Array 1 3052453-3050471 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCMC01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL01779 2014LSAL01779_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 3052452 29 100.0 32 ............................. TTGAGGTTTGCGTTGAGCCTGTTCAGCATCAC 3052391 29 96.6 32 ............................C GCTGACTCTGCGGCGGATCTTCTCAACCAGTC 3052330 29 100.0 32 ............................. CCTAGAAAAGTTTGTTTAGGCAATCAAGCCCC 3052269 29 100.0 32 ............................. GTGTTAATTAATGAGTTTATTCCGTTTTAACA 3052208 29 100.0 32 ............................. AAATTTGGTTGACAGTAAAAGAGTGTGTCGGT 3052147 29 100.0 32 ............................. TCGGCTCGAGCACTTGCGACAACAAACACACG 3052086 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 3052025 29 96.6 32 ..C.......................... ATATGAGGCAGCTCGCTGGCGGCTGGGATGGT 3051964 29 100.0 32 ............................. CCGTTTTTTTCCCACAGTTTGCCACCGAGACG 3051903 29 100.0 32 ............................. TTAAGTCGCTCTTTGTACGCTACACCGGAGGC 3051842 29 100.0 32 ............................. AAATATCCAGAGCTGGGCTTGAGGCTGACGGT 3051781 29 100.0 32 ............................. TAATTGACATACATTCACCATATTAAGGAAGA 3051720 29 100.0 32 ............................. CCATGCGCGGCGGCGCTTGCCCAGCTCAGAAA 3051659 29 100.0 32 ............................. GTAGTCTTCATATGCAGCGACATCATTGCCGA 3051598 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 3051537 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 3051476 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 3051415 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 3051354 29 100.0 32 ............................. GACCTATCAGCCTAATTTCCGGGGCAAGAGCT 3051293 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 3051232 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 3051171 29 100.0 32 ............................. GCGTTTATTTTTGATTTGTTATTTGGACGTTA 3051110 29 100.0 32 ............................. TTCCGGTCCTGCCCACTATTCGACAAAATCAG 3051049 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 3050988 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 3050927 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 3050866 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 3050805 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 3050744 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 3050683 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 3050622 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 3050561 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 3050500 29 96.6 0 A............................ | A [3050473] ========== ====== ====== ====== ============================= ================================ ================== 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 3070389-3068711 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCMC01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL01779 2014LSAL01779_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3070388 29 100.0 32 ............................. AGCGCCGATCCGGTGGTGTCCAACACAACGAA 3070327 29 100.0 32 ............................. GCTTCTGATTGCATTAGCTCCAAATCAGTACC 3070266 29 100.0 32 ............................. GCGTCAGGCGTGGTGGCCGTGATTACGGACGA 3070205 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 3070144 29 100.0 32 ............................. GGCTAACCCATGAACACTATTACCAAATTCAC 3070083 29 100.0 32 ............................. GTTGCCGCCCTTACTGCGCGAGGCGTTGGAAC 3070022 29 100.0 32 ............................. GAGGGGCCGTCTGCCGCATATCAAACGCTATC 3069961 29 100.0 32 ............................. CAACACGAAAGAAAAAATACTCAATATTATTG 3069900 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 3069839 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 3069778 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 3069717 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 3069656 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 3069594 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 3069533 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 3069472 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 3069411 29 100.0 32 ............................. CTTGCAGCCGAATACGGTATAGAGTGGGACGG 3069350 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 3069288 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 3069227 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 3069166 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 3069104 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 3069043 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 3068982 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 3068921 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 3068860 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 3068799 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 3068738 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], //