Array 1 4-1234 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDJA01000103.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM160, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 4 29 100.0 31 ............................. CTACGTTCGGCGATGTTGTTGCATTAGATTC 64 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 125 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 186 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 247 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 308 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 369 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 430 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 491 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 553 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 656 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 717 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 778 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 839 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 900 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 961 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 1022 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1083 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 1144 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1205 29 96.6 0 A............................ | A [1231] ========== ====== ====== ====== ============================= ========================================================================== ================== 20 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AACG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.13, 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 [1-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [3.3-48.3]%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 3019-1526 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDJA01000164.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM160, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3018 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 2957 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 2896 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 2835 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 2774 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 2713 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 2652 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 2591 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 2530 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 2469 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 2408 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 2347 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 2286 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 2225 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 2164 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 2103 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 2041 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 1980 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 1919 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 1858 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 1797 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 1736 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 1675 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 1614 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 1553 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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 8960-9965 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDJA01000143.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM160, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 8960 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 9021 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 9082 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 9143 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 9204 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 9265 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 9326 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 9388 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 9449 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 9510 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 9571 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 9632 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 9693 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 9754 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 9815 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 9876 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 9937 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 17 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TGGA # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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 [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-3.3]%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], //