Array 1 216319-213848 **** Predicted by CRISPRDetect 2.4 *** >NZ_QUUH01000002.1 Salmonella enterica strain CFSAN071954 CFSAN071954_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 216318 29 100.0 32 ............................. GCAATTTCCGATATGCGACTTGGGACACCAAT 216257 29 100.0 32 ............................. ACACCGACTCATCCGTTGTTACTCCTGGTATT 216196 29 100.0 32 ............................. CGCTACGCCCTGCCCGGTCTCGGTCTCGGTCT 216135 29 100.0 32 ............................. CACATCGGGAGCCTCAATCAACCCGGCACGGA 216074 29 100.0 32 ............................. AGTTCGATATCCCTTAACGGTACTGCCGTCCT 216013 29 100.0 32 ............................. CCTCACGCAATTGAGCCTCTTTCTCGACACGC 215952 29 100.0 32 ............................. GGCCAGTTCAACAAACACCACGACGCGGGAAT 215891 29 100.0 32 ............................. TTCATCACCGTCAGCAAGCTGCGATCCGAAAT 215830 29 100.0 32 ............................. CCAGCTTGCCGATATCAACGACCTATACCTGT 215769 29 100.0 32 ............................. GTTAAAATTTGGGAGGATCGCCCGGGACTCCC 215708 29 100.0 32 ............................. GGACCATTGAAACGGCGCTGACATCAGATGTT 215647 29 100.0 32 ............................. TACCGAACGGCTCAAAGTATGTTCCAATTGAC 215586 29 100.0 32 ............................. GTTGAAACCAGCATTCCTTATGCTGTGCTGCC 215525 29 100.0 32 ............................. GAGATTTTTCTTGTCCCGCCACACCAGCGGCT 215464 29 100.0 32 ............................. TGCATCATCTGATTCGTACGATACGGCAGGGT 215403 29 100.0 32 ............................. GGCTGACAAACGAGCAGGTTGAATTTGTCCTG 215342 29 100.0 32 ............................. CATGGTCTGTACCGCCTGCATTTCTGCATTGT 215281 29 100.0 32 ............................. GGCCGCACCGCTGGCGATCACGATTAATCAGC 215220 29 100.0 32 ............................. CGCCTCGCAAAACTGGTCGGGGTTTTTCCCCA 215159 29 100.0 32 ............................. TTCGTGTTCTAACAGCAGATCGCTGATACGGC 215098 29 100.0 32 ............................. CCAGTAATGAAACGCTGGCAACATTGACGAGC 215037 29 100.0 32 ............................. CGCAGACGGCGCAATTGGATTCGGTGATCGGG 214976 29 100.0 32 ............................. TGCTCGAGCCGACATTGATCCCGCAAAAATAC 214915 29 100.0 32 ............................. GGATGCCGATAGCGGTCAGTAATGAAAATGGC 214854 29 100.0 32 ............................. AAGATCCTGTCTCTTTTGTGCGGAGCGCCGAC 214793 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 214732 29 100.0 33 ............................. GACAATTAGTTCCGACAGACGCCGGTATTAAAT 214670 29 96.6 32 ............T................ CCCACGCGCGGCCGCACTGGCCTCGCGGATAA 214609 29 100.0 32 ............................. TCCGGGCCGCCGCTACCACCACTCAGCGGCGT 214548 29 100.0 32 ............................. CCTAATGGTGATGGGGCGTTTAATCTTATCTC 214487 29 100.0 32 ............................. TGGTTTAATAGTATCGGGCAGCATTTTACCGA 214426 29 100.0 32 ............................. ATCTCAATTAGTCCGTTTCCGGTTGAATCAAT 214365 29 96.6 32 ...C......................... GGGTGTACCACGGCATGATGACGGCCAGCCAT 214304 29 100.0 32 ............................. ATTGACAACAGTCTGCTTACCCGAGCTGCTCC 214243 29 100.0 32 ............................. TCCTGTCGGCGGTACGGTGGACATCCCGCAGG 214182 29 96.6 32 .........A................... CCAGTCAGCCACTGTTCTTTGCCGTACCTTTC 214121 29 100.0 32 ............................. GGGTTATAACCGGGATACCATCCGCTCCAACC 214060 29 100.0 32 ............................. CGCCACGTTTTTTGCATTTTATTGGCATCATC 213999 