Array 1 1002242-1003430 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP034697.1 Salmonella enterica subsp. salamae serovar 42:r:- strain RSE42 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1002242 29 100.0 32 ............................. ATTTGTGATATGGGGTTAGAGCTGGATGCGAA 1002303 29 100.0 32 ............................. ATGCCGTATGGCCCCCAGTTGTCACTGGCGGC 1002364 29 100.0 32 ............................. GCTGTGCTGGGCCAGACGATGACAACCGACGA 1002425 29 100.0 32 ............................. CGAGGGGCATGTGATGCTGCGCGGAAAGTTCG 1002486 29 100.0 33 ............................. TTGTTCCTGCAATGCGGGCCATTACGATTCCTC 1002548 29 100.0 32 ............................. TAATTAGTTCGTTCCCATTTCCACGAGTCTTT 1002609 29 100.0 32 ............................. TTTACCATCTACTGAAGACCAACTATCACGAC 1002670 29 100.0 32 ............................. GGAGTTGGCGAGTTTTATTTCACTGATTTGCA 1002731 29 100.0 32 ............................. GCATCCCACGCATTCCTAAAACAGAATTATTT 1002792 29 100.0 32 ............................. CCGTAATGCTTTTTATGTCCTCGCTTCGCTGC 1002853 29 100.0 32 ............................. TATGCTAGGTGGGATTAACGATAGGCGAGAAA 1002914 29 100.0 32 ............................. TAACCCATCGTTTTTTTTCCGCGCTGGAAAGT 1002975 29 100.0 32 ............................. CCGTCAGAAAATCTACCCGCTGATCCACCGTC 1003036 29 100.0 32 ............................. GGCTCCGTAGCAGATCTGCAGGCGTTCGGCAC 1003097 29 100.0 33 ............................. GACGGCAAAGCCTGGAAACAGTTCAAGCGATTC 1003159 29 100.0 32 ............................. CACACAGAACGCCAGTTATAATCATCGGTGCT 1003220 29 100.0 32 ............................. AACGTGCTATGGGGTGTTTTGGGAACGTTTTA 1003281 29 100.0 32 ............................. TTAAGTCCCCGGCATTCGGCTATGCCTATTCA 1003342 29 96.6 32 ............................C TGTATGTCGTTAATATGGGGATCGCTGAGGTC 1003403 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 1020734-1022409 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP034697.1 Salmonella enterica subsp. salamae serovar 42:r:- strain RSE42 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1020734 29 100.0 32 ............................. CCTTTCAGGAGCAACAACTGAACGCGCGAGTG 1020795 29 100.0 32 ............................. GACGTTTGCGCACCGATCACTTTCTACCTGTT 1020856 29 100.0 32 ............................. GGGCGCTACGTCCGGGTGTGATGGCCGTCATT 1020917 29 100.0 32 ............................. TGTTGCCAGTGAAATAAATGGTCTGGTTTCAC 1020978 29 100.0 32 ............................. CGCCAGCCGGATTGCATCCATACCCAGCTTGC 1021039 29 100.0 32 ............................. CGCCGCGATTGATAGCGCGGGCAACCGCATGA 1021100 29 100.0 32 ............................. TATTTCACGGAATCAACACTGCTGGCCGCGAT 1021161 29 100.0 32 ............................. TGTCCTGTACCTGTAGGTGTGTGCCCTCCCGC 1021222 29 100.0 32 ............................. CGGTTTCGTCGATTTCTTTCGCTTTTTCGTTA 1021283 29 100.0 32 ............................. CGACGCGGGATTTTGTCGGATATTGAAAACAG 1021344 29 100.0 32 ............................. TTCTATGGATAACGCCGTAAGCCAGATGGAAG 1021405 29 100.0 32 ............................. CACGTCTACTGGCGCGATCTGCATCCTGTGAT 1021466 29 100.0 32 ............................. GCGATATCGTCGTCATTATCGTCGCCGTCGTC 1021527 29 100.0 32 ............................. AAAACCCGTCACCTCAATTGTCGGGTTCGACT 1021588 29 100.0 32 ............................. GCGTCTTATACGCGTTTATAGGTCTGGTACAG 1021649 29 100.0 32 ............................. AATTAAATCGCCAACGGTCTGGCGCCACGGCG 1021710 29 100.0 32 ............................. GGCTTCAATACGGGCCAATAATTCGGATTTAG 1021771 29 100.0 32 ............................. TATTCCCCCTCGTCACCAATAACGCCACTAAA 1021832 29 100.0 32 ............................. CCCCGTTCTGTTATCCGCGCCCGCTGGGCAGT 1021893 29 100.0 32 ............................. ATTTGCACGCCCGCGATAATGCCCCAGAGGCG 1021954 29 100.0 32 ............................. TGGAATTGCGGGTCAATAACAAGACTTATGCG 1022015 29 96.6 32 ............T................ GCTCGTCGAGGTGATATCAAGGCGGCGTTTCG 1022076 29 96.6 32 ............T................ AGCGCGAGAACTGGAAGGAGTTGCAGGAGTGG 1022137 29 96.6 32 ............T................ AAAAACTGTTCATGGAAAGCAGAAGATACATT 1022198 29 96.6 32 ............T................ GGGATGGCGAATTTTGATAGCGAACAGGCTAT 1022259 29 96.6 32 ............T................ TCAGAGCGCTTTCTGTCGCGATTACGCGAGAA 1022320 29 100.0 32 ............................. TGGAATTGCGGGTCAATAACAAGACTTATGCG 1022381 29 89.7 0 ............T..............GC | ========== ====== ====== ====== ============================= ================================ ================== 28 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAGGATGTGCTCGCGGCAGGTGAAATTCAACCGCCGTTACCTCCAGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTTCTTTGGGGGACTCCGGTCATCGGAGTAACTGACGATGAGTATGCTGGTGGTGGTTACCGAAAATGTTCCTCCGCGCCTGCGAGGAAGGCTGGCCGTCTGGCTACTGGAAATTCGGGCTGGTGTGTATGTTGGTGATGTTTCAGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGAAAACCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTGCCTGTTGCAAATCAATAAGTTAGAGATCTTTAAAAATAAGGAAAAGTTGGTGGATTTTTTGTATGCTAAAAACGGCTTTAAATTCAATTGGGTAGATTTAGA # Right flank : CTTTTCACCAGCAGATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGTTCAATCCGTCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGACATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGACGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAATGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCTGCGTCGCTCATTC # 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 [70.0-48.3]%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 2179034-2181014 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP034697.1 Salmonella enterica subsp. salamae serovar 42:r:- strain RSE42 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2179034 29 96.6 32 ...........................G. GCGCTGGAGCTTGAATCAGAGTTGTTGCGTGC 2179095 29 96.6 32 ...........................G. CACCGGAAACTTATACCGGCCTGTTCGATGCC 2179156 29 100.0 32 ............................. CAATACCGCCTTCCTCTGTGCTCAGGCGGTGC 2179217 29 100.0 32 ............................. CCGGATTCTGCAACGACTGCGGCGATGAAATT 2179278 29 100.0 32 ............................. AACACAGCGCGGCGTTTACAGTTGCCAAAATG 2179339 29 100.0 32 ............................. CATCCACGATTAATCGCGATATTTACCGGTTA 2179400 29 100.0 32 ............................. CAATAAATACGCGTTAGCCGTTCCCGGTCCGC 2179461 29 100.0 32 ............................. GTGTCCGCCTGCCTTGATTCATGGATGGAAAA 2179522 29 100.0 32 ............................. GTCAATTCACCTGCGGCGCGAGTTTTTATTGT 2179583 29 100.0 32 ............................. ATGGTGCCCGGTTTGAGCCGTTAATTGGTGAT 2179644 29 100.0 32 ............................. ACACTGCTGACGCGGACATATCGCGATTGCTG 2179705 29 100.0 32 ............................. GTTGACGAGGTTAATAAATCCTGATGACATCA 2179766 29 100.0 32 ............................. GGAAACGCCGTAAATTGTGGTACGTCGTCACT 2179827 29 100.0 32 ............................. TATCCTGCGCGACGCCGGACTTTCCAGAAACC 2179888 29 100.0 32 ............................. GGTAGAACGTTCTCGGTCATGATGACTGAGGC 2179949 29 100.0 32 ............................. CTGTGGTCTGCGCTGCTTGGCTGGCAACCGGC 2180010 29 100.0 32 ............................. CGGCTTGACCACATCAAACCGTTTATCGCCCT 2180071 29 100.0 32 ............................. GAATAGCGCCTTTTCCAGTAGTGATGATCTTA 2180132 29 100.0 32 ............................. GTTCGCGGTTCTGTATCGCCTGAAACATTCGC 2180193 29 100.0 32 ............................. CGCATGTTAGCCGAGTTGCTGAATTAGGGTGT 2180254 29 100.0 32 ............................. GCGATAGAAAAAACAAAATAGGAGAAATGTTT 2180315 29 100.0 32 ............................. GTGTCAGGGGTGCGATCCTGCCGTGTTGAGGG 2180376 29 100.0 32 ............................. TTTCCGCGATGCGCCATGAAGGCGATCCCGTC 2180437 29 100.0 32 ............................. CAATTGACGAGCCTTCCATATAGGACGCCCGC 2180498 29 100.0 32 ............................. GCCAACTTTTCAGCCTGGGTTATCGATGCTTG 2180559 29 100.0 32 ............................. TCGATCCTGACAGCCTGATGGCCCGCCGCGAA 2180620 29 96.6 32 ............................A AGACGGACATCCAGTGGACGCTAACAGCAATC 2180681 29 100.0 32 ............................. CGACCGGTGAAAATTCAACAGCGACAGGAACG 2180742 29 100.0 32 ............................. CGGGGGAGGTGAGCTTGATAACATCCGTTCGT 2180803 29 100.0 32 ............................. CTGGTGGATTATGGCTGTATTGTTTGCCGTAA 2180864 29 100.0 32 ............................. GCGAGCGACGCACTGAAAACGACAAAACAGGC 2180925 29 100.0 32 ............................. CATCAGAAATCCCCGCCCGGTGCGCTGCTGCC 2180986 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 33 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], //