Array 1 107998-106216 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHGJ01000013.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N45405 N45405_contig_13, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107997 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 107936 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 107875 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 107814 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 107753 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 107691 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 107630 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 107569 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 107508 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 107447 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 107386 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 107325 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 107264 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 107203 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 107142 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 107081 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 107020 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 106959 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106897 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106794 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106733 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106672 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106611 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106550 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106489 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106428 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106367 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106306 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106245 29 96.6 0 A............................ | A [106218] ========== ====== ====== ====== ============================= ========================================================================== ================== 29 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.09, 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 [3-0] 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], // Array 2 125623-124130 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHGJ01000013.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N45405 N45405_contig_13, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 125622 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 125561 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 125500 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 125439 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 125378 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 125317 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 125256 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 125195 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 125134 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 125073 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 125012 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 124951 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 124890 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 124829 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 124768 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 124707 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 124645 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 124584 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 124523 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 124462 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 124401 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 124340 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 124279 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 124218 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 124157 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], //