Array 1 22640-19628 **** Predicted by CRISPRDetect 2.4 *** >NZ_JQUR01000108.1 Salmonella enterica subsp. enterica serovar Kiambu strain CRJJGF_00061 SQ0109Contig180, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 22639 29 100.0 32 ............................. CGCCCCTCATCCACCAGGGCGATGTGATTCCC 22578 29 100.0 32 ............................. TGGTAGCCGACGGGCGTATTGCGGGGTGCATA 22517 29 100.0 32 ............................. GCTGTTTTGACTTTGGATCGTGAGCAGAGCGT 22456 29 100.0 32 ............................. CGCGTTCAGACATTTATCAAAAAACGCGACGC 22395 29 100.0 32 ............................. TTTGCCGCCTCGTAGTAATCCACCAGGCCAGC 22334 29 100.0 32 ............................. TTTTGAGAAATAGCCATCTTTTTTAACTAACT 22273 29 100.0 32 ............................. CGAACGGTGCTGAAATTATTGAAAATGCGGTA 22212 29 100.0 32 ............................. ACAGTTTGTTGAAATCTACGACTTGAGGACTA 22151 29 100.0 32 ............................. GACAAACGCGCGGCTGGAGTCAGGATCAGATA 22090 29 100.0 32 ............................. GACGACAGTTATATGAAAACGCATTGAGCGGT 22029 29 100.0 32 ............................. TTATCGATCGTCCAATCGACCTGCATCTCGGT 21968 29 100.0 32 ............................. CGATTCCAGGCGAACGCGCGTCTCAGCAGGCA 21907 29 100.0 32 ............................. GACACTGGTCTATTATCGCCCACCGGAAGAAT 21846 29 100.0 32 ............................. CCGCACCGCTGGACAGTCGAAGAACTGGCAGA 21785 29 100.0 32 ............................. TCTAAAACTTCCTGAAATTTACGCTCTAGTGC 21724 29 100.0 32 ............................. GTATCGATCAACACTAATTCGCCAGTGTTCAG 21663 29 100.0 32 ............................. TGGCGCCGTAGGGGGTTGCAGAATTTTATAAA 21602 29 100.0 32 ............................. GCGAACCCTCATCTGTTACTGGATCAGTGCGT 21541 29 100.0 32 ............................. AATTGCCCTTGCTGCCCGGCTCTTCTACGGTC 21480 29 100.0 32 ............................. CATCCAGACGAAAAAGCGCGTTTCGCGGCGCT 21419 29 100.0 32 ............................. CTGGTTGTTGGCTTTTACATGGATTCTGGTCT 21358 29 100.0 32 ............................. CGGCTAACGAGTGTCGCCCGTGGAAACGTAAC 21297 29 100.0 33 ............................. GATCGCTCCGTTCGCGTCGAACACCCGGAGGGG 21235 29 100.0 32 ............................. GGGGAGAGAGGAAAGGGGGGTTTGGGGGGTAT 21174 29 93.1 23 ...........................NN NNNNNNNNNNNNNNNNNNGGTAT Deletion [21123] 21122 29 100.0 32 ............................. ATCGTTGTGGTCCGCGTTGCTGAGGACGAGGA 21061 29 100.0 32 ............................. CGCGACAGCGCGTTTCACTGCATCGTCCATAA 21000 29 100.0 33 ............................. CCAGTCAGCACCAGACCAGAAGCCGTTAACCGC 20938 29 100.0 32 ............................. TTGAAGATTTGGTGAAGGGCGCATTTGAGGAC 20877 29 100.0 32 ............................. TTCGTGCTTAATAGAGGAGGCTGGTTAGATAT 20816 29 100.0 32 ............................. GCGGGACTGTTAGGGATAGACCCCGGAGATTT 20755 29 100.0 32 ............................. GCAACACAGGGTTTAACCGGTTCCCTGGCGCT 20694 29 100.0 32 ............................. ACCAGATTAAAGTCGGTCTGGAAATGGTCATG 20633 29 100.0 32 ............................. TTATCTGGACAGGTGACAGCGAACACGAAATC 20572 29 100.0 32 ............................. CCTGATCGCCAATATCTGAATATGATTTATTC 20511 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 20450 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 20389 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 20328 29 96.6 32 .............T............... CCGGGTGCACGCTTTTATTTTTTATGACTCCC 20267 29 96.6 32 .............T............... CAATTTTTAACGATCACTCAGATAAAACAGCA 20206 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 20145 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 20084 29 96.6 32 .............T............... ACCTATATGCGCGCCACGGGTAAGACCTGGGA 20023 29 100.0 32 ............................. GAGGTAAACGCAGCGGTACCCCTGCGGGGTAT 19962 29 96.6 32 .......................T..... CACTTGTAATTCTTCGAGTTTATCGATGAATT 19901 29 100.0 32 ............................. ACGTTTATTCATCAAATGGGGAGATTCTGCTG 19840 29 100.0 32 ............................. TCACGCGGGCCCCCTTATTGGGTCGGGCAGGT 19779 29 100.0 32 ............................. TTCCGCCATGACCGTTTCGGCCTCCAGCTTTC 19718 29 93.1 32 .........................GT.. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 19657 29 96.6 0 A............................ | A [19630] ========== ====== ====== ====== ============================= ================================= ================== 50 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGTACTACATCGCGGCTACGGCGCTCAATTCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCAAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGTGTCACTCATTCGT # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:-0.00, 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 39174-38780 **** Predicted by CRISPRDetect 2.4 *** >NZ_JQUR01000108.1 Salmonella enterica subsp. enterica serovar Kiambu strain CRJJGF_00061 SQ0109Contig180, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 39173 29 100.0 32 ............................. GTAATTTTACCAAAAATTCTTTCTTTTTCTTC 39112 29 100.0 32 ............................. CCGCCAGTGCCGCCTTTAGAATATCTGTATTA 39051 29 100.0 32 ............................. GACGTATTGATAGTTTAGACAGTAAAGTTGAT 38990 29 100.0 32 ............................. CGGTCGCAGCCTGGCCTGTTGCCGTAGAATCG 38929 29 96.6 32 .........T................... AGTTACTGATGCAGACTGCGGATCTTAATCGG 38868 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 38807 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 7 29 97.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTATCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGGTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGGAGGCTTTTCTACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTAGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGACAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAACTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCTCTACCGATTGG # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //