Array 1 211-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_JABC01000012.1 Salmonella enterica subsp. enterica serovar Infantis str. CVM N34868PS N34868PS_R1_contig_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 210 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 149 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 88 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 27 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================ ================== 4 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : C # Questionable array : NO Score: 5.77 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:0.01, 8:0.6, 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: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 18109-16493 **** Predicted by CRISPRDetect 2.4 *** >NZ_JABC01000012.1 Salmonella enterica subsp. enterica serovar Infantis str. CVM N34868PS N34868PS_R1_contig_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 18108 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 18046 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 17985 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 17924 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 17863 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 17802 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 17741 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 17680 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 17619 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 17558 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 17497 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 17436 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 17375 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 17314 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 17253 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 17192 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 17131 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 17070 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 17008 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 16947 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 16886 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 16825 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 16764 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 16703 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 16642 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 16581 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 16520 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [6-0] 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 51-260 **** Predicted by CRISPRDetect 2.4 *** >NZ_JABC01000042.1 Salmonella enterica subsp. enterica serovar Infantis str. CVM N34868PS N34868PS_R1_contig_47, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 51 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 112 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 173 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 234 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================ ================== 4 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCCAGCGGGGATAAACCGGCCCAATTGCCGGCGACGGTTTCCATGTCAGCG # Right flank : | # Questionable array : NO Score: 5.77 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [30.0-0.0]%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], // Array 1 50-1397 **** Predicted by CRISPRDetect 2.4 *** >NZ_JABC01000002.1 Salmonella enterica subsp. enterica serovar Infantis str. CVM N34868PS N34868PS_R1_contig_10, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================== ================== 50 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 111 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 172 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 233 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 294 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 355 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 416 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 477 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 538 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 599 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 660 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 718 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 779 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 840 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 901 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 962 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 1023 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 1084 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 1145 29 100.0 72 ............................. CGGCCAGCCATTTAAACAGCGCTGCAGCGGGGATAAACCGACAGGGTATATGAGCTTATACGTCATGAACCA 1246 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 1307 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1368 29 93.1 0 A...........T................ | A [1394] ========== ====== ====== ====== ============================= ======================================================================== ================== 22 29 98.0 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGTTGGCATGGCTGGCGACGTAGCGAACAAAATCG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.83 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:-0.11, 8:1, 9:0.79, # 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 [1-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [35.0-48.3]%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], //