 4,[5],12:r:- strain SAL3269 NODE_65_length_12585_cov_4.01398, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 12124 29 100.0 32 ............................. GGGAAAAATCAATAAAATCAATGATAAGCAGT 12185 29 100.0 32 ............................. GCTGGGTAGTGGAGTAATCATTATGTGTGGTG 12246 29 100.0 32 ............................. CAGTGAGATGCCGCCAATTTGTCAAATAAAAT 12307 29 100.0 38 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGACCGAGA 12374 29 100.0 32 ............................. CCTTTAATCGCCTCTTATCGCCTGGATTGGTT 12435 29 100.0 32 ............................. TTAAATCCATATACGGGCCTTGCGGGTTTGCC 12496 29 100.0 32 ............................. GCGGCTCTGTGTTGGGCGATGGCTCCGGTGGT 12557 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 100.0 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : | # 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: 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [71.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //