Array 1 12316-10458 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHHD01000018.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N45940 N45940_contig_18, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 12315 29 100.0 32 ............................. AACTTAACTCCAGCATTCTGGCAATTGTTGCG 12254 29 100.0 32 ............................. GCGACATCAAAATCTATTTTTCATTCTATCTG 12193 29 100.0 32 ............................. CTCCAGCCACATTGCGGCGCGACCGCTTTTAA 12132 29 100.0 32 ............................. CAATGTTTCATGCTACGCAAGAGACCAGAACG 12071 29 100.0 32 ............................. TGGTGGAGTGCCGAACCGCTACCGTTTCAAAG 12010 29 100.0 32 ............................. TCATGGCGTCATTCGGTACTGATATGCCAATG 11949 29 100.0 32 ............................. TCGTTTGTAGCCGAAAACCGGCTGGCGCTGAT 11888 29 100.0 32 ............................. TAATGAATCGCCTTTCTAAAATGAAAGACGAC 11827 29 100.0 32 ............................. GCATCGAACCGCTTATCCGTCTGTACCCACTC 11766 29 100.0 32 ............................. CTTTCATTGCGCAGGGTATGCAGTCGGTTTCC 11705 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 11644 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 11583 29 100.0 32 ............................. AATGGGATGTTCTCGATAATGGCGACGACGAA 11522 29 100.0 32 ............................. CGGTCATTTTAAAGAATCCCGTTAAACAACAC 11461 29 100.0 32 ............................. GACATTTCAGTTTTGAGCATGAACCTGATTCA 11400 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGTTGTTTAGTTCCT 11339 29 100.0 32 ............................. AAAACCGTACAACAGACAAAATATAAATATTG 11278 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 11217 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 11156 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 11095 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 11034 29 100.0 32 ............................. CCAGCTTACACTATTTACGACGTTATTGAGCA 10973 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 10912 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 10851 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 10790 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 10729 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 10668 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 10607 29 100.0 32 ............................. GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 10546 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 10485 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 31 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTCCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTGATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [9-0] 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 1132-3 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHHD01000049.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N45940 N45940_contig_49, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1131 29 100.0 32 ............................. CGACGCTTCCATCGTCTGGCATTCCTGTTCGT 1070 29 100.0 32 ............................. CCCGCGTATTAACAACGACGAGCAGGGCGTGC 1009 29 100.0 32 ............................. GTTGCGCAGCCATTGAGCTGCAAACGGATCAA 948 29 100.0 32 ............................. ATAGTTCATCTCTGTTCTCCAGCGGTTTCTAT 887 29 100.0 32 ............................. ACGGCATTATCACGGCTATTTCTCTGGAAATG 826 29 100.0 32 ............................. GACAGGACTTACGACCGGCTGGACTACGCATC 765 29 100.0 32 ............................. CCACAGCCGCCGCGACAATAAATTAACTCACT 704 29 100.0 32 ............................. GCTGAGATAATTGCCGATCATCTTGAAGACAT 643 29 100.0 32 ............................. AATGATGAGGGGCTGGCAACGTTTAGCGCCAC 582 29 100.0 32 ............................. CTGGCCACTCAACAGGGAAATATCGCGTGCGC 521 29 96.6 32 A............................ CCCATCAAGATAAACATCATAGCGAGCACCTG 460 29 100.0 32 ............................. TTTGAAATCGCTATTCTTATTGCTGTAGCAGT 399 29 100.0 32 ............................. CGTTAACTAAAACGAACAAAACAGGGAAATCA 338 29 100.0 33 ............................. GCCGTGCGTCAGATCACCCCAAACGCTTTCTTT 276 29 100.0 33 ............................. GCATTAGATTGCGTTGACGGTCACGTTCTTATC 214 29 100.0 32 ............................. CGCCTCACTGATATTCTGCGGCGAGCTGAAAA 153 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 92 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 31 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 19 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCACAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAAGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GGA # 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: 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 [1.7-70.0]%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 1 268-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHHD01000081.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N45940 N45940_contig_83, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 267 27 93.1 32 --........................... GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 208 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 147 29 100.0 32 ............................. AAGCCATTGACGCAACGGAAAACGCCAATGCT 86 29 96.6 32 .................A........... GTATGATTTGGACATAGCTAATGATGTAAAGT 25 25 86.2 0 .........................---- | ========== ====== ====== ====== ============================= ================================ ================== 5 29 95.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : A # Questionable array : NO Score: 5.74 # Score Detail : 1:0, 2:3, 3:0, 4:0.76, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:0.92, # 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: NA [5,5] 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 [-14.00,-14.90] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.28 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //