Array 1 152745-150780 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDKX01000005.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM116, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 152744 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 152683 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 152622 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 152561 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 152500 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 152439 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 152378 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 152316 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 152255 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 152194 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 152133 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 152072 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 152011 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 151950 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 151889 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 151828 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 151767 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 151706 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 151645 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 151584 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 151523 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 151461 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 151358 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 151297 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 151236 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 151175 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 151114 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 151053 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 150992 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 150931 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 150870 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 150809 29 96.6 0 A............................ | A [150782] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 170003-168876 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDKX01000005.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM116, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 170002 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 169941 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 169880 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 169819 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 169758 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 169697 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 169636 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 169575 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 169514 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 169453 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 169391 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 169330 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 169269 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 169208 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 169147 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 169086 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 169025 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 168964 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 168903 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 19 29 97.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCGCGGTTTATCCCCGCTGGCGCGGGGAACACAGGAACTAAACAGCCTGACCGTTGCGTATCTGCGGTTTATCCCCGCTGGCGCGGGGAACACACCGGACAAATCTTTTTTTMCCMGTTDCVGTCCCGTGTTCCCCGCGCCAGCGGGGATAAACCGAACAGGAACAGGAAAAAAAAGATTTGTCCGG # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 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 [63.3-48.3]%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 1 5505-6204 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDKX01000122.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM116, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 5505 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 5566 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 5627 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 5688 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 5749 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 5810 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 5871 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 5932 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 5993 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 6054 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 6115 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 6176 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 12 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : CCAGCTTACGCTATTTACG # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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: 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-16.7]%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], //