Array 1 108267-106831 **** Predicted by CRISPRDetect 2.4 *** >NZ_NBXN01000012.1 Salmonella enterica strain 2199 contig00012, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 108266 29 100.0 32 ............................. TTACTTGATGTTGCCATAGAAGAATCTGACCC 108205 29 100.0 32 ............................. ACGGGTATTCCAGATTAATTCCGGTCGGTGTT 108144 29 100.0 32 ............................. TCATCCGTGTTGACAATAATACTGGTTATACC 108083 29 100.0 32 ............................. TACCCGCCTTTTATTTCGCTATATCAAAGGGG 108022 29 100.0 32 ............................. GCCGCGATTTGCTGCGCCTCCGGTACGGCAAC 107961 29 100.0 32 ............................. AAAATCACCAGATCCGGGCGCAAGGGCGCCGC 107900 29 100.0 32 ............................. CCCCACAAATCACTGGTCGATTTCGTCGCACG 107839 29 100.0 32 ............................. TTCTTTACAAAGAAGAGGGCTACCCGGTTGCG 107778 29 93.1 33 ..........................A.C GTTGTGACTTTGATAGTGATTGAAAGCACCTGT 107716 29 100.0 32 ............................. TGAGTTGCGCTTCATACGCTCTTTTTGCTCTG 107655 29 100.0 32 ............................. ATGCGTAGTCCAGCAGCTGCGCGGCGGCGTTT 107594 29 100.0 32 ............................. CCCATCCCCAGAATTTACCGATATGCTCCACA 107533 29 100.0 33 ............................. GGCCTAGGTGATCCGTTGGCGTGGAACGTTAGC 107471 29 100.0 32 ............................. CAACTGCGACACATACCTCTCACACCATCACT 107410 29 100.0 32 ............................. AAAAAAGGGAAAAAGGGGGGGCTGTTTCTCCT 107349 29 100.0 32 ............................. CCATCCGAAAAAGCCGCGTTTACGCCGATGTT 107288 29 100.0 32 ............................. GTTTATAAAAAACACTCGCAAACAAGATGATT 107227 29 100.0 32 ............................. CTGGGAACCCACTTCATCGGAGCGGCTTCACC 107166 29 100.0 33 ............................. CCGTATTGAGGCGCTATTCCGTGCTGTGCCGCC 107104 29 100.0 32 ............................. GCTACTTACAGAGAACTACTGGCAAAAGAAAC 107043 29 100.0 32 ............................. AGTAATCAACTCAATGCGCTCACAACGCAATG 106982 29 100.0 32 ............................. TCCACGTCGCCCGCCATCAGGTTCGCCAGCTC 106921 29 89.7 32 ............T....C....G...... AACTGGTACACCCGCCTGACGTTTGTTCAGCT 106860 29 100.0 0 ............................. | A [106833] ========== ====== ====== ====== ============================= ================================= ================== 24 29 99.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCATTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTAGTCACGGAAAACGTACCGCCGCGCCTGCGGGGTCGCCTTGCCGTCTGGTTACTGGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCTATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCGTCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [4-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-70.0]%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 2 125100-124523 **** Predicted by CRISPRDetect 2.4 *** >NZ_NBXN01000012.1 Salmonella enterica strain 2199 contig00012, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 125099 29 100.0 32 ............................. ACATTGATTGATACGTGTATCAATCGCTGGTC 125038 29 100.0 32 ............................. TCGCGGATTTTCTTAAACGCAGCAATAATATT 124977 29 100.0 32 ............................. AGTTCAGTCCAGTTAACGCTGAACGGCGAACC 124916 29 100.0 32 ............................. ATCGTTGTCGTTCGTGTTGCTGAGGGTGCGAA 124855 29 100.0 32 ............................. GGGCCCCCACGATTTAGCCTTTGACAATTATA 124794 29 100.0 32 ............................. GAAAGCTACGACTTACCAGACTGAAGCCATAA 124733 29 100.0 32 ............................. AACATCGTCGCCAGGCGTTTTTGCATGTCGTC 124672 29 100.0 32 ............................. TAACCATCGTGACGTGTGAAGTTGCCGCCCAG 124611 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 124550 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 10 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCCGTAGTCCA # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTAGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-8.3]%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 430350-431047 **** Predicted by CRISPRDetect 2.4 *** >NZ_NBXN01000003.1 Salmonella enterica strain 2199 contig00003, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 430350 29 100.0 32 ............................. CCTGCGTATATCTGGACGGAAACGAACTGGTT 430411 29 100.0 32 ............................. ACACCCCGACTGTAGATGAAATTCCCGTCGTT 430472 29 100.0 32 ............................. CTTACCGCAGAACCGTACATGCGGCTCATTTC 430533 29 100.0 32 ............................. GTAATTCCTCGCCGTAAACGTAACGGAAATAC 430594 29 100.0 32 ............................. ATCAACGATGCCAAACTCGGTGGCGATTGGCA 430655 29 100.0 32 ............................. GCCGCGAAATCGCAGCGCCGCATGACGACTCT 430716 29 100.0 32 ............................. TAATATTCTTATCCAATATTTTATTGCTTGAG 430777 29 100.0 32 ............................. TAGATAGTGAACTTTATGAAGAAGTAATGAAG 430838 29 100.0 32 ............................. GGGATGTCACAATGATAAGGCGTTTTCCGTTA 430899 29 93.1 31 .........................C.G. CGGATAATTCAACAGCGTTGGGCTATAGCAC 430959 29 100.0 32 ............................. GTTGAAATCTTGGCCGCAGCGGAGGAAATGGG 431020 28 96.6 0 .................-........... | ========== ====== ====== ====== ============================= ================================ ================== 12 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : CGCAATTACACTGACAATTCGTCAGCGCAAACGT # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-30.0]%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], //