Array 1 3086062-3084219 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039561.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014847 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3086061 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 3086000 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3085939 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 3085878 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 3085817 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 3085756 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 3085695 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3085633 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3085572 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 3085511 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 3085450 29 96.6 32 ..........................A.. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3085389 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3085328 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3085267 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3085206 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3085145 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3085084 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3085023 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3084962 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3084901 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3084840 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3084778 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3084675 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3084614 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3084553 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3084492 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3084431 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3084370 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3084309 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3084248 29 96.6 0 A............................ | A [3084221] ========== ====== ====== ====== ============================= ========================================================================== ================== 30 29 99.4 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.08, 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 [3-2] 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 [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 3103686-3102193 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039561.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014847 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3103685 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3103624 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3103563 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3103502 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 3103441 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 3103380 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3103319 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3103258 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3103197 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3103136 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3103075 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3103014 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3102953 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3102892 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3102831 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 3102770 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3102708 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3102647 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3102586 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3102525 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3102464 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3102403 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3102342 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3102281 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3102220 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [9-1] 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], //