Array 1 3105607-3103642 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037881.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain PNCS009991 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3105606 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 3105545 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3105484 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 3105423 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 3105362 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 3105301 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 3105240 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3105178 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3105117 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 3105056 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 3104995 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3104934 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3104873 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3104812 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3104751 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3104690 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3104629 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3104568 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3104507 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3104446 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3104385 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3104323 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3104220 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3104159 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3104098 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3104037 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3103976 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3103915 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3103854 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3103793 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3103732 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3103671 29 96.6 0 A............................ | A [3103644] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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 [3-1] 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 3123231-3121738 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037881.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain PNCS009991 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3123230 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3123169 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3123108 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3123047 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 3122986 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 3122925 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3122864 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3122803 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3122742 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3122681 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3122620 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3122559 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3122498 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3122437 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3122376 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 3122315 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3122253 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3122192 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3122131 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3122070 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3122009 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3121948 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3121887 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3121826 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3121765 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], //