Array 1 55-2019 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIC01000085.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM213, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 55 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 116 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 177 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 238 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 299 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 360 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 421 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 483 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 544 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 605 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 666 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 727 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 788 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 849 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 910 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 971 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 1032 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 1093 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 1154 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 1215 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 1276 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 1338 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 1399 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [1441] 1441 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 1502 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 1563 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 1624 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 1685 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 1746 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 1807 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1868 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 1929 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1990 29 96.6 0 A............................ | A [2016] ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGTG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:-0.04, 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [1-13] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [66.7-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 17227-16222 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIC01000061.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM213, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 17226 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 17165 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 17104 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 17043 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 16982 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 16921 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 16860 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 16799 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 16737 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 16676 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 16615 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 16554 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 16493 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 16432 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 16371 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 16310 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 16249 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 17 29 97.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCCCCGCGCCAGCGGGGATAAACCGTTTTGATACGTAGTATTCATTACGCCTCCTAGGTGTTCCCCGCGCCAGCGGGGATAAACCGGCGAGGTCAATAAAAAATGGTGTGGCTTTACCGTGTTCCCCGCGCCAGCGGGGATAAACCGCCGGCATCAGCGCCGATCCGTTCATAGTGCCCGTGTTCCCCGCGCCAGCGGGGATAAACCGAAAAAACAGAAGAACGGCAAGCGGCACCTCAAGTGTTCCCCGCGCCAGCGGGGATAAACCGCGTCAGCGCGGTATTGAGGCCGGGGACCGCCCGTGTTCCCCGCGCCAGCGGGGATAAACCGAACAGGAACAGGAAAAAAAAGATTTGTCCGGTGTGTTCCCCGCGCCAGCGGGGAWKAACCGCAYATCTTTTTTTTCCTGTTCCTGTTCGGTTTATCCCCGCTGGCGCGGGGAACACGGGCGGTCCCCGGCCTCAATACCGCGCTGACGCGGTTTATCCCCGCTGGCGATT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.87, 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 [8-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-33.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 17731-17397 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIC01000061.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM213, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 17730 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 17669 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 17608 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 17547 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 17486 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 17425 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 6 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : AACAGGAACAGGAAAAAAAAGATTTGTCCGGTGTGTTCCCCGCGCCAGCGGGGAWKAACCGCAYATCTTTTTTTTCCTGTTCCTGTTCGGTTTATCCCCGCTGGCGCGGGGAACACGGGCGGTCCCCGGCCTCAATACCGCGCTGACGCGGTTTATCCCCGCTGGCGATTGTGTTCCCCGCGCTAGCGGGGATAAACCGATGCCGGAACGCTGATGGCGTTTGACATGAGCGTGTTCCCCGCGCCAGCGGGGATAAACCGAATTATTTCTGTGGCTGGGGTTTCGATTCGATGTGTTCCCCGCGCCAGCGGGGATAAACCGTGACGCTGGTCTATACCGGCAACGAACGCGACGTGTTCCCCGCGCCAGCGGGGATAAACCGTTGACGGTGACGTCAGTGCCGAAGGCGAAATAGTGTTCCCCGCGCCAGCGGGGATAAACCGCCAGCTTACGCTATTTACGACGTTATTGAGCAGTGTTCCCCGCGCCAGCAGGGATAA # 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [45.0-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //