Array 1 108502-105541 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAIQEQ010000003.1 Salmonella enterica strain L3-27 contig00003, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 108501 29 100.0 32 ............................. CCCCACAAATCACTGGTCGATTTCGTCGCACG 108440 29 100.0 32 ............................. GTTGCGACTAAACCGGACCAGCGCCCGCCCAC 108379 29 100.0 32 ............................. CCAGTGCTCGCTTGCTTCTACCCGTCCCGATC 108318 29 100.0 32 ............................. GCGGTTTTATTCGGCAGGGCATTGAATTTAAT 108257 29 100.0 32 ............................. AATTATCTATTTTTCTGGCCCGTTTTCAATGC 108196 29 100.0 32 ............................. CCCGCGTTTTGCGTCAGCATATAGCCAATATG 108135 29 100.0 32 ............................. GCTTTGCATACGTCACTCATAGACAAATCACG 108074 29 100.0 32 ............................. CGATTCTGGTAACGTCGCTGTACTGCCTGACA 108013 29 100.0 32 ............................. GGCGCATGAAACAACCGGCGGGGATCTCTATT 107952 29 100.0 32 ............................. ACAGCGTTAAAATGACGCCCGACGTTGTGGTG 107891 29 100.0 32 ............................. AGGGCTAACACATCACCATTATTACCAAATTC 107830 29 100.0 32 ............................. GACATTGCCCGCTGGGATGCGCGGCAACTGGA 107769 29 100.0 32 ............................. AATTGCCTTTGCTGCCCGGCTCTTCTACGGTC 107708 29 100.0 32 ............................. AGATGAATAACGCGATTTACGAGGTTACGTAT 107647 29 100.0 32 ............................. ATTAAATACCTGGAAAAATACCCCAAAGGGGC 107586 29 100.0 32 ............................. AAAAATAGCGATAACGCGCCAGATCGTGAGGT 107525 29 100.0 32 ............................. TCATTTTTTATTTTCACGTTCGGCTTTCTCAC 107464 29 100.0 32 ............................. TTAAATCGACCTACCTGTTAAACGCGTCAATG 107403 29 100.0 32 ............................. TTCGCAGTAACAGTGTCGTTTTTATAACCGAC 107342 29 100.0 32 ............................. GCGGCATTAATGCGGGATTGTGTTTTCTGAGC 107281 29 100.0 32 ............................. ACGGCAGAAACAATGGCGTCAGTAGCTCAGGA 107220 29 100.0 33 ............................. CAGTCAATGAGACTTTTCACACTGATAATGTTG 107158 29 100.0 32 ............................. CCCCTATTCCTGATCATCGCGCATTTGGCGGC 107097 29 100.0 32 ............................. ACCACCACGTAGCCGTAGGCTGTCGCCAGTTG 107036 29 100.0 32 ............................. GAATTACGTTGCGAACAGCGCGGCGAGAGACG 106975 29 100.0 32 ............................. CGGATTGCATTCAATAAACATGTAAATAGGAA 106914 29 100.0 32 ............................. TTACCGACACCTGCGTGGCTAGCGTTTTTTCG 106853 29 100.0 32 ............................. CCAAAAACATTGAGTGCTTCTTGTACGTTCAT 106792 29 100.0 32 ............................. CCTGCGTGCGTGCAACGGGTAACTAAGGGGAA 106731 29 100.0 32 ............................. CATTGGGTAATTATATTCGCAATTTAAGCGAT 106670 29 100.0 32 ............................. ATATTTTAAACCAGACTGACGCGATGATCGTT 106609 29 100.0 32 ............................. CCATCAAAGCTGCTGCGCTGGTGGCATAACCC 106548 29 100.0 32 ............................. ACTACGCGGCATGGCTGAACCCCGGATTCAAG 106487 29 100.0 32 ............................. CCCCAGGCGGTGCCTACGTCGGATGAAGAGCC 106426 29 100.0 32 ............................. CCGTGGAAAGAACCAGAGCGTTGGTTATTGGT 106365 29 100.0 32 ............................. CTCCCAAACCTCTACAGCGCTACCAACAGGAA 106304 29 100.0 33 ............................. GATCGCCCACCGGCATAAACGCGATAGCCGCGT 106242 29 100.0 32 ............................. CTGTTCCCGATCGCTTTATATCGGGGGCCATC 106181 29 100.0 32 ............................. TACCAGACGGACAGCTACGATACCGCTGACGA 106120 29 100.0 32 ............................. GCAGTACTGGCTCTAAATTTAAAACTGGTCAG 106059 29 100.0 32 ............................. TGGCCCACGTGCGCGGAGACGGCAACCGGTTC 105998 29 100.0 32 ............................. TCTCGACGCCAGATTTAATATTAATTCCCGCA 105937 29 100.0 32 ............................. CAGACGTAGAGATTGAGAACACAAATGACTCA 105876 29 100.0 32 ............................. GATTGCTCAGATTGGGAATTTGACCAGCGACC 105815 29 96.6 32 ........................G.... ACTATTTTTCAGGTGAATTACAGCGCCGCAAC 105754 29 100.0 33 ............................. GCGAAAAATTGACGCTATCAGGGAGAGCGCCGG 105692 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 105631 29 100.0 32 ............................. GCCGTGAACGCGTCGCCCGCTTTTTTGTAGCA 105570 29 96.6 0 ............T................ | A [105543] ========== ====== ====== ====== ============================= ================================= ================== 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 126134-124761 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAIQEQ010000003.1 Salmonella enterica strain L3-27 contig00003, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 126133 29 100.0 32 ............................. ATTAAATTTTCGGGAACGGCGACGGAATCCGG 126072 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 126011 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 125950 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 125889 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 125828 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 125766 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 125705 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 125644 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 125583 29 100.0 32 ............................. AACCCGGCAGCAGGGGTAATTCATACAGCATA 125522 29 100.0 32 ............................. ATTTGGTGAAGGGCGCATTTGAGGACCCGTTA 125461 29 96.6 32 ............T................ CTTGCAGCCGAATACGGTATAGAGTGGGACGG 125400 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 125338 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 125277 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 125216 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 125154 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 125093 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 125032 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 124971 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 124910 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 124849 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 124788 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], //