Array 1 215996-213221 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCSQ02000003.1 Salmonella enterica subsp. enterica serovar Derby strain HIY0389 NODE_3_length_702171_cov_67.888329, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 215995 29 100.0 32 ............................. GGAACTGGTCAGCGGCGAAACAAAATCCGTGA 215934 29 100.0 32 ............................. CTATCGGCAATTTTCATCAGGCCCATTGCAAT 215873 29 100.0 32 ............................. GCGTCCAGCATTGCGCTAATAAAACTGGCCTG 215812 29 100.0 32 ............................. CCGGTCATAACAAGTGGCTTCGACGACCCTTT 215751 29 100.0 32 ............................. ATTGACGATTTTTCGTTAATAACGTCGTTATC 215690 29 100.0 32 ............................. TGTCGGTGTAAGTTGCTAAATACTCAGGTAAA 215629 29 100.0 32 ............................. CCCTCGCGCAAAAAGCGGTTGCTGTCGTTGAC 215568 29 100.0 32 ............................. AATCTGCCAACAGGCGCTCTGTGTATCGGCGC 215507 29 100.0 32 ............................. CTCCCTCTCCGCGTTTTTGCGTCGGCTGGGGA 215446 29 96.6 32 ............................T TTACGAGTTGGACGGTGAGTTTTATCACCGCA 215385 29 100.0 32 ............................. ATCCGCAGCATTACGTTGACGAACAAGCGAGA 215324 29 100.0 32 ............................. TTTCCATTTTAACACCTGCTTAATTAAGAGAT 215263 29 100.0 32 ............................. AGATTTTGCAGTGAACCACGACCGATGACGGA 215202 29 100.0 32 ............................. GCGTGTAAAATCACAGGCCGTCAGCCTAACGA 215141 29 100.0 32 ............................. CTGTCGCAAAAGCGGGTCTTATGTCTGCGGGT 215080 29 100.0 32 ............................. CCCCTGAGCGTTCAACGGCAAATAGCGGACAC 215019 29 100.0 32 ............................. TATACAGGGCGTTACCCCCAATCGAGCAGCGC 214958 29 100.0 32 ............................. GGGATCGGCGTCTGTGAAATTCTGTGGAATAC 214897 29 96.6 32 ............................A ATATTTAAAGATATGCAGAGAATTCTTTTGGC 214836 29 100.0 32 ............................. TGCGAATTTACCGTCGGCAAAACCGCGCTGAT 214775 29 100.0 32 ............................. CCAATATTCTCCTGATTATTCCGTTTATTTCC 214714 29 100.0 32 ............................. GGTTCACTCAGTGGAGCCTTCCACCTGATAAG 214653 29 100.0 32 ............................. ACGCGAACGCGGATATAAACTCAACAGCGCTC 214592 29 96.6 32 .............T............... AATTCCGTTACTATCTCGACGACCCGCGCGCG 214531 29 100.0 32 ............................. GGACGAAAACGACGTCCGTTGCGTGAAAACCC 214470 29 100.0 32 ............................. CGGGGTTTGCCAACGGGGGTTATCTGGTATTT 214409 29 100.0 32 ............................. TTGCGCGCTGAGCGGGCAGAGTTACAGGAACG 214348 29 100.0 32 ............................. GCCGTCGCGATGGCATCAGGCGTGGTGGCCGT 214287 29 100.0 32 ............................. ATCGAACAGATGCGTCATAGCGGCATGGGCGT 214226 29 100.0 32 ............................. CTGAATAAACCTGTCCAGCTTCTGCCACTCTT 214165 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 214104 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 214043 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 213982 29 100.0 32 ............................. AATTCCGTTACTATCTCGACGACCCGCGCGCG 213921 29 100.0 32 ............................. GGACGAAAACGACGTCCGTTGCGTGAAAACCC 213860 29 100.0 32 ............................. AAAGCGAACGATGCGCTGAAAACGACAAAACA 213799 29 100.0 32 ............................. AATAACTCCGTCGAGGTTGAGCGCGTTCTGCA 213738 29 100.0 32 ............................. ACTGGTATATCACCAATCATGAGCAATTCTGG 213677 29 100.0 32 ............................. ATTTGCCGCTTCACTAAACCGCGCGCCGGTGC 213616 29 100.0 32 ............................. GTCTGGCCGGATGTGGTCGCGGGTTGGAACAG 213555 29 100.0 32 ............................. TACGACGTCGCCGGGGTAATCGGTTTTTTGTT 213494 29 100.0 32 ............................. ATCGCCGTGTTGGTCAAATATATGACGACTAA 213433 29 100.0 32 ............................. TTTATCGAAAATCAATGTTCAACTCATTGTTT 213372 29 96.6 32 ........G.................... CCGGAAAACTATCTCTATCGCAGGCTGGATAT 213311 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 213250 29 96.6 0 ............T................ | A [213223] ========== ====== ====== ====== ============================= ================================ ================== 46 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCCCCTCAGCCTGCGTCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGACTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGGGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGATAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCCCCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCTGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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 [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [48.3-71.7]%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 233386-232747 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCSQ02000003.1 Salmonella enterica subsp. enterica serovar Derby strain HIY0389 NODE_3_length_702171_cov_67.888329, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 233385 29 100.0 32 ............................. AGCACCTCGGGGACGATATTATTGGGACTATA 233324 29 96.6 32 A............................ GCGGTTTTATTCGGCAGGGCATTGAATTTAAT 233263 29 100.0 32 ............................. CCTGATCGCCAATATCTGAATATGATTTATTC 233202 29 100.0 33 ............................. TGCCGCGTGTCCGCCCCGTTGTCCAGCATCTGC 233140 29 100.0 32 ............................. AGTTGAGTAAAAAATCATGACATCACGCTACA 233079 29 100.0 32 ............................. CCGCGCTTATTGATCAGGAGAAAATAAAAAAA 233018 29 100.0 32 ............................. GGTCCGGTGTGGTCTGCCGAACCCGGCACCAG 232957 29 96.6 32 .................G........... ATGATGCGCAATTGCCGCCGTCGTCGTTGAGT 232896 29 96.6 32 .................G........... GAAGAGGCGAAGTCAGGGCGAGAGAGGCTTTG 232835 29 96.6 32 .................G........... TGTCGGTGTAAGTTGCTAAATACTCAGGTAAA 232774 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 11 29 97.2 32 GTGTTCCCCGCGCCAGCCGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAACGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAATTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGAGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATTCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 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 : GTGTTCCCCGCGCCAGCCGGGATAAACCG # Alternate repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # 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 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-7.70,-7.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [5-1] 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 [0.37,5.28 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //