Array 1 997537-998724 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP034717.1 Salmonella enterica subsp. salamae serovar 42:r:- strain RSE09 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 997537 29 100.0 32 ............................. ATTTGTGATATGGGGTTAGAGCTGGATGCGAA 997598 29 100.0 32 ............................. ATGCCGTATGGCCCCCAGTTGTCACTGGCGGC 997659 29 100.0 32 ............................. GCTGTGCTGGGCCAGACGATGACAACCGACGA 997720 29 100.0 32 ............................. CGAGGGGCATGTGATGCTGCGCGGAAAGTTCG 997781 29 100.0 32 ............................. TAATTAGTTCGTTCCCATTTCCACGAGTCTTT 997842 29 100.0 32 ............................. TTTACCATCTACTGAAGACCAACTATCACGAC 997903 29 100.0 32 ............................. GGAGTTGGCGAGTTTTATTTCACTGATTTGCA 997964 29 100.0 32 ............................. GCATCCCACGCATTCCTAAAACAGAATTATTT 998025 29 100.0 32 ............................. CCGTAATGCTTTTTATGTCCTCGCTTCGCTGC 998086 29 100.0 32 ............................. CCGCTTGCCGTCAGGCTTGCGCACCTGCACAC 998147 29 100.0 32 ............................. TATGCTAGGTGGGATTAACGATAGGCGAGAAA 998208 29 100.0 32 ............................. TAACCCATCGTTTTTTTTCCGCGCTGGAAAGT 998269 29 100.0 32 ............................. CCGTCAGAAAATCTACCCGCTGATCCACCGTC 998330 29 100.0 32 ............................. GGCTCCGTAGCAGATCTGCAGGCGTTCGGCAC 998391 29 100.0 33 ............................. GACGGCAAAGCCTGGAAACAGTTCAAGCGATTC 998453 29 100.0 32 ............................. CACACAGAACGCCAGTTATAATCATCGGTGCT 998514 29 100.0 32 ............................. AACGTGCTATGGGGTGTTTTGGGAACGTTTTA 998575 29 100.0 32 ............................. TTAAGTCCCCGGCATTCGGCTATGCCTATTCA 998636 29 96.6 32 ............................C TGTATGTCGTTAATATGGGGATCGCTGAGGTC 998697 28 86.2 0 ....C........C.........-.G... | ========== ====== ====== ====== ============================= ================================= ================== 20 29 99.1 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : GAAATTAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGTCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGCATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTATCAATCTTACGGACGGCCTGTCGTTGCCGTCTGTGACTCATCTATTACCTTGCATTGTCTATTTTCTCTATACGAATTTCGATGAGTGTATAAAAGCACTGATAAATTTTCCCATAGCGAGGCATGGATCACGCTATTTTGGTAAATTAAAAGAAAAAATTATTCTATGAACTTTTTTGCATCAAAATCAGTAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTACGTTGGTAGAATGTAGTGCTGATAAAAAGTAGTTTATAAACAATGACATACATTTAGA # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATAGCCGGTACAAACCTGTAAAGTAAAAAGGCCGCATTTTCCCAGGGAGGCTTTTATACAGGAGAAAGCCATGGCGTTAACGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGACAAATCATTAAGGGCCAAACCAGGATTAAGCCTGTTGGTCCAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTCTGCAAAACGCGTTGGCGATGGGGATCGACTTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCAGATATTGCGCGCGAACGCTATGCGGCAATGGCTTTTCTCGGTATTACCCGAAGAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGGTGTACACGCGTGACCCTCTGCCGATTGG # 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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 GTGTTCCCCGCGCTAGCGGGGATAAACCG 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 [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 1016028-1018130 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP034717.1 Salmonella enterica subsp. salamae serovar 42:r:- strain RSE09 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1016028 29 100.0 32 ............................. CCTTTCAGGAGCAACAACTGAACGCGCGAGTG 1016089 29 100.0 32 ............................. GACGTTTGCGCACCGATCACTTTCTACCTGTT 1016150 29 100.0 32 ............................. GGGCGCTACGTCCGGGTGTGATGGCCGTCATT 1016211 29 100.0 32 ............................. TGTTGCCAGTGAAATAAATGGTCTGGTTTCAC 1016272 29 100.0 32 ............................. CGCCAGCCGGATTGCATCCATACCCAGCTTGC 1016333 29 100.0 32 ............................. CGCCGCGATTGATAGCGCGGGCAACCGCATGA 