Array 1 997048-1000106 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP029040.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CFSAN047866 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 997048 29 100.0 32 ............................. CACATTTCCTCAGTGTGCTTCAGAGGGTGGTA 997109 29 100.0 32 ............................. CCGATATCAAAAAAGCGTTTAAACGCCTTGCC 997170 29 96.6 32 ............................T TCCTGCGCTTTGGCCAGTTTGGAACCCGCCGC 997231 29 100.0 32 ............................. GCACAATTTGTGCTTTTGCAATTCACTTTGAA 997292 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 997353 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 997414 29 100.0 32 ............................. TAACGCCGTTCTGCATACGCTCTACCGCGCGC 997475 29 100.0 32 ............................. GGGAATGTATGGATTTAGAAGAAGAGCTGGCA 997536 29 100.0 32 ............................. GGGTATTACGGCGACACAGCGCTTGTTGTCTA 997597 29 100.0 32 ............................. TTAACAAATGTTTTTAAAACGCTTATAACAAA 997658 29 100.0 32 ............................. GGGGCGGCAATGGTGGTCAGGGTGATGGCGGC 997719 29 100.0 32 ............................. TTTAAAAATTTATCTCGATAAATCCAACGATG 997780 29 100.0 32 ............................. AATGATCGTATTTTTCGCTACGTCGCACAAAT 997841 29 100.0 32 ............................. CCCGTTATTTGTAGTTAACGGGCACGTAGTGG 997902 29 100.0 32 ............................. ATCGGGCAGCTCAACGCGGCTATGAAAATCAC 997963 29 100.0 32 ............................. TTGATCGCCGTGGCGGTGAGATTAGAAACGCG 998024 29 100.0 32 ............................. CTGCCAAACTTCTGACAATCCCGGACAGCATC 998085 29 100.0 32 ............................. CGAGTCTGGAAATTGAGGACACCGAAACCGGC 998146 29 100.0 32 ............................. TGCTGGTGGGCGGTACGCCGTGCCAGGCGTTC 998207 29 96.6 32 ............................T TATCCTTACCCTCAACGGCGCAGGCCGATCTC 998268 29 100.0 32 ............................. CGATCTGGTGAGCGCATCGGTTCGGGAGAGTG 998329 29 100.0 74 ............................. GATTGTTCAGATTGGGAATTTGACCAACGCCCGTGTTCCCCGCGCCAGTAATTTGACGTATCCGTGAACCAGTT 998432 29 100.0 32 ............................. GGGAATATCGTTAAAGTGGTTTACCACAATAT 998493 29 100.0 32 ............................. GCGCTCAGGGCCGCCTTGCTGCGGGCACTCAT 998554 29 100.0 32 ............................. GACGTGATCAAACAATTTGGCCGCCCGGAACA 998615 29 100.0 32 ............................. CGATCAAGCGAATGCGTCGGCTGGAGCATCGC 998676 29 100.0 32 ............................. GTTTTCGCGGCCGCGAGATTGTTCTTGCCGAC 998737 29 100.0 32 ............................. TACCGTTTTTACTCCCCCGCATTTGGTTACAC 998798 29 100.0 32 ............................. CAGGAGCAAGCACAAACATAGAGCAAATTAAA 998859 29 100.0 32 ............................. CCAGTGCATTCGAACTCATGGAACGGTGCTAA 998920 29 100.0 32 ............................. GCGCACCGCTTTAGAGTGCCAGGCATAGGCAA 998981 29 100.0 32 ............................. ACACAATACGTATCAGTAAAGACACAAATTGT 999042 29 100.0 32 ............................. CGCATTACCGGGAAAACCTGGGAAGAGACGAT 999103 29 100.0 32 ............................. TCTTGTTTGTTTCTGATTCTTTTTCTGAATGA 999164 29 100.0 32 ............................. AGTCAGAAGAGGACTCATTAGTATCACTCTCA 999225 29 100.0 32 ............................. AATAAACAGCGTCGTAAATGGATCGAGGAAAT 999286 29 100.0 32 ............................. CATCTCTCTATATGCAGCGCCAGCCAGCGCAA 999347 29 100.0 32 ............................. CTTTCCTTGCGTCAATTTTGAGGGAGATTGAT 999408 29 100.0 32 ............................. ATCCCGCGCTCTATTAAAATCTTTGATTGCGT 999469 29 100.0 32 ............................. GTAATGTGCGCCGCGCCGGTGATATCTACTTT 999530 29 96.6 32 .....T....................... CCATTGCTGACAGGCAGTGATTTCAATGTGTC 999591 29 100.0 32 ............................. GTCATGAATGGCCTCATAAAAACGATGTTGGT 999652 29 100.0 32 ............................. TGTTCGCGCTAAATAATGCAGTAGGCCGCGCT 999713 29 100.0 32 ............................. CCAGAAATTTAAATGGCTATTCCTGGCTGTAG 999774 29 100.0 32 ............................. GCGCAATTGCAGTTTGACGCGGTGCTGTCATT 999835 29 100.0 32 ............................. TCGTTTGTGGCGTCAGTAATACTATTATCGGT 999896 29 96.6 32 .............T............... TTTTTAAATCCGGACAGACCCTGTAACGGATC 999957 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 1000018 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 1000079 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 1016652-1019061 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP029040.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CFSAN047866 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1016652 29 100.0 32 ............................. GCAATTTCCGATATGCGACTTGGGACACCAAT 1016713 29 100.0 32 ............................. ACACCGACTCATCCGTTGTTACTCCTGGTATT 1016774 29 100.0 32 ............................. CGCTACGCCCTGCCCGGTCTCGGTCTCGGTCT 1016835 29 100.0 32 ............................. CACATCGGGAGCCTCAATCAACCCGGCACGGA 1016896 29 100.0 32 ............................. AGTTCGATATCCCTTAACGGTACTGCCGTCCT 1016957 29 100.0 32 ............................. CCTCACGCAATTGAGCCTCTTTCTCGACACGC 1017018 29 100.0 32 ............................. GGCCAGTTCAACAAACACCACGACGCGGGAAT 1017079 29 100.0 32 ............................. CCAGCTTGCCGATATCAACGACCTATACCTGT 1017140 29 100.0 32 ............................. GTTAAAATTTGGGAGGATCGCCCGGGACTCCC 1017201 29 100.0 32 ............................. GGACCATTGAAACGGCGCTGACATCAGATGTT 1017262 29 100.0 32 ............................. TACCGAACGGCTCAAAGTATGTTCCAATTGAC 1017323 29 100.0 32 ............................. GTTGAAACCAGCATTCCTTATGCTGTGCTGCC 1017384 29 100.0 32 ............................. GAGATTTTTCTTGTCCCGCCACACCAGCGGCT 1017445 29 100.0 32 ............................. TGCATCATCTGATTCGTACGATACGGCAGGGT 1017506 29 100.0 32 ............................. GGCTGACAAACGAGCAGGTTGAATTTGTCCTG 1017567 29 100.0 32 ............................. CATGGTCTGTACCGCCTGCATTTCTGCATTGT 1017628 29 100.0 32 ............................. GGCCGCACCGCTGGCGATCACGATTAATCAGC 1017689 29 100.0 32 ............................. CGCCTCGCAAAACTGGTCGGGGTTTTTCCCCA 1017750 29 100.0 32 ............................. TTCGTGTTCTAACAGCAGATCGCTGATACGGC 1017811 29 100.0 32 ............................. CCAGTAATGAAACGCTGGCAACATTGACGAGC 1017872 29 100.0 32 ............................. CGCAGACGGCGCAATTGGATTCGGTGATCGGG 1017933 29 100.0 32 ............................. TGCTCGAGCCGACATTGATCCCGCAAAAATAC 1017994 29 100.0 32 ............................. GGATGCCGATAGCGGTCAGTAATGAAAATGGC 1018055 29 100.0 32 ............................. AAGATCCTGTCTCTTTTGTGCGGAGCGCCGAC 1018116 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 1018177 29 100.0 33 ............................. GACAATTAGTTCCGACAGACGCCGGTATTAAAT 1018239 29 96.6 32 ............T................ CCCACGCGCGGCCGCACTGGCCTCGCGGATAA 1018300 29 100.0 32 ............................. TCCGGGCCGCCGCTACCACCACTCAGCGGCGT 1018361 29 100.0 32 ............................. CCTAATGGTGATGGGGCGTTTAATCTTATCTC 1018422 29 100.0 32 ............................. TGGTTTAATAGTATCGGGCAGCATTTTACCGA 1018483 29 100.0 32 ............................. ATCTCAATTAGTCCGTTTCCGGTTGAATCAAT 1018544 29 96.6 32 ...C......................... GGGTGTACCACGGCATGATGACGGCCAGCCAT 1018605 29 100.0 32 ............................. ATTGACAACAGTCTGCTTACCCGAGCTGCTCC 1018666 29 100.0 32 ............................. TCCTGTCGGCGGTACGGTGGACATCCCGCAGG 1018727 29 96.6 32 .........A................... CCAGTCAGCCACTGTTCTTTGCCGTACCTTTC 1018788 29 100.0 32 ............................. GGGTTATAACCGGGATACCATCCGCTCCAACC 1018849 29 100.0 32 ............................. CGCCACGTTTTTTGCATTTTATTGGCATCATC 1018910 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 1018971 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 1019032 29 100.0 0 ............................. | A [1019059] ========== ====== ====== ====== ============================= ================================= ================== 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], //