Array 1 1206-17 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDKD01000016.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM205, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1205 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 1144 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 1083 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 1022 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 961 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 900 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 839 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 777 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 716 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 655 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 594 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 533 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 472 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 411 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 350 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 289 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 228 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 167 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 106 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 45 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 20 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GAAAATGCAGGTGGGGT # 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: 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: F [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [13.3-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 5322-6814 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDKD01000161.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM205, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 5322 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 5383 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 5444 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 5505 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 5566 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 5627 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 5688 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 5749 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 5810 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 5871 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 5932 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 5993 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 6054 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 6115 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 6176 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 6237 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 6299 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 6360 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 6421 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 6482 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 6543 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 6604 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 6665 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 6726 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 6787 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: 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 [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 28957-27969 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDKD01000115.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM205, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 28956 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 28895 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 28834 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 28773 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 28712 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 28650 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 28547 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 28486 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 28425 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 28364 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 28303 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 28242 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 28181 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 28120 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 28059 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 27998 29 96.6 0 A............................ | A [27971] ========== ====== ====== ====== ============================= ========================================================================== ================== 16 29 99.6 35 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GGATAAACCGACGCCCCGAATGTGTTTGCCTCGCCCGCTGC # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.05 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.18, 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-25.0]%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], //