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 213938 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 213877 29 100.0 0 ............................. | A [213850] ========== ====== ====== ====== ============================= ================================= ================== 41 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TTTCCCCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [48.3-70.0]%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 237124-232864 **** Predicted by CRISPRDetect 2.4 *** >NZ_QUUH01000002.1 Salmonella enterica strain CFSAN071954 CFSAN071954_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 237123 29 100.0 32 ............................. CCGATATCAAAAAAGCGTTTAAACGCCTTGCC 237062 29 96.6 32 ............................T TCCTGCGCTTTGGCCAGTTTGGAACCCGCCGC 237001 29 100.0 32 ............................. GCACAATTTGTGCTTTTGCAATTCACTTTGAA 236940 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 236879 29 100.0 32 ............................. TAACGCCGTTCTGCATACGCTCTACCGCGCGC 236818 29 100.0 32 ............................. GGGAATGTATGGATTTAGAAGAAGAGCTGGCA 236757 29 100.0 32 ............................. GGGTATTACGGCGACACAGCGCTTGTTGTCTA 236696 29 100.0 32 ............................. TTAACAAATGTTTTTAAAACGCTTATAACAAA 236635 29 100.0 32 ............................. GGGGCGGCAATGGTGGTCAGGGTGATGGCGGC 236574 29 100.0 32 ............................. TTTAAAAATTTATCTCGATAAATCCAACGATG 236513 29 100.0 32 ............................. AATGATCGTATTTTTCGCTACGTCGCACAAAT 236452 29 100.0 32 ............................. CCCGTTATTTGTAGTTAACGGGCACGTAGTGG 236391 29 100.0 32 ............................. ATCGGGCAGCTCAACGCGGCTATGAAAATCAC 236330 29 100.0 32 ............................. TTGATCGCCGTGGCGGTGAGATTAGAAACGCG 236269 29 100.0 32 ............................. CTGCCAAACTTCTGACAATCCCGGACAGCATC 236208 29 100.0 32 ............................. CGAGTCTGGAAATTGAGGACACCGAAACCGGC 236147 29 100.0 32 ............................. TGCTGGTGGGCGGTACGCCGTGCCAGGCGTTC 236086 29 96.6 32 ............................T TATCCTTACCCTCAACGGCGCAGGCCGATCTC 236025 29 100.0 32 ............................. CGATCTGGTGAGCGCATCGGTTCGGGAGAGTG 235964 29 100.0 74 ............................. GATTGTTCAGATTGGGAATTTGACCAACGCCCGTGTTCCCCGCGCCAGTAATTTGACGTATCCGTGAACCAGTT 235861 29 100.0 32 ............................. GGGAATATCGTTAAAGTGGTTTACCACAATAT 235800 29 100.0 32 ............................. GCGCTCAGGGCCGCCTTGCTGCGGGCACTCAT 235739 29 100.0 32 ............................. GACGTGATCAAACAATTTGGCCGCCCGGAACA 235678 29 100.0 32 ............................. CGATCAAGCGAATGCGTCGGCTGGAGCATCGC 235617 29 100.0 32 ............................. GTTTTCGCGGCCGCGAGATTGTTCTTGCCGAC 235556 29 100.0 32 ............................. TACCGTTTTTACTCCCCCGCATTTGGTTACAC 235495 29 100.0 32 ............................. CAGGAGCAAGCACAAACATAGAGCAAATTAAA 235434 29 100.0 32 ............................. CCAGTGCATTCGAACTCATGGAACGGTGCTAA 235373 29 100.0 32 ............................. GCGCACCGCTTTAGAGTGCCAGGCATAGGCAA 235312 29 100.0 32 ............................. ACACAATACGTATCAGTAAAGACACAAATTGT 235251 29 100.0 32 ............................. CGCATTACCGGGAAAACCTGGGAAGAGACGAT 235190 29 100.0 32 ............................. TCTTGTTTGTTTCTGATTCTTTTTCTGAATGA 