1016394 29 100.0 32 ............................. TATTTCACGGAATCAACACTGCTGGCCGCGAT 1016455 29 100.0 32 ............................. GTTGGTCTAATGTCAAAATGTCCAAAAGGAAT 1016516 29 100.0 32 ............................. TCGCAGGGCCGCTTACCCTCCCCCCGCCAAAA 1016577 29 100.0 32 ............................. CCCGCTCAATGTGGGATGAGGCTATAGATGCT 1016638 29 100.0 32 ............................. CTCTGCCCGGAGACACATTTCATCTCAAAACG 1016699 29 100.0 32 ............................. CGTTTGCATCAATCCGGACAATTCCCGCTATA 1016760 29 100.0 32 ............................. GGGCACCGGGCGACTTGGAATTCGCGTCTATC 1016821 29 100.0 32 ............................. CTATCATCGCTGAACGATGCTAATGGGTAACG 1016882 29 100.0 32 ............................. TGTCCTGTACCTGTAGGTGTGTGCCCTCCCGC 1016943 29 100.0 32 ............................. CGGTTTCGTCGATTTCTTTCGCTTTTTCGTTA 1017004 29 100.0 32 ............................. CGACGCGGGATTTTGTCGGATATTGAAAACAG 1017065 29 100.0 32 ............................. TTCTATGGATAACGCCGTAAGCCAGATGGAAG 1017126 29 100.0 32 ............................. CACGTCTACTGGCGCGATCTGCATCCTGTGAT 1017187 29 100.0 32 ............................. GCGATATCGTCGTCATTATCGTCGCCGTCGTC 1017248 29 100.0 32 ............................. AAAACCCGTCACCTCAATTGTCGGGTTCGACT 1017309 29 100.0 32 ............................. GCGTCTTATACGCGTTTATAGGTCTGGTACAG 1017370 29 100.0 32 ............................. AATTAAATCGCCAACGGTCTGGCGCCACGGCG 1017431 29 100.0 32 ............................. GGCTTCAATACGGGCCAATAATTCGGATTTAG 1017492 29 100.0 32 ............................. TATTCCCCCTCGTCACCAATAACGCCACTAAA 1017553 29 100.0 32 ............................. CCCCGTTCTGTTATCCGCGCCCGCTGGGCAGT 1017614 29 100.0 32 ............................. ATTTGCACGCCCGCGATAATGCCCCAGAGGCG 1017675 29 100.0 32 ............................. TGGAATTGCGGGTCAATAACAAGACTTATGCG 1017736 29 96.6 32 ............T................ GCTCGTCGAGGTGATATCAAGGCGGCGTTTCG 1017797 29 96.6 32 ............T................ AGCGCGAGAACTGGAAGGAGTTGCAGGAGTGG 1017858 29 96.6 32 ............T................ AAAAACTGTTCATGGAAAGCAGAAGATACATT 1017919 29 96.6 32 ............T................ GGGATGGCGAATTTTGATAGCGAACAGGCTAT 1017980 29 96.6 32 ............T................ TCAGAGCGCTTTCTGTCGCGATTACGCGAGAA 1018041 29 100.0 32 ............................. TGGAATTGCGGGTCAATAACAAGACTTATGCG 1018102 29 89.7 0 ............T..............GC | ========== ====== ====== ====== ============================= ================================ ================== 35 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAGGATGTGCTCGCGGCAGGTGAAATTCAACCGCCGTTACCTCCAGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTTCTTTGGGGGACTCCGGTCATCGGAGTAACTGACGATGAGTATGCTGGTGGTGGTTACCGAAAATGTTCCTCCGCGCCTGCGAGGAAGGCTGGCCGTCTGGCTACTGGAAATTCGGGCTGGTGTGTATGTTGGTGATGTTTCAGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGAAAACCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTGCCTGTTGCAAATCAATAAGTTAGAGATCTTTAAAAATAAGGAAAAGTTGGTGGATTTTTTGTATGCTAAAAACGGCTTTAAATTCAATTGGGTAGATTTAGA # Right flank : CTTTTCACCAGCAGATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGTTCAATCCGTCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGACATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGACGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAATGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCTGCGTCGCTCATTC # 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: 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 [70.0-48.3]%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 3 2178511-2180369 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP034717.1 Salmonella enterica subsp. salamae serovar 42:r:- strain RSE09 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2178511 29 96.6 32 ...........................G. GCGCTGGAGCTTGAATCAGAGTTGTTGCGTGC 2178572 29 96.6 32 ...........................G. CACCGGAAACTTATACCGGCCTGTTCGATGCC 