Array 1 1079383-1080448 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP050769.1 Salmonella enterica subsp. enterica serovar Indiana strain SI108 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1079383 29 100.0 32 ............................. TGTAACCACTGCGATATGGGCGATGACACAAA 1079444 29 100.0 32 ............................. CGGGAAGCGCAGCAGAACGCCCGGTCGCAGCG 1079505 29 100.0 32 ............................. ATCACCGGCACGCGCGATAACGGGTCTGATTA 1079566 29 100.0 32 ............................. CCGAAAATTACCGGGCAGTCACCGTGGGGGCA 1079627 29 100.0 32 ............................. ACGATCCAGATATTTGGCTGGATGCAATCGGT 1079688 29 100.0 32 ............................. CCCCATCGGTAACCTCTCACTATCGGTGTGTC 1079749 29 100.0 32 ............................. GCTTTTATGTCTGGTGGATATAACGCACTGAA 1079810 29 100.0 33 ............................. CAAAAACAGGTAAATTTGTTCGCTTCGTCAAGC 1079872 29 100.0 32 ............................. CGTATCCCGAAATCACGTTCAAGAAAAATCCG 1079933 29 100.0 32 ............................. CCGTTGATCAGAACGGCAACGAACGCACGTAC 1079994 29 100.0 32 ............................. TCAGCGTAGGTTGTTGACGTCCCCACCAGCCC 1080055 29 100.0 32 ............................. CCATTTTTGATCATCTCCTCCAGCCTGCTGAG 1080116 29 96.6 32 .............T............... CACTGGAGATATAGCTGCTGTCGTCATCGGGT 1080177 29 93.1 32 .............T..............A GTCAAATAAATATGAGTGAAGAAGCCAAAGCC 1080238 29 100.0 32 ............................. CCATAAGAGCATCCCCGCCATCCGGAGGGGAA 1080299 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 1080360 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 1080421 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 1096990-1098056 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP050769.1 Salmonella enterica subsp. enterica serovar Indiana strain SI108 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1096990 29 100.0 32 ............................. AGCACACATTGTGTGACGGTCGCCGTCTGGTT 1097051 29 100.0 32 ............................. CCGGTTGTCCTTGTAATGGGGGGGGGCATTTG 1097112 29 100.0 32 ............................. GGCGACGGGTTCGTCCGACCGCATCCGGGCCA 1097173 29 100.0 32 ............................. CTTGGAACCATAAAAGATGGGCAAATAGTGCA 1097234 29 100.0 32 ............................. ATTTTATTAGCGACTATCCAGGAATAAATTAC 1097295 29 100.0 32 ............................. GGTGTTACTGATGGTGGGGCGCTGGATGAGGC 1097356 29 100.0 32 ............................. AGCGCGTCAGGAACGTTTCTGGGGTGGCCTGA 1097417 29 100.0 32 ............................. AGTGTCCACACTGCGGCGCTGAAAAATGCAAC 1097478 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 1097539 29 100.0 32 ............................. TTCGGAGTCCGGATCATCATTCAGGATAACGA 1097600 29 100.0 32 ............................. AAATCGCGCGGCGATCGACTCAAGGCGGCGAC 1097661 29 100.0 32 ............................. AAAATCGTGAGTGACTATCGTTCTGTTATTGC 1097722 29 100.0 32 ............................. TCTCTGTGATTACCCCGGAGCATGGCGGTGCG 1097783 29 100.0 32 ............................. TGGCCGGGGAAACAAGGAAAGTCCTGGTTTTT 1097844 29 100.0 32 ............................. TTTGAAATCGCTATTCTTATTGCTGTAGCAGT 1097905 29 100.0 32 ............................. CGTTAACTAAAACGAACAAAACAGGGAAATCA 1097966 29 100.0 32 ............................. AAGACAACTCCTGTCTTTCCATCACTCGAAGC 1098027 29 100.0 0 ............................. | A [1098054] ========== ====== ====== ====== ============================= ================================ ================== 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], //