Array 1 478969-480094 **** Predicted by CRISPRDetect 2.4 *** >NZ_MATH01000016.1 Salmonella enterica subsp. enterica serovar Thompson strain STh01 contig23, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 478969 29 100.0 32 ............................. TGCTGGATACACGCGTTTCAATGGTCAGAGTT 479030 29 100.0 32 ............................. CAGCTCTCTAACGACTTCCCCGGAGTACGTAA 479091 29 100.0 32 ............................. CTTGTCGGCGTTGCTCACGTGACTATTTCGCA 479152 29 100.0 32 ............................. CGTTTATGAGATTGTGAGACAGCTTGATCCTG 479213 29 100.0 32 ............................. ACCGTTATCTGCTGGTTGATACTTCCCCGAGC 479274 29 100.0 32 ............................. CCGCAGAACGCCGCATCGCCGAACTGGACAAA 479335 29 100.0 32 ............................. TGCCGGTTTATCTGCTCCAGACCGATCGACTA 479396 29 100.0 32 ............................. TCCGCGGTGATAGTATGCGGGGAACTATAGAC 479457 29 100.0 32 ............................. GGAAACGAAGATGACCTTTATTAGAGATATCC 479518 29 100.0 32 ............................. TGCTGAATCTTTGCGAGTGGGATGATGGCACT 479579 29 96.6 32 .....T....................... CCGCTACGATCTATTCGAATCATAGTGGTGCG 479640 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 479701 29 100.0 32 ............................. TCCTTTTATTCTAATGGGTTAGATAGGGTAGA 479762 29 100.0 32 ............................. AAAACTGCACCGCCGCTGCCACTGAGTTTGCT 479823 29 100.0 32 ............................. AAAACTGCACCGCCGCTGCCACTGAGTTTGCT 479884 29 100.0 32 ............................. GCGCAGAATTTACAGGTGTCACTGTTGTCCGG 479945 29 100.0 32 ............................. GGCGTGGTGTATATCGGTCTTGATGCGTTGTC 480006 29 100.0 32 ............................. GTCACGAGGTCTGACGCGGATGTGATGAGTTA 480067 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGAAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTG # 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 496265-497271 **** Predicted by CRISPRDetect 2.4 *** >NZ_MATH01000016.1 Salmonella enterica subsp. enterica serovar Thompson strain STh01 contig23, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 496265 29 100.0 32 ............................. AGTTTATTACCCCGCCATTTTTCAGTCGTCGC 496326 29 100.0 32 ............................. CGGTACGACGTAAACTGCGCGCCCGGACTGAT 496387 29 100.0 32 ............................. GAGGCTATCGGGACACAGGCAAACGTCGTGGC 496448 29 100.0 32 ............................. TTTGGTTGATGCGTCAAACCTCGCTAACTTTG 496509 29 100.0 32 ............................. GCGGAATAATAAATGGAGTGCCATTTGTAGCA 496570 29 100.0 32 ............................. GAGCGATGTTGGCATGGCATTGGTTTACTGTA 496631 29 100.0 32 ............................. TAGAGCCGTGTGTTAGCAGATAATCAGTATTA 496692 29 100.0 32 ............................. TTAATGCGGTCATTGGTCATGTCTCTAAAAGA 496753 29 100.0 32 ............................. ACTGTAGTTGCGGGTCAGGTTCCGGAATATCA 496814 29 100.0 33 ............................. GGATAGGGATCGGTAACTTTGCCATCGATCGGC 496876 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 496937 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 496998 29 100.0 32 ............................. CACCCAGCGGGTAAACTGATCAGCAGCAGCAC 497059 29 100.0 32 ............................. AACCCTCAGAAAATAATCCAGACGTTACCGAA 497120 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 497181 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 497242 29 93.1 0 A..............A............. | A [497268] ========== ====== ====== ====== ============================= ================================= ================== 17 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAATCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCTCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGAAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //