Array 1 2028-63 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDKA01000084.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM126, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 2027 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 1966 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 1905 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 1844 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 1783 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 1722 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 1661 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 1599 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 1538 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 1477 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 1416 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 1355 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 1294 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 1233 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 1172 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 1111 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 1050 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 989 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 928 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 867 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 806 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 744 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 641 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 580 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 519 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 458 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 397 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 336 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 275 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 214 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 153 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 92 29 96.6 0 A............................ | A [65] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATT # 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 1 8132-7493 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDKA01000162.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM126, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 8131 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 8070 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 8008 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 7947 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 7886 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 7825 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 7764 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 7703 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 7642 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 7581 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 7520 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 11 29 96.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AGGCTATGCGGTTGTTTATCGG # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 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 [6-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-20.0]%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 1 1270-20 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDKA01000168.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM126, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1269 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 1208 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 1147 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 1086 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 1025 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 964 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 903 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 842 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 781 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 720 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 659 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 598 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 537 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 476 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 415 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 354 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 292 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 231 29 96.6 32 ..........T.................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 170 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 109 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 48 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 21 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GCAGGTTATGCGCAAAAATT # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [20.0-70.0]%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], //