Array 1 1164392-1165457 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP061118.1 Salmonella enterica subsp. enterica serovar Indiana strain S530 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1164392 29 100.0 32 ............................. TGTAACCACTGCGATATGGGCGATGACACAAA 1164453 29 100.0 32 ............................. CGGGAAGCGCAGCAGAACGCCCGGTCGCAGCG 1164514 29 100.0 32 ............................. ATCACCGGCACGCGCGATAACGGGTCTGATTA 1164575 29 100.0 32 ............................. CCGAAAATTACCGGGCAGTCACCGTGGGGGCA 1164636 29 100.0 32 ............................. ACGATCCAGATATTTGGCTGGATGCAATCGGT 1164697 29 100.0 32 ............................. CCCCATCGGTAACCTCTCACTATCGGTGTGTC 1164758 29 100.0 32 ............................. GCTTTTATGTCTGGTGGATATAACGCACTGAA 1164819 29 100.0 33 ............................. CAAAAACAGGTAAATTTGTTCGCTTCGTCAAGC 1164881 29 100.0 32 ............................. CGTATCCCGAAATCACGTTCAAGAAAAATCCG 1164942 29 100.0 32 ............................. CCGTTGATCAGAACGGCAACGAACGCACGTAC 1165003 29 100.0 32 ............................. TCAGCGTAGGTTGTTGACGTCCCCACCAGCCC 1165064 29 100.0 32 ............................. CCATTTTTGATCATCTCCTCCAGCCTGCTGAG 1165125 29 96.6 32 .............T............... CACTGGAGATATAGCTGCTGTCGTCATCGGGT 1165186 29 93.1 32 .............T..............A GTCAAATAAATATGAGTGAAGAAGCCAAAGCC 1165247 29 100.0 32 ............................. CCATAAGAGCATCCCCGCCATCCGGAGGGGAA 1165308 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 1165369 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 1165430 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 1181999-1183065 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP061118.1 Salmonella enterica subsp. enterica serovar Indiana strain S530 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1181999 29 100.0 32 ............................. AGCACACATTGTGTGACGGTCGCCGTCTGGTT 1182060 29 100.0 32 ............................. CCGGTTGTCCTTGTAATGGGGGGGGGCATTTG 1182121 29 100.0 32 ............................. GGCGACGGGTTCGTCCGACCGCATCCGGGCCA 1182182 29 100.0 32 ............................. CTTGGAACCATAAAAGATGGGCAAATAGTGCA 1182243 29 100.0 32 ............................. ATTTTATTAGCGACTATCCAGGAATAAATTAC 1182304 29 100.0 32 ............................. GGTGTTACTGATGGTGGGGCGCTGGATGAGGC 1182365 29 100.0 32 ............................. AGCGCGTCAGGAACGTTTCTGGGGTGGCCTGA 1182426 29 100.0 32 ............................. AGTGTCCACACTGCGGCGCTGAAAAATGCAAC 1182487 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 1182548 29 100.0 32 ............................. TTCGGAGTCCGGATCATCATTCAGGATAACGA 1182609 29 100.0 32 ............................. AAATCGCGCGGCGATCGACTCAAGGCGGCGAC 1182670 29 100.0 32 ............................. AAAATCGTGAGTGACTATCGTTCTGTTATTGC 1182731 29 100.0 32 ............................. TCTCTGTGATTACCCCGGAGCATGGCGGTGCG 1182792 29 100.0 32 ............................. TGGCCGGGGAAACAAGGAAAGTCCTGGTTTTT 1182853 29 100.0 32 ............................. TTTGAAATCGCTATTCTTATTGCTGTAGCAGT 1182914 29 100.0 32 ............................. CGTTAACTAAAACGAACAAAACAGGGAAATCA 1182975 29 100.0 32 ............................. AAGACAACTCCTGTCTTTCCATCACTCGAAGC 1183036 29 100.0 0 ............................. | A [1183063] ========== ====== ====== ====== ============================= ================================ ================== 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], //