Array 1 95780-97272 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDJN01000008.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM31, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 95780 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 95841 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 95902 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 95963 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 96024 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 96085 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 96146 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 96207 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 96268 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 96329 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 96390 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 96451 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 96512 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 96573 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 96634 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 96695 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 96757 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 96818 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 96879 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 96940 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 97001 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 97062 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 97123 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 97184 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 97245 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 82-2046 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDJN01000017.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM31, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 82 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 143 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 204 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 265 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 326 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 387 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 448 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 510 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 571 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 632 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 693 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 754 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 815 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 876 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 937 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 998 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 1059 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 1120 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 1181 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 1242 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 1303 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 1365 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 1468 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 1529 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 1590 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 1651 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 1712 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 1773 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 1834 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1895 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 1956 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 2017 29 96.6 0 A............................ | A [2043] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGTG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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: F [71.7-48.3]%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], //