Array 1 217869-216189 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAFFRV010000038.1 Salmonella enterica subsp. enterica serovar Thompson strain 688C NODE_79_length_713015_cov_115.786423, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 217868 29 100.0 32 ............................. AGTTTATTACCCCGCCATTTTTCAGTCGTCGC 217807 29 100.0 32 ............................. CGGTACGACGTAAACTGCGCGCCCGGACTGAT 217746 29 100.0 32 ............................. GAGGCTATCGGGACACAGGCAAACGTCGTGGC 217685 29 100.0 32 ............................. TTTGGTTGATGCGTCAAACCTCGCTAACTTTG 217624 29 100.0 32 ............................. GCGGAATAATAAATGGAGTGCCATTTGTAGCA 217563 29 100.0 32 ............................. GAGCGATGTTGGCATGGCATTGGTTTACTGTA 217502 29 100.0 32 ............................. TAGAGCCGTGTGTTAGCAGATAATCAGTATTA 217441 29 100.0 32 ............................. AAGCCGGACCACATTTTTCTTGCCGAACTCAC 217380 29 100.0 32 ............................. GCTGTTGCCGACGTCGGGCTTAAACACCACTG 217319 29 100.0 32 ............................. GACGCTTCACCTGCATCAAATTCTCCTCCAGT 217258 29 100.0 32 ............................. GCGGGCAACAATTTTAGAGGGGCTGCATTCGC 217197 29 100.0 33 ............................. ACTACATAGATAACCAAAAATCCACTGGCAAGC 217135 29 100.0 33 ............................. CGCACGCGGGTTGCGTAACGGATATACGACAGC 217073 29 100.0 32 ............................. TCGCAGAACAGCTCTGCTTCCTTTGCGGAGAC 217012 29 100.0 32 ............................. TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 216951 29 100.0 32 ............................. GGACAGCACAGTTGATTACAGCAAAATTTACG 216890 29 96.6 32 ............T................ ACACGCCAGCCAACAATATTAATTTTGTCGTC 216829 29 100.0 32 ............................. CCTTGGCGGCAGCCACCTGAGCAACTGTCGGG 216768 29 100.0 32 ............................. CAGCTTCTTAACGAGGAGATTAACAGCGACGT 216707 29 100.0 32 ............................. ACTGTAGTTGCGGGTCAGGTTCCGGAATATCA 216646 29 100.0 33 ............................. GGATAGGGATCGGTAACTTTGCCATCGATCGGC 216584 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 216523 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 216462 29 100.0 32 ............................. CACCCAGCGGGTAAACTGATCAGCAGCAGCAC 216401 29 100.0 32 ............................. AACCCTCAGAAAATAATCCAGACGTTACCGAA 216340 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 216279 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 216218 29 93.1 0 A..............A............. | A [216191] ========== ====== ====== ====== ============================= ================================= ================== 28 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAATCTGAATCACTGGGTGATAGTGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCTCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGAAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 [3-0] 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 235226-234039 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAFFRV010000038.1 Salmonella enterica subsp. enterica serovar Thompson strain 688C NODE_79_length_713015_cov_115.786423, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 235225 29 100.0 32 ............................. AATACTATCCTGCAATGCGCTACCACGTTACT 235164 29 100.0 32 ............................. TGATAACGCATGGGAGTCCAGATTACAAATTC 235103 29 100.0 32 ............................. TGCTGGATACACGCGTTTCAATGGTCAGAGTT 235042 29 100.0 32 ............................. CAGCTCTCTAACGACTTCCCCGGAGTACGTAA 234981 29 100.0 32 ............................. CTTGTCGGCGTTGCTCACGTGACTATTTCGCA 234920 29 100.0 32 ............................. ACCGTTATCTGCTGGTTGATACTTCCCCGAGC 234859 29 100.0 32 ............................. CCGCAGAACGCCGCATCGCCGAACTGGACAAA 234798 29 100.0 32 ............................. TGCCGGTTTATCTGCTCCAGACCGATCGACTA 234737 29 100.0 32 ............................. TCCGCGGTGATAGTATGCGGGGAACTATAGAC 234676 29 100.0 32 ............................. GGAAACGAAGATGACCTTTATTAGAGATATCC 234615 29 100.0 32 ............................. TGCTGAATCTTTGCGAGTGGGATGATGGCACT 234554 29 96.6 32 .....T....................... CCGCTACGATCTATTCGAATCATAGTGGTGCG 234493 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 234432 29 100.0 32 ............................. TCCTTTTATTCTAATGGGTTAGATAGGGTAGA 234371 29 100.0 32 ............................. AAAACTGCACCGCCGCTGCCACTGAGTTTGCT 234310 29 100.0 32 ............................. AAAACTGCACCGCCGCTGCCACTGAGTTTGCT 234249 29 100.0 32 ............................. GCGCAGAATTTACAGGTGTCACTGTTGTCCGG 234188 29 100.0 32 ............................. GGCGTGGTGTATATCGGTCTTGATGCGTTGTC 234127 29 100.0 32 ............................. GTCACGAGGTCTGACGCGGATGTGATGAGTTA 234066 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGAAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # 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 [5-0] 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], //