Array 1 3022324-3020342 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCHN01000005.1 Salmonella enterica subsp. enterica serovar Derby strain 2015LSAL04332 2015LSAL04332_5, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 3022323 29 100.0 32 ............................. TTGAGGTTTGCGTTGAGCCTGTTCAGCATCAC 3022262 29 96.6 32 ............................C GCTGACTCTGCGGCGGATCTTCTCAACCAGTC 3022201 29 100.0 32 ............................. CCTAGAAAAGTTTGTTTAGGCAATCAAGCCCC 3022140 29 100.0 32 ............................. GTGTTAATTAATGAGTTTATTCCGTTTTAACA 3022079 29 100.0 32 ............................. AAATTTGGTTGACAGTAAAAGAGTGTGTCGGT 3022018 29 100.0 32 ............................. TCGGCTCGAGCACTTGCGACAACAAACACACG 3021957 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 3021896 29 96.6 32 ..C.......................... ATATGAGGCAGCTCGCTGGCGGCTGGGATGGT 3021835 29 100.0 32 ............................. CCGTTTTTTTCCCACAGTTTGCCACCGAGACG 3021774 29 100.0 32 ............................. TTAAGTCGCTCTTTGTACGCTACACCGGAGGC 3021713 29 100.0 32 ............................. AAATATCCAGAGCTGGGCTTGAGGCTGACGGT 3021652 29 100.0 32 ............................. TAATTGACATACATTCACCATATTAAGGAAGA 3021591 29 100.0 32 ............................. CCATGCGCGGCGGCGCTTGCCCAGCTCAGAAA 3021530 29 100.0 32 ............................. GTAGTCTTCATATGCAGCGACATCATTGCCGA 3021469 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 3021408 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 3021347 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 3021286 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 3021225 29 100.0 32 ............................. GACCTATCAGCCTAATTTCCGGGGCAAGAGCT 3021164 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 3021103 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 3021042 29 100.0 32 ............................. GCGTTTATTTTTGATTTGTTATTTGGACGTTA 3020981 29 100.0 32 ............................. TTCCGGTCCTGCCCACTATTCGACAAAATCAG 3020920 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 3020859 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 3020798 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 3020737 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 3020676 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 3020615 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 3020554 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 3020493 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 3020432 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 3020371 29 96.6 0 A............................ | A [3020344] ========== ====== ====== ====== ============================= ================================ ================== 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 3040260-3038582 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCHN01000005.1 Salmonella enterica subsp. enterica serovar Derby strain 2015LSAL04332 2015LSAL04332_5, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3040259 29 100.0 32 ............................. AGCGCCGATCCGGTGGTGTCCAACACAACGAA 3040198 29 100.0 32 ............................. GCTTCTGATTGCATTAGCTCCAAATCAGTACC 3040137 29 100.0 32 ............................. GCGTCAGGCGTGGTGGCCGTGATTACGGACGA 3040076 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 3040015 29 100.0 32 ............................. GGCTAACCCATGAACACTATTACCAAATTCAC 3039954 29 100.0 32 ............................. GTTGCCGCCCTTACTGCGCGAGGCGTTGGAAC 3039893 29 100.0 32 ............................. GAGGGGCCGTCTGCCGCATATCAAACGCTATC 3039832 29 100.0 32 ............................. CAACACGAAAGAAAAAATACTCAATATTATTG 3039771 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 3039710 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 3039649 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 3039588 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 3039527 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 3039465 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 3039404 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 3039343 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 3039282 29 100.0 32 ............................. CTTGCAGCCGAATACGGTATAGAGTGGGACGG 3039221 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 3039159 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 3039098 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 3039037 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 3038975 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 3038914 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 3038853 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 3038792 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 3038731 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 3038670 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 3038609 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], //