2178633 29 100.0 32 ............................. CAATACCGCCTTCCTCTGTGCTCAGGCGGTGC 2178694 29 100.0 32 ............................. CCGGATTCTGCAACGACTGCGGCGATGAAATT 2178755 29 100.0 32 ............................. AACACAGCGCGGCGTTTACAGTTGCCAAAATG 2178816 29 100.0 32 ............................. CATCCACGATTAATCGCGATATTTACCGGTTA 2178877 29 100.0 32 ............................. CAATAAATACGCGTTAGCCGTTCCCGGTCCGC 2178938 29 100.0 32 ............................. ATGGTGCCCGGTTTGAGCCGTTAATTGGTGAT 2178999 29 100.0 32 ............................. ACACTGCTGACGCGGACATATCGCGATTGCTG 2179060 29 100.0 32 ............................. GTTGACGAGGTTAATAAATCCTGATGACATCA 2179121 29 100.0 32 ............................. GGAAACGCCGTAAATTGTGGTACGTCGTCACT 2179182 29 100.0 32 ............................. TATCCTGCGCGACGCCGGACTTTCCAGAAACC 2179243 29 100.0 32 ............................. GGTAGAACGTTCTCGGTCATGATGACTGAGGC 2179304 29 100.0 32 ............................. CTGTGGTCTGCGCTGCTTGGCTGGCAACCGGC 2179365 29 100.0 32 ............................. CGGCTTGACCACATCAAACCGTTTATCGCCCT 2179426 29 100.0 32 ............................. GAATAGCGCCTTTTCCAGTAGTGATGATCTTA 2179487 29 100.0 32 ............................. GTTCGCGGTTCTGTATCGCCTGAAACATTCGC 2179548 29 100.0 32 ............................. CGCATGTTAGCCGAGTTGCTGAATTAGGGTGT 2179609 29 100.0 32 ............................. GCGATAGAAAAAACAAAATAGGAGAAATGTTT 2179670 29 100.0 32 ............................. GTGTCAGGGGTGCGATCCTGCCGTGTTGAGGG 2179731 29 100.0 32 ............................. TTTCCGCGATGCGCCATGAAGGCGATCCCGTC 2179792 29 100.0 32 ............................. CAATTGACGAGCCTTCCATATAGGACGCCCGC 2179853 29 100.0 32 ............................. GCCAACTTTTCAGCCTGGGTTATCGATGCTTG 2179914 29 100.0 32 ............................. TCGATCCTGACAGCCTGATGGCCCGCCGCGAA 2179975 29 96.6 32 ............................A AGACGGACATCCAGTGGACGCTAACAGCAATC 2180036 29 100.0 32 ............................. CGACCGGTGAAAATTCAACAGCGACAGGAACG 2180097 29 100.0 32 ............................. CGGGGGAGGTGAGCTTGATAACATCCGTTCGT 2180158 29 100.0 32 ............................. CTGGTGGATTATGGCTGTATTGTTTGCCGTAA 2180219 29 100.0 32 ............................. GCGAGCGACGCACTGAAAACGACAAAACAGGC 2180280 29 100.0 32 ............................. CATCAGAAATCCCCGCCCGGTGCGCTGCTGCC 2180341 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 31 29 99.7 32 GTGTTCCCCGCGAGAGCGGGGATAAACCG # Left flank : TGCTGTTCCCGTTCTCGCGTCTGGTGCATATCTGGAGCGTGCCGGTTGAGTATCTGACCCGTAAATATCAGCTTGTTCGCGCACGTCACTGATTGTGTGCTGATTATCTCAAGCCGCCGTGGGGCTGAGGCGTATTCAGCACTATAGCGGGAAAATAGCGCGGGCATGGAGATTGACTTCATGCCCGTTTTTTTGCATTTCCTATCGGGTTCATCCCGTACCTCACGACCTGCCGCAGACGCTCCCTTGAGCTCTTCGCCGACGATATGCGCAAAATCTTACTCCCCCTTGATGTAATGATGTATTAATCCCCGAATTTTCCGCCATACGACACTCGGCATAGTATGTTGGTAGATTTTAAGAGAGAATCATGGGCGTGGTTTTTTATTATATGAAATCAGTTGGTTATATGCTCTTTAATAATGCGGTATTGTTATTTATGTGTTGGTAAGATGTTGCTGTGTGAAAATGTTGTTTATAAACATAGGGATGGCACTAGA # Right flank : GGTCACGAGGTGATTCACTTGGTACTGGCTGATGTGTTCCCCGCGCGAGCGCTGAGTTTGTGGGGTTAGTTCACTCCGGCAGGTTTTTTATGGCTGTTTGCCGGATGGCGGCGTAAATGCCTTATCCGGCACCGATCTTATCTCGGCGTTGCCTATTTTTATAGTGAAGGCATGCCTCAGGATTATCGTCAGCTTCTCATCCTTCCCCGTACGGAGAGATATGAGGCAGTGTGCTTAACGGGGATAATATACGCGACGGAAGTGATGGTGGTGGGGGAAGGATTATTCGTCGCTCCGCTCCTCACCCTTCGGGTCGTTGCCTGCGGCAACGCTTTCTCGCTGCGCTCGAATCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGTACGGAGAGATATGAGGCAGTGTGCTTAACGGGGATAATATACGCGACGGAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTC # 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 : GTGTTCCCCGCGAGAGCGGGGATAAACCG # 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 [6,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGAGAGCGGGGATAAACCG 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: NA [0-1] Score: 0/0.41 # AT richness analysis in flanks prediction: F [63.3-43.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //