Array 1 1094436-1095501 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP041699.1 Salmonella enterica subsp. enterica serovar Indiana strain FJC33 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1094436 29 100.0 32 ............................. TGTAACCACTGCGATATGGGCGATGACACAAA 1094497 29 100.0 32 ............................. CGGGAAGCGCAGCAGAACGCCCGGTCGCAGCG 1094558 29 100.0 32 ............................. ATCACCGGCACGCGCGATAACGGGTCTGATTA 1094619 29 100.0 32 ............................. CCGAAAATTACCGGGCAGTCACCGTGGGGGCA 1094680 29 100.0 32 ............................. ACGATCCAGATATTTGGCTGGATGCAATCGGT 1094741 29 100.0 32 ............................. CCCCATCGGTAACCTCTCACTATCGGTGTGTC 1094802 29 100.0 32 ............................. GCTTTTATGTCTGGTGGATATAACGCACTGAA 1094863 29 100.0 33 ............................. CAAAAACAGGTAAATTTGTTCGCTTCGTCAAGC 1094925 29 100.0 32 ............................. CGTATCCCGAAATCACGTTCAAGAAAAATCCG 1094986 29 100.0 32 ............................. CCGTTGATCAGAACGGCAACGAACGCACGTAC 1095047 29 100.0 32 ............................. TCAGCGTAGGTTGTTGACGTCCCCACCAGCCC 1095108 29 100.0 32 ............................. CCATTTTTGATCATCTCCTCCAGCCTGCTGAG 1095169 29 96.6 32 .............T............... CACTGGAGATATAGCTGCTGTCGTCATCGGGT 1095230 29 93.1 32 .............T..............A GTCAAATAAATATGAGTGAAGAAGCCAAAGCC 1095291 29 100.0 32 ............................. CCATAAGAGCATCCCCGCCATCCGGAGGGGAA 1095352 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 1095413 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 1095474 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 18 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGTAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCTATTATGTTGGTGGAATGTGGTGCTGATAAAAAATAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCTTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [0-8] 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 [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 1112043-1113109 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP041699.1 Salmonella enterica subsp. enterica serovar Indiana strain FJC33 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1112043 29 100.0 32 ............................. AGCACACATTGTGTGACGGTCGCCGTCTGGTT 1112104 29 100.0 32 ............................. CCGGTTGTCCTTGTAATGGGGGGGGGCATTTG 1112165 29 100.0 32 ............................. GGCGACGGGTTCGTCCGACCGCATCCGGGCCA 1112226 29 100.0 32 ............................. CTTGGAACCATAAAAGATGGGCAAATAGTGCA 1112287 29 100.0 32 ............................. ATTTTATTAGCGACTATCCAGGAATAAATTAC 1112348 29 100.0 32 ............................. GGTGTTACTGATGGTGGGGCGCTGGATGAGGC 1112409 29 100.0 32 ............................. AGCGCGTCAGGAACGTTTCTGGGGTGGCCTGA 1112470 29 100.0 32 ............................. AGTGTCCACACTGCGGCGCTGAAAAATGCAAC 1112531 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 1112592 29 100.0 32 ............................. TTCGGAGTCCGGATCATCATTCAGGATAACGA 1112653 29 100.0 32 ............................. AAATCGCGCGGCGATCGACTCAAGGCGGCGAC 1112714 29 100.0 32 ............................. AAAATCGTGAGTGACTATCGTTCTGTTATTGC 1112775 29 100.0 32 ............................. TCTCTGTGATTACCCCGGAGCATGGCGGTGCG 1112836 29 100.0 32 ............................. TGGCCGGGGAAACAAGGAAAGTCCTGGTTTTT 1112897 29 100.0 32 ............................. TTTGAAATCGCTATTCTTATTGCTGTAGCAGT 1112958 29 100.0 32 ............................. CGTTAACTAAAACGAACAAAACAGGGAAATCA 1113019 29 100.0 32 ............................. AAGACAACTCCTGTCTTTCCATCACTCGAAGC 1113080 29 100.0 0 ............................. | A [1113107] ========== ====== ====== ====== ============================= ================================ ================== 18 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCACAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAAGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GTTTCAACAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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 [70.0-50.0]%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], //