Array 1 212-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNI01000001.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001381 contig00001, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 211 29 100.0 32 ............................. GAATTCGTTATTTTTAAACGAAATCATTATCA 150 29 100.0 32 ............................. AATGCAACTGCAGTATCCTTACGCCCAAAAGC 89 29 100.0 32 ............................. GCAGCTATCGATGAGATGAATAACGCGATTTA 28 28 96.6 0 ............................- | ========== ====== ====== ====== ============================= ================================ ================== 4 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGCACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : C # Questionable array : NO Score: 5.82 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:0.01, 8:0.6, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 18139-16830 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNI01000001.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001381 contig00001, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 18138 29 100.0 32 ............................. CGCTACGAACTCTGGCAGAAGAGAGCGTTTAT 18077 29 100.0 32 ............................. AACGCTACCACCCGGCAGTAAAAGAGCCGACG 18016 29 100.0 32 ............................. CAGAACAGGAGCACGTTAGCCGCGTTGCTGAA 17955 29 100.0 32 ............................. GCATTCTTTCAAACGTTACTTCTGCTCGCGCC 17894 29 100.0 32 ............................. TTGTTGCAGGCGGGAGAACGCAGCGCGTACCC 17833 29 100.0 32 ............................. CCTGCCGTCGCCGTCGCCATATCCGGCGCTGT 17772 29 100.0 32 ............................. CCTGCCGTCGCCGTCGCCATATCCGGCGCTGT 17711 29 100.0 32 ............................. CCTGCCGTCGCCGTCGCCATATCCGGCGCTGT 17650 29 100.0 32 ............................. GGCCACTTATCAGCAAACCGGGCATCCAGAAC 17589 29 100.0 32 ............................. CGAGTCAACAGCGGTAGCCATTGCAGGCATTT 17528 29 100.0 32 ............................. GTTTGCCGTATCTTCGATCATACCGGAACGGT 17467 29 100.0 32 ............................. TATGAGTTTTCAACATCACCAACTAGTCATGT 17406 29 100.0 32 ............................. GCCAAACAGGTTGAGATAGGGCTTCATTATGA 17345 29 100.0 32 ............................. ATGGAACAGGCCCAGGCTGCGCAGCAGCAACA 17284 29 100.0 32 ............................. TCAATAAAATCAATGATAAGCAGTGTCGTTAA 17223 29 100.0 32 ............................. AGAATCGCCAGCGGAAAGAGAAGGGGTTAGCG 17162 29 100.0 32 ............................. CGGGAGCACGGGTGTTGCAGCATTGCAGGAAG 17101 29 100.0 32 ............................. TGCGGCGCGGTAGTTGGCCTACATGATAGCCA 17040 29 100.0 32 ............................. GATGATCGTTTTTTTCGTTACGTCGCGCAAAT 16979 29 100.0 32 ............................. CACCTCAGATGTTTGGGGTGCAATTTGTAATG 16918 29 100.0 32 ............................. AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 16857 28 89.7 0 ............T...........G-... | ========== ====== ====== ====== ============================= ================================ ================== 22 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCACCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAACCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGCG # 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 [3-0] 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 15828-15431 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNI01000046.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001381 contig00046, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 15827 29 100.0 32 ............................. ATCGAATGCTTTTGTGTGTTCTGCTGCCACTT 15766 29 100.0 32 ............................. GGGGCGTCACCATTTTTGAATTTATCAGCCGC 15705 29 100.0 32 ............................. ACCAGGCTACCCGCGCGGTAGTTCGTCGACAG 15644 29 100.0 32 ............................. AGCAATGATTGAAAAGCTGGCGATAAACAAGG 15583 29 100.0 33 ............................. ATAAATCTAATTTATTTGATTAGTAGTGCTAAA 15521 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 15460 29 96.6 0 ............T................ | A [15433] ========== ====== ====== ====== ============================= ================================= ================== 7 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GGGATAAACCGTTTACCTGGTTCGTCTGGTTCAACTATATCG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-40.0]%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 11-1507 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNI01000062.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001381 contig00062, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 11 29 100.0 32 ............................. CCAAAAACATTGAGTGCTTCTTGTACGTTCAT 72 29 100.0 32 ............................. CAGTTTGAAGAGCGCGCCCGACAGGAATATGA 133 29 100.0 32 ............................. TTACAGACCGCTCATTTGTTATAAATATGTTG 194 29 100.0 32 ............................. CCTGGAATGGTTTAACGGTGCAATCCAGGATA 255 29 100.0 32 ............................. CTGGCTAATCTGCGTGTTGATGTTGTCCATGC 316 29 100.0 32 ............................. GTCCCTACAACCGGGACCGCCCGCCCGACCAG 377 29 100.0 32 ............................. CCGAACGCTCAACGGGGAGTGATCGAGAATCT 438 29 100.0 32 ............................. CGATCAGGAAATCAAGGAGAAGCGGGTGCGTA 499 29 100.0 32 ............................. ATGGAGCGCGGTGGTTACATCGGCGTTCCGGA 560 29 100.0 32 ............................. GTCGGGATCTCGACCTTTTCAATTTCTTCTAT 621 29 93.1 32 .....................GA...... TTTGCGACATTTATATTAATGATTATAAATAT AT [643] 684 29 100.0 32 ............................. ACTTGCTTCATTGACATGCCTGCCACTGCTCC 745 29 100.0 32 ............................. GCGCGCCATTGCTGAGGGTAAACCGGCGATTA 806 29 100.0 32 ............................. CCAGCTCAATTTCGCCAACCTTCGCGCTAATG 867 29 100.0 32 ............................. TCCGTCTCCGCCAACGCCTTTAGCCCATCCAG 928 29 100.0 32 ............................. CTCTTTGATCTCTCCGTTTGCCGTTGAGTGGT 989 29 100.0 32 ............................. TTGACCGGACTCGCGGTTATTCAACTAACCGT 1050 29 100.0 33 ............................. TAGAATAATTGTGTTTTTTGCTACCAATGGTTG 1112 29 100.0 32 ............................. AATCTTCAGAGGACTCAGATCCTGATTACGTT 1173 29 100.0 32 ............................. CAGGCATAACTACACCTGTCAGGAGCCAATTA 1234 29 100.0 32 ............................. TGGTTACGTATACGCCAGATTCAGAAAAGGCC 1295 29 100.0 32 ............................. ATTCAAAAATTCAATATGAGGTTGGAAATTTT 1356 29 100.0 32 ............................. GTTGTGTGGGTACAGCCGGCCAGCGTCAGCAG 1417 29 100.0 32 ............................. TACGAATAAACAGATTTTTGCGATATCTCTGC 1478 29 100.0 0 ............................. | G [1500] ========== ====== ====== ====== ============================= ================================= ================== 25 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TTTTAACCGGG # Right flank : ACAAATAGAAAA # 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [10.0-16.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 34-306 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNI01000080.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001381 contig00080, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 34 29 100.0 32 ............................. GAGGGTCGGTGCGCGGTATTAAAACACGCTAT 95 29 100.0 32 ............................. TACACCAAATGGGGGCCAGCAAAGAAAATGCT 156 29 100.0 32 ............................. TCGTTTATAGCTGAGAACAAGCTGGCGCTGAT 217 29 100.0 32 ............................. CGCTGGCGCAACGAGTCGTACCTGTACGCCAG 278 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 5 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACACACCTAGCAATTAATTACGATTTTGTTTG # Right flank : ATTCGACGCTCAGGCCGTTCTC # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.8, 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: NA [5,5] 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 [-14.90,-14.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [36.7-15.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.55,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //