Array 1 161-2125 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIY01000080.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM122, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 161 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 222 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 283 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 344 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 405 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 466 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 527 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 589 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 650 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 711 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 772 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 833 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 894 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 955 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 1016 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 1077 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 1138 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 1199 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 1260 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 1321 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 1382 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 1444 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 1547 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 1608 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 1669 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 1730 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 1791 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 1852 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 1913 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1974 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 2035 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 2096 29 96.6 0 A............................ | A [2122] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGTG # 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], // Array 1 7830-6337 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIY01000231.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM122, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 7829 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 7768 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 7707 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 7646 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 7585 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 7524 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 7463 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 7402 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 7341 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 7280 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 7219 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 7158 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 7097 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 7036 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 6975 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 6914 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 6852 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 6791 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 6730 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 6669 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 6608 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 6547 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 6486 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 6425 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 6364 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], //