Array 1 399-3 **** Predicted by CRISPRDetect 2.4 *** >NZ_AYEG01000061.1 Salmonella enterica subsp. enterica serovar Newport str. VA_R100512572 SEEN2572_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 398 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 337 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 276 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 215 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 154 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 93 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 32 29 100.0 0 ............................. | C [23] ========== ====== ====== ====== ============================= ================================ ================== 7 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GAG # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [1.7-73.3]%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 61553-59998 **** Predicted by CRISPRDetect 2.4 *** >NZ_AYEG01000023.1 Salmonella enterica subsp. enterica serovar Newport str. VA_R100512572 SEEN2572_15, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 61552 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 61491 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 61430 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 61369 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 61308 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 61247 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 61186 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 61125 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 61064 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 61003 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 60942 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 60881 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 60820 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 60759 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 60698 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 60637 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 60576 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 60515 29 96.6 32 ............................A CCAATAACCGAAATATCCACGGTGGAAATTTC 60454 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 60393 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 60332 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 60271 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 60210 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 60149 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 60088 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 60027 29 100.0 0 ............................. | A [60000] ========== ====== ====== ====== ============================= ================================ ================== 26 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-68.3]%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 78920-78222 **** Predicted by CRISPRDetect 2.4 *** >NZ_AYEG01000023.1 Salmonella enterica subsp. enterica serovar Newport str. VA_R100512572 SEEN2572_15, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 78919 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 78858 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 78797 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 78736 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 78675 29 100.0 32 ............................. GGCGCCCGCGTTTCTCGGCTCGGCGCAATATC 78614 29 100.0 32 ............................. GTAGTGCAACGCCGGTGATTTTACCAGTATCA 78553 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 78492 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 78431 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 78370 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 78309 28 96.6 32 .............-............... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 78249 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 12 29 97.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CAATAGGACAGCCATTCGAGCGCCCAGAGTT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 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 [8-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-25.0]%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], //