Array 1 95329-95055 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHEH01000032.1 Salmonella enterica subsp. enterica serovar Thompson strain CVM N43474 N43474_contig_32, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 95328 29 100.0 32 ............................. CACCCAGCGGGTAAACTGATCAGCAGCAGCAC 95267 29 100.0 32 ............................. AACCCTCAGAAAATAATCCAGACGTTACCGAA 95206 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 95145 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 95084 29 93.1 0 A..............A............. | A [95057] ========== ====== ====== ====== ============================= ================================ ================== 5 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCTCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGAAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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: 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: F [50.0-0.0]%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], // Array 1 228684-229505 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHEH01000005.1 Salmonella enterica subsp. enterica serovar Thompson strain CVM N43474 N43474_contig_5, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 228684 29 100.0 32 ............................. AATACTATCCTGCAATGCGCTACCACGTTACT 228745 29 100.0 32 ............................. TGATAACGCATGGGAGTCCAGATTACAAATTC 228806 29 100.0 32 ............................. TGCTGGATACACGCGTTTCAATGGTCAGAGTT 228867 29 100.0 32 ............................. CAGCTCTCTAACGACTTCCCCGGAGTACGTAA 228928 29 100.0 32 ............................. CTTGTCGGCGTTGCTCACGTGACTATTTCGCA 228989 29 100.0 32 ............................. ACCGTTATCTGCTGGTTGATACTTCCCCGAGC 229050 29 100.0 32 ............................. CCGCAGAACGCCGCATCGCCGAACTGGACAAA 229111 29 100.0 32 ............................. TGCCGGTTTATCTGCTCCAGACCGATCGACTA 229172 29 100.0 32 ............................. TCCGCGGTGATAGTATGCGGGGAACTATAGAC 229233 29 100.0 32 ............................. GGAAACGAAGATGACCTTTATTAGAGATATCC 229294 29 100.0 32 ............................. TGCTGAATCTTTGCGAGTGGGATGATGGCACT 229355 29 96.6 32 .....T....................... CCGCTACGATCTATTCGAATCATAGTGGTGCG 229416 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 229477 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 14 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGAAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : | # 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: F [70.0-0.0]%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], // Array 1 50-199 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHEH01000007.1 Salmonella enterica subsp. enterica serovar Thompson strain CVM N43474 N43474_contig_7, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 50 29 100.0 32 ............................. GGCGTGGTGTATATCGGTCTTGATGCGTTGTC 111 29 100.0 32 ............................. GTCACGAGGTCTGACGCGGATGTGATGAGTTA 172 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 3 29 94.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGGCGCAGAATTTACAGGTGTCACTGTTGTCCGGG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTG # Questionable array : NO Score: 5.07 # Score Detail : 1:0, 2:3, 3:0, 4:0.71, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # 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 [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [35.0-61.7]%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], // Array 2 16370-17743 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHEH01000007.1 Salmonella enterica subsp. enterica serovar Thompson strain CVM N43474 N43474_contig_7, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 16370 29 100.0 32 ............................. AGTTTATTACCCCGCCATTTTTCAGTCGTCGC 16431 29 100.0 32 ............................. CGGTACGACGTAAACTGCGCGCCCGGACTGAT 16492 29 100.0 32 ............................. GAGGCTATCGGGACACAGGCAAACGTCGTGGC 16553 29 100.0 32 ............................. TTTGGTTGATGCGTCAAACCTCGCTAACTTTG 16614 29 100.0 32 ............................. GCGGAATAATAAATGGAGTGCCATTTGTAGCA 16675 29 100.0 32 ............................. GAGCGATGTTGGCATGGCATTGGTTTACTGTA 16736 29 100.0 32 ............................. TAGAGCCGTGTGTTAGCAGATAATCAGTATTA 16797 29 100.0 32 ............................. AAGCCGGACCACATTTTTCTTGCCGAACTCAC 16858 29 100.0 32 ............................. GCTGTTGCCGACGTCGGGCTTAAACACCACTG 16919 29 100.0 32 ............................. GACGCTTCACCTGCATCAAATTCTCCTCCAGT 16980 29 100.0 32 ............................. GCGGGCAACAATTTTAGAGGGGCTGCATTCGC 17041 29 100.0 33 ............................. ACTACATAGATAACCAAAAATCCACTGGCAAGC 17103 29 100.0 33 ............................. CGCACGCGGGTTGCGTAACGGATATACGACAGC 17165 29 100.0 32 ............................. TCGCAGAACAGCTCTGCTTCCTTTGCGGAGAC 17226 29 100.0 32 ............................. TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 17287 29 100.0 32 ............................. GGACAGCACAGTTGATTACAGCAAAATTTACG 17348 29 96.6 32 ............T................ ACACGCCAGCCAACAATATTAATTTTGTCGTC 17409 29 100.0 32 ............................. CCTTGGCGGCAGCCACCTGAGCAACTGTCGGG 17470 29 100.0 32 ............................. CAGCTTCTTAACGAGGAGATTAACAGCGACGT 17531 29 100.0 32 ............................. ACTGTAGTTGCGGGTCAGGTTCCGGAATATCA 17592 29 100.0 33 ............................. GGATAGGGATCGGTAACTTTGCCATCGATCGGC 17654 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 17715 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 23 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAATCTGAATCACTGGGTGATAGTGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GAGCGATGTTGGCATGGCATTGGTTTACTGTAG # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: F [71.7-28.3]%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], //