Array 1 21667-18036 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAJYCA010000068.1 Salmonella enterica isolate 0289_15, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 21666 29 100.0 32 ............................. AGTTACTTTTTTCATCGTTTAGTCCATTAAAA 21605 29 100.0 32 ............................. ATACTCATTGAGCACATCTTCCAGCTGCCGCG 21544 29 100.0 32 ............................. ACAACTTATACTTAAACAATGGCATAGAAACC 21483 29 100.0 32 ............................. CTGGGCAAATGCGGCCACGGCGGACCATTTCC 21422 29 100.0 32 ............................. CGCCGCTGGGGTTTGCGTTGTTTCTCGCTAAG 21361 29 100.0 32 ............................. CCGGTCATTTGACCGGCTGCATTTCTCACATG 21300 29 100.0 32 ............................. CGGTTGCTGTCGTTGACGGCGTCGCGGTACAT 21239 29 100.0 32 ............................. CGGTTGCTGTCGTTGACGGCGTCGCGGTACAT 21178 29 100.0 32 ............................. TTAGCGATGGCGCTGCAATGCTCTCCTACCTG 21117 29 100.0 32 ............................. ATTGTAGTTAGCCCTGCCCTGTAGGGCATGGT 21056 29 100.0 32 ............................. ATTACCCCTGAATTAGTCCACGACAAAATACC 20995 29 100.0 32 ............................. ATTATAAATTCGGTTAGTGACGTCGTCTTTTA 20934 29 100.0 33 ............................. GAGGTCAGCGCGGCACAGCGTATCAAAGGCGAC 20872 29 100.0 33 ............................. TGATCGGCTTGATACTGACGCACTAAAACAGGC 20810 29 100.0 32 ............................. CACGGTCTGTGCCCGTTCGGCGTTGTTGGCGA 20749 29 100.0 32 ............................. CTATTTTAATTTGCTCTATGTTTGTGCTTGCC 20688 29 100.0 32 ............................. AGGCCGAACCGAAACCCCAAAAAGTTAAGCGC 20627 29 100.0 32 ............................. TTGGCCCCCGTAAAATTATTGTGGCTAACAGC 20566 29 100.0 32 ............................. TGTTCCGATGCAGCGCTTACAACGATGGGGAG 20505 29 100.0 32 ............................. GCGTGTCAGATGAAATGACGCGGGTTAGCGCC 20444 29 100.0 32 ............................. AAAACCAGGCTAAAGCCCGTGTATATCTGGAC 20383 29 100.0 32 ............................. AGAGATATTTTGACCTGGGCAGCAAGAGCAGG 20322 29 100.0 32 ............................. CCTGCCAGCGTTGCTCGTTGAAGTTGAATTTT 20261 29 100.0 32 ............................. ATAGCCCTTAGCTCCGCCACTAACATACCTAT 20200 29 100.0 32 ............................. CGGCCCGCGTTGGTTATGAAGAAAAGCACTAC 20139 29 100.0 32 ............................. CGCACGATTCCATCACCTAAAAACGACCACTT 20078 29 100.0 32 ............................. GGGAATGCCCCATTTGCAAGCGTCGCGGAAAA 20017 29 100.0 32 ............................. GCGGGACCGGAGGCGCAAGTGGTGGCGCTTTA 19956 29 100.0 32 ............................. CACCCTGTAAAAATAAATTACTGCCCGTTTTG 19895 29 100.0 32 ............................. CTTGTTTCTTCTAATCTCTTTTCGCGTTGGTA 19834 29 100.0 32 ............................. CGAACAGATCGCTGCAACCGAAACCCCGCCCA 19773 29 100.0 32 ............................. AAGCACACATGCGCGCGAAGGGTGGACGAGGA 19712 29 100.0 32 ............................. AGTCGGGAACACCTGCGAGTCGCAAGGCGTAT 19651 29 100.0 32 ............................. TAGACGCGACATCACCAGGCGGTATCACGCAC 19590 29 100.0 32 ............................. ACATAAACGGACGCGTGGGGATCCGAATTTTT 19529 29 100.0 32 ............................. ACATAAACGGACGCGCGGGGATCCGAATTTTT 19468 29 100.0 32 ............................. GTGAACGCGCAGAATATAGATGGGGACATTAC 19407 29 100.0 32 ............................. TGAGCCCCGCTGCGTCTGCGTCGTATTCGGCT 19346 29 100.0 32 ............................. CACGCCCTGCTCGTCGTTGTTAATACGCGGGC 19285 29 100.0 32 ............................. AGTGAATTTTGCGACAGGCTGCGTTTCTCGCG 19224 29 100.0 32 ............................. CCCCGTGCGGCGTTTTTAAGTTGCCGTCAGAT 19163 29 100.0 32 ............................. GCGTTTGAATCCTCCTGGTGGCGTATGCAGGG 19102 29 96.6 32 ..........T.................. GCCCGAGACACCCGCGCGTTATTTTTGAACCT 19041 29 100.0 32 ............................. GTCGAGATCCCGACCTTTTGCCCACTCGAATC 18980 29 100.0 32 ............................. CGCATAAAATCTATGCGGTTTTACGCCATTAT 18919 29 100.0 32 ............................. CTGTGCGATTGCCGGATAACCCTGCGCAAGAA 18858 29 100.0 32 ............................. CCGACGGCGCGTAAATTGCTGGCCGGCAACCC 18797 29 100.0 32 ............................. GGATACTGAATTTTCCGAATTTAACCAAAACA 18736 29 100.0 32 ............................. CATTAATCCCAGCGGGCCGACTACCCCCACCA 18675 29 100.0 32 ............................. ATGGTAAATATGAATTTAATGTTTATCCTGGA 18614 29 100.0 32 ............................. GATTACAGAATGAAAAATTTAGCTTTTGCACT 18553 29 100.0 32 ............................. CAGATACGTATTTTGATCACCTGTTGCGGCCT 18492 29 100.0 32 ............................. ACGCGCCAGCCAACAATATTAATTTTGTCGCC 18431 29 100.0 32 ............................. CAGACAGTAAAAGTGAGGCAGCAGGGCGGAGC 18370 29 96.6 32 .............T............... ACTATTAACAATCTAGCGGGCGGTGAATGTGG 18309 29 96.6 32 .............T............... GTCAACGAGGGATTGAATTGGTGGTGTATTGG 18248 29 96.6 32 .............T............... AAAATTATTATTTTTGCAACTGCAATTCTGCT 18187 29 100.0 32 ............................. CCCGTTGAAGATCTGGACGCATGGGGCAAAGC 18126 29 100.0 32 ............................. GTGAGCTCGGTTTTAATTTCGTCGCTAAGGTG 18065 29 100.0 0 ............................. | A [18038] ========== ====== ====== ====== ============================= ================================= ================== 60 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAATTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGTTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGATAGATTTAGA # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCTATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGTGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: R [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-73.3]%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 39156-38213 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAJYCA010000068.1 Salmonella enterica isolate 0289_15, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 39155 29 100.0 32 ............................. GACCCATTAAAATGGCGTATATGTCGCCTTTT 39094 29 100.0 32 ............................. CGGCTGCTCTCGCCGTCACCGTCGTCGAGGCA 39033 29 100.0 32 ............................. CCTTCCTGGCTGACGCATACAAAACAATTTCC 38972 29 100.0 32 ............................. CGCAGAAACGCGCGGTAATTAAAGCGGCAGCC 38911 29 96.6 32 .........T................... CAGATTGACATTAACGCCACGATAATTGAACG 38850 29 100.0 32 ............................. CCCCGCACTGGCGAGGCTGATTAGTTAGTTGA 38789 29 100.0 32 ............................. CCATGCTGTTGATGTCGGCATTATCGGATGCG 38728 29 100.0 32 ............................. CGGGCGAGCGCTATGCCGTTCCGCGACCTCCT 38667 29 100.0 32 ............................. ATTATCTTTCCAGCATACGTTAATGACGTAGA 38606 29 96.6 32 ............................T TCTAGTCTCTCTTGAATAAATTTGAGTATTGC 38545 29 100.0 32 ............................. TATTTATTTTAATTTTTCGTGCATGGGTGAGA 38484 29 100.0 32 ............................. AATGGGATGTTCTCGATAATGGCGACGACGAA 38423 29 100.0 32 ............................. ACTGGCCGCAACCTTGTCGTCTTTCATTTTAG 38362 29 100.0 32 ............................. TAAAAACGCACGCATTCATTCAGAAAAAGAAT 38301 29 100.0 32 ............................. AAAATCCGCGACATCATCGCGGATGTATGGGG 38240 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 16 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGCGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCATTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGACAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCATGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [5-1] 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], //