Array 1 2912406-2910424 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKH01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03694 2014LSAL03694_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2912405 29 100.0 32 ............................. TTGAGGTTTGCGTTGAGCCTGTTCAGCATCAC 2912344 29 96.6 32 ............................C GCTGACTCTGCGGCGGATCTTCTCAACCAGTC 2912283 29 100.0 32 ............................. CCTAGAAAAGTTTGTTTAGGCAATCAAGCCCC 2912222 29 100.0 32 ............................. GTGTTAATTAATGAGTTTATTCCGTTTTAACA 2912161 29 100.0 32 ............................. AAATTTGGTTGACAGTAAAAGAGTGTGTCGGT 2912100 29 100.0 32 ............................. TCGGCTCGAGCACTTGCGACAACAAACACACG 2912039 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 2911978 29 96.6 32 ..C.......................... ATATGAGGCAGCTCGCTGGCGGCTGGGATGGT 2911917 29 100.0 32 ............................. CCGTTTTTTTCCCACAGTTTGCCACCGAGACG 2911856 29 100.0 32 ............................. TTAAGTCGCTCTTTGTACGCTACACCGGAGGC 2911795 29 100.0 32 ............................. AAATATCCAGAGCTGGGCTTGAGGCTGACGGT 2911734 29 100.0 32 ............................. TAATTGACATACATTCACCATATTAAGGAAGA 2911673 29 100.0 32 ............................. CCATGCGCGGCGGCGCTTGCCCAGCTCAGAAA 2911612 29 100.0 32 ............................. GTAGTCTTCATATGCAGCGACATCATTGCCGA 2911551 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 2911490 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 2911429 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 2911368 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 2911307 29 100.0 32 ............................. GACCTATCAGCCTAATTTCCGGGGCAAGAGCT 2911246 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 2911185 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 2911124 29 100.0 32 ............................. GCGTTTATTTTTGATTTGTTATTTGGACGTTA 2911063 29 100.0 32 ............................. TTCCGGTCCTGCCCACTATTCGACAAAATCAG 2911002 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 2910941 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 2910880 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 2910819 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 2910758 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 2910697 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 2910636 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 2910575 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 2910514 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 2910453 29 96.6 0 A............................ | A [2910426] ========== ====== ====== ====== ============================= ================================ ================== 33 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCCCCTCAGCCTGCGTCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTCAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 [2-2] 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 2 2930342-2928664 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKH01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03694 2014LSAL03694_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2930341 29 100.0 32 ............................. AGCGCCGATCCGGTGGTGTCCAACACAACGAA 2930280 29 100.0 32 ............................. GCTTCTGATTGCATTAGCTCCAAATCAGTACC 2930219 29 100.0 32 ............................. GCGTCAGGCGTGGTGGCCGTGATTACGGACGA 2930158 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 2930097 29 100.0 32 ............................. GGCTAACCCATGAACACTATTACCAAATTCAC 2930036 29 100.0 32 ............................. GTTGCCGCCCTTACTGCGCGAGGCGTTGGAAC 2929975 29 100.0 32 ............................. GAGGGGCCGTCTGCCGCATATCAAACGCTATC 2929914 29 100.0 32 ............................. CAACACGAAAGAAAAAATACTCAATATTATTG 2929853 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 2929792 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 2929731 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 2929670 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 2929609 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 2929547 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 2929486 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 2929425 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 2929364 29 100.0 32 ............................. CTTGCAGCCGAATACGGTATAGAGTGGGACGG 2929303 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 2929241 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 2929180 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 2929119 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 2929057 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 2928996 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 2928935 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 2928874 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 2928813 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 2928752 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 2928691 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 28 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [6-0] 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], //