235129 29 100.0 32 ............................. AGTCAGAAGAGGACTCATTAGTATCACTCTCA 235068 29 100.0 32 ............................. AATAAACAGCGTCGTAAATGGATCGAGGAAAT 235007 29 100.0 32 ............................. CATCTCTCTATATGCAGCGCCAGCCAGCGCAA 234946 29 100.0 32 ............................. CTTTCCTTGCGTCAATTTTGAGGGAGATTGAT 234885 29 100.0 32 ............................. ATCCCGCGCTCTATTAAAATCTTTGATTGCGT 234824 29 100.0 32 ............................. GTAATGTGCGCCGCGCCGGTGATATCTACTTT 234763 29 96.6 32 .....T....................... CCATTGCTGACAGGCAGTGATTTCAATGTGTC 234702 29 100.0 32 ............................. CGATCTGGTGAGCGCATCGGTTCGGGAGAGTG 234641 29 100.0 74 ............................. GATTGTTCAGATTGGGAATTTGACCAACGCCCGTGTTCCCCGCGCCAGTAATTTGACGTATCCGTGAACCAGTT 234538 29 100.0 32 ............................. GGGAATATCGTTAAAGTGGTTTACCACAATAT 234477 29 100.0 32 ............................. GCGCTCAGGGCCGCCTTGCTGCGGGCACTCAT 234416 29 100.0 32 ............................. GACGTGATCAAACAATTTGGCCGCCCGGAACA 234355 29 100.0 32 ............................. CGATCAAGCGAATGCGTCGGCTGGAGCATCGC 234294 29 100.0 32 ............................. GTTTTCGCGGCCGCGAGATTGTTCTTGCCGAC 234233 29 100.0 32 ............................. TACCGTTTTTACTCCCCCGCATTTGGTTACAC 234172 29 100.0 32 ............................. CAGGAGCAAGCACAAACATAGAGCAAATTAAA 234111 29 100.0 32 ............................. CCAGTGCATTCGAACTCATGGAACGGTGCTAA 234050 29 100.0 32 ............................. GCGCACCGCTTTAGAGTGCCAGGCATAGGCAA 233989 29 100.0 32 ............................. ACACAATACGTATCAGTAAAGACACAAATTGT 233928 29 100.0 32 ............................. CGCATTACCGGGAAAACCTGGGAAGAGACGAT 233867 29 100.0 32 ............................. TCTTGTTTGTTTCTGATTCTTTTTCTGAATGA 233806 29 100.0 32 ............................. AGTCAGAAGAGGACTCATTAGTATCACTCTCA 233745 29 100.0 32 ............................. AATAAACAGCGTCGTAAATGGATCGAGGAAAT 233684 29 100.0 32 ............................. CATCTCTCTATATGCAGCGCCAGCCAGCGCAA 233623 29 100.0 32 ............................. CTTTCCTTGCGTCAATTTTGAGGGAGATTGAT 233562 29 100.0 32 ............................. ATCCCGCGCTCTATTAAAATCTTTGATTGCGT 233501 29 100.0 32 ............................. GTAATGTGCGCCGCGCCGGTGATATCTACTTT 233440 29 96.6 32 .....T....................... CCATTGCTGACAGGCAGTGATTTCAATGTGTC 233379 29 100.0 32 ............................. GTCATGAATGGCCTCATAAAAACGATGTTGGT 233318 29 100.0 32 ............................. TGTTCGCGCTAAATAATGCAGTAGGCCGCGCT 233257 29 100.0 32 ............................. CCAGAAATTTAAATGGCTATTCCTGGCTGTAG 233196 29 100.0 32 ............................. GCGCAATTGCAGTTTGACGCGGTGCTGTCATT 233135 29 100.0 32 ............................. TCGTTTGTGGCGTCAGTAATACTATTATCGGT 233074 29 96.6 32 .............T............... TTTTTAAATCCGGACAGACCCTGTAACGGATC 233013 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 232952 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 232891 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ========================================================================== ================== 69 29 99.5 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.07, 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 [8-2] 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], //