Array 1 3031900-3030118 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP012681.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 33676 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3031899 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 3031838 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3031777 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 3031716 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 3031655 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 3031594 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 3031533 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3031471 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3031410 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 3031349 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3031288 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3031227 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3031166 29 96.6 32 ................A............ ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3031105 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3031044 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3030983 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3030922 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3030861 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3030799 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3030696 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3030635 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3030574 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3030513 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3030452 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3030391 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3030330 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3030269 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3030208 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3030147 29 96.6 0 A............................ | A [3030120] ========== ====== ====== ====== ============================= ========================================================================== ================== 29 29 99.4 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.09, 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 3049524-3048031 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP012681.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 33676 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3049523 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3049462 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3049401 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3049340 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 3049279 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 3049218 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3049157 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3049096 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3049035 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3048974 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3048913 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3048852 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3048791 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3048730 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3048669 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 3048608 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3048546 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3048485 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3048424 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3048363 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3048302 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3048241 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3048180 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3048119 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3048058 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], //