Array 1 1348-38 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCXI02000005.1 Salmonella enterica subsp. enterica serovar Typhimurium strain HIY0066 NODE_5_length_367004_cov_33.971424, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1347 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 1286 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 1225 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 1164 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 1103 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 1042 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 981 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 920 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 859 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 798 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 737 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 676 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 615 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 554 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 493 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 432 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 371 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 310 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 249 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 188 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 127 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 66 29 93.1 0 A............T............... | ========== ====== ====== ====== ============================= ================================ ================== 22 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GGGATATGTGAAGTTCAGGTAGCCCATTACGCAGTGTT # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [33.3-70.0]%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 1 614-35 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCXI02000061.1 Salmonella enterica subsp. enterica serovar Typhimurium strain HIY0066 NODE_61_length_662_cov_35.302804, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 613 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 552 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 491 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 430 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 368 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 307 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 246 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 185 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 124 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 63 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 10 29 97.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGTGTCCAATTAACCCAAACTTTGCGCGCTTAA # Right flank : GCCCCGATAGCGACGCTTCTGTAGTCACTGGCAGT # Questionable array : NO Score: 6.04 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.92, # 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 : GTGTTCCCCGCGCCAGCAGGGATAAATCG # 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: F [2-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [23.3-41.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 190441-189636 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCXI02000007.1 Salmonella enterica subsp. enterica serovar Typhimurium strain HIY0066 NODE_7_length_206966_cov_31.388752, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 190440 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 190379 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 190318 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 190257 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 190196 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 190134 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 190031 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 189970 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 189909 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 189848 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 189787 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 189726 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 189665 29 96.6 0 A............................ | A [189638] ========== ====== ====== ====== ============================= ========================================================================== ================== 13 29 99.5 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.23, 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 2 206967-206573 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCXI02000007.1 Salmonella enterica subsp. enterica serovar Typhimurium strain HIY0066 NODE_7_length_206966_cov_31.388752, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 206966 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 206905 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 206844 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 206783 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 206722 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 206661 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 206600 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 7 29 96.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 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 [5-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-0.0]%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], //