Array 1 108779-105818 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAIQEP010000002.1 Salmonella enterica strain L3-31 contig00002, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 108778 29 100.0 32 ............................. CCCCACAAATCACTGGTCGATTTCGTCGCACG 108717 29 100.0 32 ............................. GTTGCGACTAAACCGGACCAGCGCCCGCCCAC 108656 29 100.0 32 ............................. CCAGTGCTCGCTTGCTTCTACCCGTCCCGATC 108595 29 100.0 32 ............................. GCGGTTTTATTCGGCAGGGCATTGAATTTAAT 108534 29 100.0 32 ............................. AATTATCTATTTTTCTGGCCCGTTTTCAATGC 108473 29 100.0 32 ............................. CCCGCGTTTTGCGTCAGCATATAGCCAATATG 108412 29 100.0 32 ............................. GCTTTGCATACGTCACTCATAGACAAATCACG 108351 29 100.0 32 ............................. CGATTCTGGTAACGTCGCTGTACTGCCTGACA 108290 29 100.0 32 ............................. GGCGCATGAAACAACCGGCGGGGATCTCTATT 108229 29 100.0 32 ............................. ACAGCGTTAAAATGACGCCCGACGTTGTGGTG 108168 29 100.0 32 ............................. AGGGCTAACACATCACCATTATTACCAAATTC 108107 29 100.0 32 ............................. GACATTGCCCGCTGGGATGCGCGGCAACTGGA 108046 29 100.0 32 ............................. AATTGCCTTTGCTGCCCGGCTCTTCTACGGTC 107985 29 100.0 32 ............................. AGATGAATAACGCGATTTACGAGGTTACGTAT 107924 29 100.0 32 ............................. ATTAAATACCTGGAAAAATACCCCAAAGGGGC 107863 29 100.0 32 ............................. AAAAATAGCGATAACGCGCCAGATCGTGAGGT 107802 29 100.0 32 ............................. TCATTTTTTATTTTCACGTTCGGCTTTCTCAC 107741 29 100.0 32 ............................. TTAAATCGACCTACCTGTTAAACGCGTCAATG 107680 29 100.0 32 ............................. TTCGCAGTAACAGTGTCGTTTTTATAACCGAC 107619 29 100.0 32 ............................. GCGGCATTAATGCGGGATTGTGTTTTCTGAGC 107558 29 100.0 32 ............................. ACGGCAGAAACAATGGCGTCAGTAGCTCAGGA 107497 29 100.0 33 ............................. CAGTCAATGAGACTTTTCACACTGATAATGTTG 107435 29 100.0 32 ............................. CCCCTATTCCTGATCATCGCGCATTTGGCGGC 107374 29 100.0 32 ............................. ACCACCACGTAGCCGTAGGCTGTCGCCAGTTG 107313 29 100.0 32 ............................. GAATTACGTTGCGAACAGCGCGGCGAGAGACG 107252 29 100.0 32 ............................. CGGATTGCATTCAATAAACATGTAAATAGGAA 107191 29 100.0 32 ............................. TTACCGACACCTGCGTGGCTAGCGTTTTTTCG 107130 29 100.0 32 ............................. CCAAAAACATTGAGTGCTTCTTGTACGTTCAT 107069 29 100.0 32 ............................. CCTGCGTGCGTGCAACGGGTAACTAAGGGGAA 107008 29 100.0 32 ............................. CATTGGGTAATTATATTCGCAATTTAAGCGAT 106947 29 100.0 32 ............................. ATATTTTAAACCAGACTGACGCGATGATCGTT 106886 29 100.0 32 ............................. CCATCAAAGCTGCTGCGCTGGTGGCATAACCC 106825 29 100.0 32 ............................. ACTACGCGGCATGGCTGAACCCCGGATTCAAG 106764 29 100.0 32 ............................. CCCCAGGCGGTGCCTACGTCGGATGAAGAGCC 106703 29 100.0 32 ............................. CCGTGGAAAGAACCAGAGCGTTGGTTATTGGT 106642 29 100.0 32 ............................. CTCCCAAACCTCTACAGCGCTACCAACAGGAA 106581 29 100.0 33 ............................. GATCGCCCACCGGCATAAACGCGATAGCCGCGT 106519 29 100.0 32 ............................. CTGTTCCCGATCGCTTTATATCGGGGGCCATC 106458 29 100.0 32 ............................. TACCAGACGGACAGCTACGATACCGCTGACGA 106397 29 100.0 32 ............................. GCAGTACTGGCTCTAAATTTAAAACTGGTCAG 106336 29 100.0 32 ............................. TGGCCCACGTGCGCGGAGACGGCAACCGGTTC 106275 29 100.0 32 ............................. TCTCGACGCCAGATTTAATATTAATTCCCGCA 106214 29 100.0 32 ............................. CAGACGTAGAGATTGAGAACACAAATGACTCA 106153 29 100.0 32 ............................. GATTGCTCAGATTGGGAATTTGACCAGCGACC 106092 29 96.6 32 ........................G.... ACTATTTTTCAGGTGAATTACAGCGCCGCAAC 106031 29 100.0 33 ............................. GCGAAAAATTGACGCTATCAGGGAGAGCGCCGG 105969 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 105908 29 100.0 32 ............................. GCCGTGAACGCGTCGCCCGCTTTTTTGTAGCA 105847 29 96.6 0 ............T................ | A [105820] ========== ====== ====== ====== ============================= ================================= ================== 49 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCCCTGGGGGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTAGTCACGGAAAACGTACCGCCGCGCCTGCGGGGTCGCCTTGCCGTCTGGTTACTGGAGATTCGTGCCGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATTTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTTTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-70.0]%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 126411-125038 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAIQEP010000002.1 Salmonella enterica strain L3-31 contig00002, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 126410 29 100.0 32 ............................. ATTAAATTTTCGGGAACGGCGACGGAATCCGG 126349 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 126288 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 126227 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 126166 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 126105 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 126043 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 125982 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 125921 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 125860 29 100.0 32 ............................. AACCCGGCAGCAGGGGTAATTCATACAGCATA 125799 29 100.0 32 ............................. ATTTGGTGAAGGGCGCATTTGAGGACCCGTTA 125738 29 96.6 32 ............T................ CTTGCAGCCGAATACGGTATAGAGTGGGACGG 125677 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 125615 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 125554 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 125493 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 125431 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 125370 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 125309 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 125248 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 125187 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 125126 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 125065 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 23 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCATGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCACTGCCGATTGGC # 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 : 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], //