Array 1 1000743-1003801 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP029038.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CFSAN045763 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 1000743 29 100.0 32 ............................. CACATTTCCTCAGTGTGCTTCAGAGGGTGGTA 1000804 29 100.0 32 ............................. CCGATATCAAAAAAGCGTTTAAACGCCTTGCC 1000865 29 96.6 32 ............................T TCCTGCGCTTTGGCCAGTTTGGAACCCGCCGC 1000926 29 100.0 32 ............................. GCACAATTTGTGCTTTTGCAATTCACTTTGAA 1000987 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 1001048 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 1001109 29 100.0 32 ............................. TAACGCCGTTCTGCATACGCTCTACCGCGCGC 1001170 29 100.0 32 ............................. GGGAATGTATGGATTTAGAAGAAGAGCTGGCA 1001231 29 100.0 32 ............................. GGGTATTACGGCGACACAGCGCTTGTTGTCTA 1001292 29 100.0 32 ............................. TTAACAAATGTTTTTAAAACGCTTATAACAAA 1001353 29 100.0 32 ............................. GGGGCGGCAATGGTGGTCAGGGTGATGGCGGC 1001414 29 100.0 32 ............................. TTTAAAAATTTATCTCGATAAATCCAACGATG 1001475 29 100.0 32 ............................. AATGATCGTATTTTTCGCTACGTCGCACAAAT 1001536 29 100.0 32 ............................. CCCGTTATTTGTAGTTAACGGGCACGTAGTGG 1001597 29 100.0 32 ............................. ATCGGGCAGCTCAACGCGGCTATGAAAATCAC 1001658 29 100.0 32 ............................. TTGATCGCCGTGGCGGTGAGATTAGAAACGCG 1001719 29 100.0 32 ............................. CTGCCAAACTTCTGACAATCCCGGACAGCATC 1001780 29 100.0 32 ............................. CGAGTCTGGAAATTGAGGACACCGAAACCGGC 1001841 29 100.0 32 ............................. TGCTGGTGGGCGGTACGCCGTGCCAGGCGTTC 1001902 29 96.6 32 ............................T TATCCTTACCCTCAACGGCGCAGGCCGATCTC 1001963 29 100.0 32 ............................. CGATCTGGTGAGCGCATCGGTTCGGGAGAGTG 1002024 29 100.0 74 ............................. GATTGTTCAGATTGGGAATTTGACCAACGCCCGTGTTCCCCGCGCCAGTAATTTGACGTATCCGTGAACCAGTT 1002127 29 100.0 32 ............................. GGGAATATCGTTAAAGTGGTTTACCACAATAT 1002188 29 100.0 32 ............................. GCGCTCAGGGCCGCCTTGCTGCGGGCACTCAT 1002249 29 100.0 32 ............................. GACGTGATCAAACAATTTGGCCGCCCGGAACA 1002310 29 100.0 32 ............................. CGATCAAGCGAATGCGTCGGCTGGAGCATCGC 1002371 29 100.0 32 ............................. GTTTTCGCGGCCGCGAGATTGTTCTTGCCGAC 1002432 29 100.0 32 ............................. TACCGTTTTTACTCCCCCGCATTTGGTTACAC 1002493 29 100.0 32 ............................. CAGGAGCAAGCACAAACATAGAGCAAATTAAA 1002554 29 100.0 32 ............................. CCAGTGCATTCGAACTCATGGAACGGTGCTAA 1002615 29 100.0 32 ............................. GCGCACCGCTTTAGAGTGCCAGGCATAGGCAA 1002676 29 100.0 32 ............................. ACACAATACGTATCAGTAAAGACACAAATTGT 1002737 29 100.0 32 ............................. CGCATTACCGGGAAAACCTGGGAAGAGACGAT 1002798 29 100.0 32 ............................. TCTTGTTTGTTTCTGATTCTTTTTCTGAATGA 1002859 29 100.0 32 ............................. AGTCAGAAGAGGACTCATTAGTATCACTCTCA 1002920 29 100.0 32 ............................. AATAAACAGCGTCGTAAATGGATCGAGGAAAT 1002981 29 100.0 32 ............................. CATCTCTCTATATGCAGCGCCAGCCAGCGCAA 1003042 29 100.0 32 ............................. CTTTCCTTGCGTCAATTTTGAGGGAGATTGAT 1003103 29 100.0 32 ............................. ATCCCGCGCTCTATTAAAATCTTTGATTGCGT 1003164 29 100.0 32 ............................. GTAATGTGCGCCGCGCCGGTGATATCTACTTT 1003225 29 96.6 32 .....T....................... CCATTGCTGACAGGCAGTGATTTCAATGTGTC 1003286 29 100.0 32 ............................. GTCATGAATGGCCTCATAAAAACGATGTTGGT 1003347 29 100.0 32 ............................. TGTTCGCGCTAAATAATGCAGTAGGCCGCGCT 1003408 29 100.0 32 ............................. CCAGAAATTTAAATGGCTATTCCTGGCTGTAG 1003469 29 100.0 32 ............................. GCGCAATTGCAGTTTGACGCGGTGCTGTCATT 1003530 29 100.0 32 ............................. TCGTTTGTGGCGTCAGTAATACTATTATCGGT 1003591 29 96.6 32 .............T............... TTTTTAAATCCGGACAGACCCTGTAACGGATC 1003652 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 1003713 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 1003774 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ========================================================================== ================== 50 29 99.3 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:-0.04, 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 1020347-1022756 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP029038.