Array 1 2916778-2919409 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP028169.1 Salmonella enterica strain CFSAN064034 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2916778 29 100.0 32 ............................. CACATTTCCTCAGTGTGCTTCAGAGGGTGGTA 2916839 29 100.0 32 ............................. CCGATATCAAAAAAGCGTTTAAACGCCTTGCC 2916900 29 96.6 32 ............................T TCCTGCGCTTTGGCCAGTTTGGAACCCGCCGC 2916961 29 100.0 32 ............................. GCACAATTTGTGCTTTTGCAATTCACTTTGAA 2917022 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 2917083 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 2917144 29 100.0 32 ............................. TAACGCCGTTCTGCATACGCTCTACCGCGCGC 2917205 29 100.0 32 ............................. GGGAATGTATGGATTTAGAAGAAGAGCTGGCA 2917266 29 100.0 32 ............................. GGGTATTACGGCGACACAGCGCTTGTTGTCTA 2917327 29 100.0 32 ............................. TTAACAAATGTTTTTAAAACGCTTATAACAAA 2917388 29 100.0 32 ............................. GGGGCGGCAATGGTGGTCAGGGTGATGGCGGC 2917449 29 100.0 32 ............................. TTTAAAAATTTATCTCGATAAATCCAACGATG 2917510 29 100.0 32 ............................. AATGATCGTATTTTTCGCTACGTCGCACAAAT 2917571 29 100.0 32 ............................. CCCGTTATTTGTAGTTAACGGGCACGTAGTGG 2917632 29 100.0 32 ............................. ATCGGGCAGCTCAACGCGGCTATGAAAATCAC 2917693 29 100.0 32 ............................. TTGATCGCCGTGGCGGTGAGATTAGAAACGCG 2917754 29 100.0 32 ............................. CTGCCAAACTTCTGACAATCCCGGACAGCATC 2917815 29 100.0 32 ............................. CGAGTCTGGAAATTGAGGACACCGAAACCGGC 2917876 29 100.0 32 ............................. TGCTGGTGGGCGGTACGCCGTGCCAGGCGTTC 2917937 29 96.6 32 ............................T TATCCTTACCCTCAACGGCGCAGGCCGATCTC 2917998 29 100.0 32 ............................. CGATCTGGTGAGCGCATCGGTTCGGGAGAGTG 2918059 29 100.0 32 ............................. GATTGTTCAGATTGGGAATTTGACCAACGCCC 2918120 29 69.0 11 ................TAAT..CGT.T.C GTGAACCAGTT TT [2918140] Deletion [2918160] 2918162 29 100.0 32 ............................. GGGAATATCGTTAAAGTGGTTTACCACAATAT 2918223 29 100.0 32 ............................. GCGCTCAGGGCCGCCTTGCTGCGGGCACTCAT 2918284 29 100.0 32 ............................. GACGTGATCAAACAATTTGGCCGCCCGGAACA 2918345 29 100.0 32 ............................. CGCATTACCGGGAAAACCTGGGAAGAGACGAT 2918406 29 100.0 32 ............................. TCTTGTTTGTTTCTGATTCTTTTTCTGAATGA 2918467 29 100.0 32 ............................. AGTCAGAAGAGGACTCATTAGTATCACTCTCA 2918528 29 100.0 32 ............................. AATAAACAGCGTCGTAAATGGATCGAGGAAAT 2918589 29 100.0 32 ............................. CATCTCTCTATATGCAGCGCCAGCCAGCGCAA 2918650 29 100.0 32 ............................. CTTTCCTTGCGTCAATTTTGAGGGAGATTGAT 2918711 29 100.0 32 ............................. ATCCCGCGCTCTATTAAAATCTTTGATTGCGT 2918772 29 100.0 32 ............................. GTAATGTGCGCCGCGCCGGTGATATCTACTTT 2918833 29 96.6 32 .....T....................... CCATTGCTGACAGGCAGTGATTTCAATGTGTC 2918894 29 100.0 32 ............................. GTCATGAATGGCCTCATAAAAACGATGTTGGT 2918955 29 100.0 32 ............................. TGTTCGCGCTAAATAATGCAGTAGGCCGCGCT 2919016 29 100.0 32 ............................. CCAGAAATTTAAATGGCTATTCCTGGCTGTAG 2919077 29 100.0 32 ............................. GCGCAATTGCAGTTTGACGCGGTGCTGTCATT 2919138 29 100.0 32 ............................. TCGTTTGTGGCGTCAGTAATACTATTATCGGT 2919199 29 96.6 32 .............T............... TTTTTAAATCCGGACAGACCCTGTAACGGATC 2919260 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 2919321 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 2919382 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 44 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:-0.03, 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 [1-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%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 2 2935955-2938364 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP028169.1 Salmonella enterica strain CFSAN064034 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2935955 29 100.0 32 ............................. GCAATTTCCGATATGCGACTTGGGACACCAAT 2936016 29 100.0 32 ............................. ACACCGACTCATCCGTTGTTACTCCTGGTATT 2936077 29 100.0 32 ............................. CGCTACGCCCTGCCCGGTCTCGGTCTCGGTCT 2936138 29 100.0 32 ............................. CACATCGGGAGCCTCAATCAACCCGGCACGGA 2936199 29 100.0 32 ............................. AGTTCGATATCCCTTAACGGTACTGCCGTCCT 2936260 29 100.0 32 ............................. CCTCACGCAATTGAGCCTCTTTCTCGACACGC 2936321 29 100.0 32 ............................. GGCCAGTTCAACAAACACCACGACGCGGGAAT 2936382 29 100.0 32 ............................. TTCATCACCGTCAGCAAGCTGCGATCCGAAAT 2936443 29 100.0 32 ............................. CCAGCTTGCCGATATCAACGACCTATACCTGT 2936504 29 100.0 32 ............................. GTTAAAATTTGGGAGGATCGCCCGGGACTCCC 2936565 29 100.0 32 ............................. GGACCATTGAAACGGCGCTGACATCAGATGTT 2936626 29 100.0 32 ............................. TACCGAACGGCTCAAAGTATGTTCCAATTGAC 2936687 29 100.0 32 ............................. GTTGAAACCAGCATTCCTTATGCTGTGCTGCC 2936748 29 100.0 32 ............................. GAGATTTTTCTTGTCCCGCCACACCAGCGGCT 2936809 29 100.0 32 ............................. TGCATCATCTGATTCGTACGATACGGCAGGGT 2936870 29 100.0 32 ............................. GGCTGACAAACGAGCAGGTTGAATTTGTCCTG 2936931 29 100.0 32 ............................. GGCCGCACCGCTGGCGATCACGATTAATCAGC 2936992 29 100.0 32 ............................. CGCCTCGCAAAACTGGTCGGGGTTTTTCCCCA 2937053 29 100.0 32 ............................. TTCGTGTTCTAACAGCAGATCGCTGATACGGC 2937114 29 100.0 32 ............................. CCAGTAATGAAACGCTGGCAACATTGACGAGC 2937175 29 100.0 32 ............................. CGCAGACGGCGCAATTGGATTCGGTGATCGGG 2937236 29 100.0 32 ............................. TGCTCGAGCCGACATTGATCCCGCAAAAATAC 2937297 29 100.0 32 ............................. GGATGCCGATAGCGGTCAGTAATGAAAATGGC 2937358 29 100.0 32 ............................. AAGATCCTGTCTCTTTTGTGCGGAGCGCCGAC 2937419 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 2937480 29 100.0 33 ............................. GACAATTAGTTCCGACAGACGCCGGTATTAAAT 2937542 29 96.6 32 ............T................ CCCACGCGCGGCCGCACTGGCCTCGCGGATAA 2937603 29 100.0 32 ............................. TCCGGGCCGCCGCTACCACCACTCAGCGGCGT 2937664 29 100.0 32 ............................. CCTAATGGTGATGGGGCGTTTAATCTTATCTC 2937725 29 100.0 32 ............................. TGGTTTAATAGTATCGGGCAGCATTTTACCGA 2937786 29 100.0 32 ............................. ATCTCAATTAGTCCGTTTCCGGTTGAATCAAT 2937847 29 96.6 32 ...C......................... GGGTGTACCACGGCATGATGACGGCCAGCCAT 2937908 29 100.0 32 ............................. ATTGACAACAGTCTGCTTACCCGAGCTGCTCC 2937969 29 100.0 32 ............................. TCCTGTCGGCGGTACGGTGGACATCCCGCAGG 2938030 29 96.6 32 .........A................... CCAGTCAGCCACTGTTCTTTGCCGTACCTTTC 2938091 29 100.0 32 ............................. GGGTTATAACCGGGATACCATCCGCTCCAACC 2938152 29 100.0 32 ............................. CGCCACGTTTTTTGCATTTTATTGGCATCATC 2938213 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 2938274 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 2938335 29 100.0 0 ............................. | A [2938362] ========== ====== ====== ====== ============================= ================================= ================== 40 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GTTTCCCCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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 [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-46.7]%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], //