Array 1 290050-291665 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAGKZ010000003.1 Salmonella enterica subsp. enterica serovar Infantis strain 9181/1 NODE_3_length_416378_cov_28.024805, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 290050 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 290112 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 290173 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 290234 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 290295 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 290356 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 290417 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 290478 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 290539 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 290600 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 290661 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 290722 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 290783 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 290844 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 290905 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 290966 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 291027 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 291088 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 291150 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 291211 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 291272 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 291333 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 291394 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 291455 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 291516 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 291577 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 291638 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [0-6] 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 307948-309845 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAGKZ010000003.1 Salmonella enterica subsp. enterica serovar Infantis strain 9181/1 NODE_3_length_416378_cov_28.024805, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 307948 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 308009 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 308070 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 308131 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 308193 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 308254 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 308315 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 308376 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 308437 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 308498 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 308559 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 308620 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 308681 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 308742 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 308803 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 308864 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 308925 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 308986 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 309047 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 309108 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 309166 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 309227 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 309288 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 309349 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 309410 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 309471 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 309532 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 309593 29 100.0 11 ............................. CGGCCAGCCAT Deletion [309633] 309633 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 309694 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 309755 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 309816 29 93.1 0 A...........T................ | A [309842] ========== ====== ====== ====== ============================= ================================= ================== 32 29 97.7 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:-0.05, 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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 [0-11] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%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], //