Array 1 428046-429229 **** Predicted by CRISPRDetect 2.4 *** >NZ_AYEB01000011.1 Salmonella enterica subsp. enterica serovar Newport str. RI_10P068 SEENP068_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 428046 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 428107 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 428168 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 428229 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 428290 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 428351 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 428412 29 100.0 30 ............................. AGATATGAAAACGTAAAATTTACACCGCCA 428471 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 428532 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 428593 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 428654 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 428715 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 428776 29 100.0 32 ............................. GGCGCCCGCGTTTCTCGGCTCGGCGCAATATC 428837 29 100.0 32 ............................. GTAGTGCAACGCCGGTGATTTTACCAGTATCA 428898 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 428959 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 429020 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 429081 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 429142 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 429202 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [1-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 445899-446721 **** Predicted by CRISPRDetect 2.4 *** >NZ_AYEB01000011.1 Salmonella enterica subsp. enterica serovar Newport str. RI_10P068 SEENP068_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 445899 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 445960 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 446021 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 446082 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 446143 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 446204 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 446265 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 446326 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 446387 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 446448 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 446509 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 446570 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 446631 29 100.0 33 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAAA 446693 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 14 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # Right flank : CAGACGAAAATCAGCCCG # 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: 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: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [68.3-13.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0.41 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 24-724 **** Predicted by CRISPRDetect 2.4 *** >NZ_AYEB01000068.1 Salmonella enterica subsp. enterica serovar Newport str. RI_10P068 SEENP068_8, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 24 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 85 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 146 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 207 29 96.6 32 ............................A CCAATAACCGAAATATCCACGGTGGAAATTTC 268 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 329 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 390 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 451 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 512 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 573 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 634 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 695 29 100.0 0 ............................. | A [722] ========== ====== ====== ====== ============================= ================================ ================== 12 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ATCAGCCCGCATATTCCGACACAG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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 [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [18.3-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //