Array 1 44961-46151 **** Predicted by CRISPRDetect 2.4 *** >NZ_SQQQ01000008.1 Salmonella enterica subsp. enterica strain 423_13 NODE_8_length_187606_cov_12.7907_ID_15, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 44961 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 45023 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 45084 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 45145 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 45206 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 45267 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 45328 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 45389 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 45450 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 45511 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 45572 29 100.0 33 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGCC 45634 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 45695 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 45756 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 45817 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 45878 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 45939 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 46000 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 46062 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 46123 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 20 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : GACGCACCGGTACGATGTTCAGGGCAACCGCACAGAAACGCAGATGCCGGACGGGCGGACGCTGCGGTACCTGTACTACGGGAGCGGCCATCTCCAGCAAATCAACCTGGGGCGTGATGTCATCAGCGAGTTCACGCGCGACCACCTGCACCGTGAGGTGCAGCGGAGCCAGGGGCGGCTGGACACGCGGCGGATGTACGACCGGACGGGCCGGTTAACGCGGAAACTGACCTGTAAAGGAATGCGCGGTGTGGTGCCGGAGACGTTTATTGACCGGGAATATGCGTACAGCGGCCAGGATGAGCTGCTGAAAAAGCGGCACAGCCGGCAGGGGGTGACGGATTATTTTTACGACACGACGGGGCGTATCACGGCGTGCCGGAATGAGGCATACCTGGACAGCTGGCAGTACGACGCGGCGGCGAACCTGCTGGACAGGCGGCAGGGAGAGACCGCGCAGGCGGGTGCAGGCAGCGTGGTGCCGTTCAACCGGATAACGT # 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: 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [70.0-35.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 112375-110471 **** Predicted by CRISPRDetect 2.4 *** >NZ_SQQQ01000013.1 Salmonella enterica subsp. enterica strain 423_13 NODE_13_length_129189_cov_13.1131_ID_25, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================== ================== 112374 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 112313 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 112252 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 112191 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 112129 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 112068 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 112007 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 111946 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 111885 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 111824 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 111763 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 111702 29 100.0 33 ............................. CAATGCCGCTTTTGCCCGAGTTTTCACCGCCGT G [111685] 111639 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC C [111630] 111577 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 111516 29 96.6 35 ............................T GTAGCGCAGGGGACTGGGCAACGGCTGCCGGGCGT 111452 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 111391 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 111330 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 111269 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 111208 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 111150 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 111089 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 111028 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 110967 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 110906 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 110845 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 110784 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 110723 29 100.0 72 ............................. CGGCCAGCCATTTAAACAGCGCTGCAGCGGGGATAAACCGACAGGGTATATGAGCTTATACGTCATGAACCA 110622 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 110561 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 110500 29 93.1 0 A...........T................ | A [110473] ========== ====== ====== ====== ============================= ======================================================================== ================== 31 29 98.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:-0.07, 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: 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: F [3-12] 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 [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 128989-128656 **** Predicted by CRISPRDetect 2.4 *** >NZ_SQQQ01000013.1 Salmonella enterica subsp. enterica strain 423_13 NODE_13_length_129189_cov_13.1131_ID_25, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 128988 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 128927 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 128866 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 128805 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 128744 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 128683 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 6 29 96.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACTTTCAGCGGGGAGGAAGGTGTTGCGGTTAATAACCGCAGCAATTGACGTTACCCGCAGAAGAAGCACCGGCTAACTCCGTGCCAGCAGCCGCGGTAATACGGAGGGCAAAATCCCGCCACGCTG # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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 [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-35.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //