Array 1 1502-8 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDPI01000012.1 Salmonella enterica subsp. enterica serovar Kiambu strain 136 NODE_12_length_113758_cov_31.0509, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1501 29 100.0 32 ............................. CGCCCCTCATCCACCAGGGCGATGTGATTCCC 1440 29 100.0 32 ............................. TGGTAGCCGACGGGCGTATTGCGGGGTGCATA 1379 29 100.0 32 ............................. GCTGTTTTGACTTTGGATCGTGAGCAGAGCGT 1318 29 100.0 32 ............................. CGCGTTCAGACATTTATCAAAAAACGCGACGC 1257 29 100.0 32 ............................. TTTGCCGCCTCGTAGTAATCCACCAGGCCAGC 1196 29 100.0 32 ............................. TTTTGAGAAATAGCCATCTTTTTTAACTAACT 1135 29 100.0 32 ............................. CGAACGGTGCTGAAATTATTGAAAATGCGGTA 1074 29 100.0 32 ............................. ACAGTTTGTTGAAATCTACGACTTGAGGACTA 1013 29 100.0 32 ............................. GACAAACGCGCGGCTGGAGTCAGGATCAGATA 952 29 100.0 32 ............................. GACGACAGTTATATGAAAACGCATTGAGCGGT 891 29 100.0 32 ............................. TTATCGATCGTCCAATCGACCTGCATCTCGGT 830 29 100.0 32 ............................. CGATTCCAGGCGAACGCGCGTCTCAGCAGGCA 769 29 100.0 32 ............................. GACACTGGTCTATTATCGCCCACCGGAAGAAT 708 29 100.0 32 ............................. CCGCACCGCTGGACAGTCGAAGAACTGGCAGA 647 29 100.0 32 ............................. TCTAAAACTTCCTGAAATTTACGCTCTAGTGC 586 29 100.0 32 ............................. GTATCGATCAACACTAATTCGCCAGTGTTCAG 525 29 100.0 32 ............................. TGGCGCCGTAGGGGGTTGCAGAATTTTATAAA 464 29 100.0 32 ............................. GCGAACCCTCATCTGTTACTGGATCAGTGCGT 403 29 100.0 32 ............................. AATTGCCCTTGCTGCCCGGCTCTTCTACGGTC 342 29 100.0 32 ............................. CATCCAGACGAAAAAGCGCGTTTCGCGGCGCT 281 29 100.0 32 ............................. CTGGTTGTTGGCTTTTACATGGATTCTGGTCT 220 29 100.0 32 ............................. CGGCTAACGAGTGTCGCCCGTGGAAACGTAAC 159 29 100.0 33 ............................. GATCGCTCCGTTCGCGTCGAACACCCGGAGGGG 97 29 100.0 32 ............................. GGGGAGAGAGGAAAGGGGGGTTTGGGGGGTAT 36 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 25 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GATCGTTG # 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: 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [6.7-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 17975-17642 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDPI01000012.1 Salmonella enterica subsp. enterica serovar Kiambu strain 136 NODE_12_length_113758_cov_31.0509, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 17974 29 100.0 32 ............................. CCGCCAGTGCCGCCTTTAGAATATCTGTATTA 17913 29 100.0 32 ............................. GACGTATTGATAGTTTAGACAGTAAAGTTGAT 17852 29 100.0 32 ............................. CGGTCGCAGCCTGGCCTGTTGCCGTAGAATCG 17791 29 96.6 32 .........T................... AGTTACTGATGCAGACTGCGGATCTTAATCGG 17730 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 17669 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 6 29 96.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTATCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGGTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGGAGGCTTTTCTACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTAGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGACAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAACTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCTCTACCGATTGG # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.83, 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], // Array 1 38-1593 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDPI01000008.1 Salmonella enterica subsp. enterica serovar Kiambu strain 136 NODE_8_length_207730_cov_29.9243, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 38 29 100.0 32 ............................. ATCGTTGTGGTCCGCGTTGCTGAGGACGAGGA 99 29 100.0 32 ............................. CGCGACAGCGCGTTTCACTGCATCGTCCATAA 160 29 100.0 33 ............................. CCAGTCAGCACCAGACCAGAAGCCGTTAACCGC 222 29 100.0 32 ............................. TTGAAGATTTGGTGAAGGGCGCATTTGAGGAC 283 29 100.0 32 ............................. TTCGTGCTTAATAGAGGAGGCTGGTTAGATAT 344 29 100.0 32 ............................. GCGGGACTGTTAGGGATAGACCCCGGAGATTT 405 29 100.0 32 ............................. GCAACACAGGGTTTAACCGGTTCCCTGGCGCT 466 29 100.0 32 ............................. ACCAGATTAAAGTCGGTCTGGAAATGGTCATG 527 29 100.0 32 ............................. TTATCTGGACAGGTGACAGCGAACACGAAATC 588 29 100.0 32 ............................. CCTGATCGCCAATATCTGAATATGATTTATTC 649 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 710 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 771 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 832 29 96.6 32 .............T............... CCGGGTGCACGCTTTTATTTTTTATGACTCCC 893 29 96.6 32 .............T............... CAATTTTTAACGATCACTCAGATAAAACAGCA 954 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 1015 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 1076 29 96.6 32 .............T............... ACCTATATGCGCGCCACGGGTAAGACCTGGGA 1137 29 100.0 32 ............................. GAGGTAAACGCAGCGGTACCCCTGCGGGGTAT 1198 29 100.0 32 ............................. GAGGTAAACGCAGCGGTACCCCTGCGGGGTAT 1259 29 96.6 32 .......................T..... CACTTGTAATTCTTCGAGTTTATCGATGAATT 1320 29 100.0 32 ............................. ACGTTTATTCATCAAATGGGGAGATTCTGCTG 1381 29 100.0 32 ............................. TCACGCGGGCCCCCTTATTGGGTCGGGCAGGT 1442 29 100.0 32 ............................. TTCCGCCATGACCGTTTCGGCCTCCAGCTTTC 1503 29 93.1 32 .........................GT.. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 1564 29 96.6 0 A............................ | A [1590] ========== ====== ====== ====== ============================= ================================= ================== 26 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AACCGGTATCGATCAACACTAATTCGCCAGTGTTCAGG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGTACTACATCGCGGCTACGGCGCTCAATTCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCAAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGTGTCACTCATTCG # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 : 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 [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [33.3-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //