Array 1 167767-165192 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHEX01000024.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N43831 N43831_contig_24, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 167766 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 167705 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 167644 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 167583 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 167522 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 167461 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 167400 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 167339 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 167278 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 167217 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 167156 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 167095 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 167034 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 166973 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 166912 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 166851 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 166789 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 166728 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 166667 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 166606 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 166545 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 166484 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 166423 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 166362 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 166301 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 166240 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 166179 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 166118 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 166057 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 165996 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 165935 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 165873 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 165770 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 165709 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 165648 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 165587 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 165526 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 165465 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 165404 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 165343 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 165282 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 165221 29 96.6 0 A............................ | A [165194] ========== ====== ====== ====== ============================= ========================================================================== ================== 42 29 99.1 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:-0.06, 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 [3-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-70.0]%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], // Array 1 16209-16357 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHEX01000061.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N43831 N43831_contig_61, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 16209 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 16270 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 16331 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================ ================== 3 29 97.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : | # Questionable array : NO Score: 5.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-0.0]%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], //