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CFSAN045763 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1020347 29 100.0 32 ............................. GCAATTTCCGATATGCGACTTGGGACACCAAT 1020408 29 100.0 32 ............................. ACACCGACTCATCCGTTGTTACTCCTGGTATT 1020469 29 100.0 32 ............................. CGCTACGCCCTGCCCGGTCTCGGTCTCGGTCT 1020530 29 100.0 32 ............................. CACATCGGGAGCCTCAATCAACCCGGCACGGA 1020591 29 100.0 32 ............................. AGTTCGATATCCCTTAACGGTACTGCCGTCCT 1020652 29 100.0 32 ............................. CCTCACGCAATTGAGCCTCTTTCTCGACACGC 1020713 29 100.0 32 ............................. GGCCAGTTCAACAAACACCACGACGCGGGAAT 1020774 29 100.0 32 ............................. CCAGCTTGCCGATATCAACGACCTATACCTGT 1020835 29 100.0 32 ............................. GTTAAAATTTGGGAGGATCGCCCGGGACTCCC 1020896 29 100.0 32 ............................. GGACCATTGAAACGGCGCTGACATCAGATGTT 1020957 29 100.0 32 ............................. TACCGAACGGCTCAAAGTATGTTCCAATTGAC 1021018 29 100.0 32 ............................. GTTGAAACCAGCATTCCTTATGCTGTGCTGCC 1021079 29 100.0 32 ............................. GAGATTTTTCTTGTCCCGCCACACCAGCGGCT 1021140 29 100.0 32 ............................. TGCATCATCTGATTCGTACGATACGGCAGGGT 1021201 29 100.0 32 ............................. GGCTGACAAACGAGCAGGTTGAATTTGTCCTG 1021262 29 100.0 32 ............................. CATGGTCTGTACCGCCTGCATTTCTGCATTGT 1021323 29 100.0 32 ............................. GGCCGCACCGCTGGCGATCACGATTAATCAGC 1021384 29 100.0 32 ............................. CGCCTCGCAAAACTGGTCGGGGTTTTTCCCCA 1021445 29 100.0 32 ............................. TTCGTGTTCTAACAGCAGATCGCTGATACGGC 1021506 29 100.0 32 ............................. CCAGTAATGAAACGCTGGCAACATTGACGAGC 1021567 29 100.0 32 ............................. CGCAGACGGCGCAATTGGATTCGGTGATCGGG 1021628 29 100.0 32 ............................. TGCTCGAGCCGACATTGATCCCGCAAAAATAC 1021689 29 100.0 32 ............................. GGATGCCGATAGCGGTCAGTAATGAAAATGGC 1021750 29 100.0 32 ............................. AAGATCCTGTCTCTTTTGTGCGGAGCGCCGAC 1021811 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 1021872 29 100.0 33 ............................. GACAATTAGTTCCGACAGACGCCGGTATTAAAT 1021934 29 96.6 32 ............T................ CCCACGCGCGGCCGCACTGGCCTCGCGGATAA 1021995 29 100.0 32 ............................. TCCGGGCCGCCGCTACCACCACTCAGCGGCGT 1022056 29 100.0 32 ............................. CCTAATGGTGATGGGGCGTTTAATCTTATCTC 1022117 29 100.0 32 ............................. TGGTTTAATAGTATCGGGCAGCATTTTACCGA 1022178 29 100.0 32 ............................. ATCTCAATTAGTCCGTTTCCGGTTGAATCAAT 1022239 29 96.6 32 ...C......................... GGGTGTACCACGGCATGATGACGGCCAGCCAT 1022300 29 100.0 32 ............................. ATTGACAACAGTCTGCTTACCCGAGCTGCTCC 1022361 29 100.0 32 ............................. TCCTGTCGGCGGTACGGTGGACATCCCGCAGG 1022422 29 96.6 32 .........A................... CCAGTCAGCCACTGTTCTTTGCCGTACCTTTC 1022483 29 100.0 32 ............................. GGGTTATAACCGGGATACCATCCGCTCCAACC 1022544 29 100.0 32 ............................. CGCCACGTTTTTTGCATTTTATTGGCATCATC 1022605 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 1022666 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 1022727 29 100.0 0 ............................. | A [1022754] ========== ====== ====== ====== ============================= ================================= ================== 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], //