Array 1 8625-7255 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDHZ01000174.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM46, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 8624 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 8563 29 100.0 31 ............................. GCGAGGTCAATAAAAAATGGTGTGGCRTRAK 8503 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 8442 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 8381 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 8320 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 8259 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 8198 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 8137 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 8076 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 8015 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 7954 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 7893 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 7832 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 7770 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 7709 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 7648 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 7587 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 7526 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 7465 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 7404 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 7343 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 7282 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 23 29 98.1 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 [9-1] 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], // Array 1 162618-160836 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDHZ01000010.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM46, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 162617 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 162556 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 162495 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 162434 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 162372 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 162311 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 162250 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 162189 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 162128 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 162067 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 162006 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 161945 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 161884 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 161823 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 161762 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 161701 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 161640 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 161579 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 161517 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 161414 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 161353 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 161292 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 161231 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 161170 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 161109 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 161048 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 160987 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 160926 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 160865 29 96.6 0 A............................ | A [160838] ========== ====== ====== ====== ============================= ========================================================================== ================== 29 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CGGGGAACACCAATCTCGCATTCGTTACCCCACCTGCATTTTCGGTTTATCCCCGCTGGCGCGGGGAACACGAGGGGATAGGAGTTACGATCCAGCCTGGTTGCGGTTTATCCCCGCTGGCGGGCTGATTGGTCTGCAACCA # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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: F [50.0-40.0]%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 8933-9266 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDHZ01000063.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM46, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 8933 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 8994 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 9055 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 9116 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 9177 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 9238 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 6 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : CCATTATTCAACCCTCCAGGCTCGCGCCGGCTGTGTTC # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-25.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0.41 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //