Array 1 16527-15095 **** Predicted by CRISPRDetect 2.4 *** >NZ_LIMN01000006.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CVM N43825 N43825_contig_6, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 16526 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 16465 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 16404 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 16343 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 16282 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 16221 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 16160 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 16099 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 16038 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 15977 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 15916 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 15855 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 15794 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 15733 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 15672 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 15610 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 15549 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 15488 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 15427 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 15366 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 15305 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 15244 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 15183 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 15122 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 24 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 [9-0] 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 107652-106175 **** Predicted by CRISPRDetect 2.4 *** >NZ_LIMN01000007.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CVM N43825 N43825_contig_7, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107651 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 107590 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 107528 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 107467 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 107406 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 107345 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 107284 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 107223 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 107162 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 107101 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 107040 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 106979 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 106918 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106856 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106753 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106692 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106631 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106570 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106509 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106448 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106387 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106326 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106265 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106204 29 96.6 0 A............................ | A [106177] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.11, 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: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //