Array 1 28-1809 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDKP01000010.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM192, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 28 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 89 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 150 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 211 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 273 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 334 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 395 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 456 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 517 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 578 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 639 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 700 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 761 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 822 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 883 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 944 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 1005 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 1066 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 1128 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 1231 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 1292 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 1353 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 1414 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 1475 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 1536 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 1597 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1658 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 1719 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1780 29 96.6 0 A............................ | A [1806] ========== ====== ====== ====== ============================= ========================================================================== ================== 29 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GGCGTAGCCAGCTCATCGCTATTTTGCG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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: 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [20.0-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 517-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDKP01000028.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM192, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 516 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 455 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 394 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 333 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 272 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 211 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 150 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 88 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 27 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================= ================== 9 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : C # 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: NA [1-1] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 17958-16648 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDKP01000028.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM192, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 17957 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 17896 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 17835 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 17774 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 17713 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 17652 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 17591 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 17530 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 17469 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 17408 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 17347 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 17286 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 17225 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 17163 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 17102 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 17041 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 16980 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 16919 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 16858 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 16797 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 16736 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 16675 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 22 29 98.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 [8-1] 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], //