Array 1 329457-330521 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZDQ01000002.1 Salmonella enterica subsp. enterica serovar Havana strain 06-0477 NODE_2_length_514866_cov_3.63335, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 329457 29 100.0 32 ............................. TGTGAGATACCGGCGCGGCCCGTCATGACGTC 329518 29 100.0 32 ............................. TTTATGCCGAAGTTAACGGGACAAGAAGCGCA 329579 29 100.0 32 ............................. TGAGATCGGCAATTGCTCTCTGGAGTTGCCAT 329640 29 100.0 32 ............................. GCCAGACAACAGCAGACACCTACGCAACTGCA 329701 29 100.0 32 ............................. GCTGTTATCGCCAGTATGGGCGGCCTGTGGTT 329762 29 100.0 32 ............................. AGGATCTGTCCCAGCAGGGCGTCTGCACGTTT 329823 29 100.0 32 ............................. GTCACTTGGGGCAACTTCAAGAATACTTCTGT 329884 29 100.0 32 ............................. CGCAGGTATCACCTCCGCCATGGGGATCGCGC 329945 29 100.0 32 ............................. GCCTCTACCACGGAGCAAAAATGATAAGCGCA 330006 29 100.0 32 ............................. GATGATCGTTTTTTTCGTTACGTCGCGCAAAT 330067 29 100.0 32 ............................. CCGTAGCTTGGTTGTGGACTCATCCTAACGGG 330128 29 100.0 32 ............................. ATGCCGTACATAGTCCCCATATGGTTTGTGAT 330189 29 100.0 32 ............................. AGAATGATTTATCAGAGCATTTTGATAGTAAT 330250 29 100.0 32 ............................. GCGCGTCAGCGTGGATTAACTCAACAGCGCTC 330311 29 100.0 32 ............................. GAGTTTGGGGGCACTATGAAGGGATCGATGCT 330372 29 96.6 32 ............T................ ACGTTTTGCGAGCCATCAGAAACCTTAAATGC 330433 29 100.0 32 ............................. AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 330494 28 89.7 0 ............T..........-.G... | ========== ====== ====== ====== ============================= ================================ ================== 18 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGCCCCTCTACCGATTGG # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [0-4] 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 347131-351252 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZDQ01000002.1 Salmonella enterica subsp. enterica serovar Havana strain 06-0477 NODE_2_length_514866_cov_3.63335, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 347131 29 100.0 32 ............................. CTCTTTCATGGTCGTCGGTTTGATAAGCTCGG 347192 29 100.0 32 ............................. CCCGTATTCGCTATCGCCTCCGAGATGGTCGC 347253 29 100.0 32 ............................. CCAACGAAGTAGAAGCGCCCCCGGTGCTGGTG 347314 29 100.0 32 ............................. TTACTGTTTTTATTGGGTTTTCTTTTTATCTC 347375 29 100.0 32 ............................. TGGTTCTCCAGTCTGGAATTTCGCCGTCAGGG 347436 29 100.0 32 ............................. CCGCCGGAACTGAAAGAGGATCCGACGGGCGA 347497 29 100.0 32 ............................. ATCACAAGAAAACTTGATACTCGATTATCGCT 347558 29 100.0 32 ............................. GCGGTAAACAAATAAACATTTAATTAAATAAT 347619 29 100.0 32 ............................. TTTGGTTAGACTGCGTGTTAGTCATAGTTTAA 347680 29 100.0 32 ............................. GGGGGCAATGACGATGACGGCGCGGCGAGATG 347741 29 96.6 32 ............................C GCTGGCGCGGTCACCTCTTCCCCTTCTGGGGC 347802 29 100.0 32 ............................. ATGACTGGTGAGATCGCGTGTGCGGTATACCA 347863 29 100.0 32 ............................. TGACGCTTTTTATTGATTCATTTTGCGATACG 347924 29 100.0 32 ............................. CGCAGCGCCGCGCCGGCATAACTGACGATCAG 347985 29 100.0 32 ............................. CGAGCCCAAATAAGCCGCCAGGCGTCGCGAGA 348046 29 100.0 32 ............................. ACCCACTCCCACCTGCGGAAATTGAAACTACA 348107 29 100.0 33 ............................. CCCGCAAGGGCTTTTTTTATGCCCGGAGTAAAC 348169 29 100.0 32 ............................. TGCTTCAGGCTGGCTTAATCATTACGGCTTGA 348230 29 100.0 32 ............................. AGTACAATGAACTGATCTCAGCGGCTAAAACC 348291 29 100.0 32 ............................. CCGCGGCTTACCAGGTACTTTTCACCGTCCGT 348352 29 100.0 32 ............................. GCTCAGAAAGGGGATAAAGGGGACAAAGGCGA 348413 29 100.0 32 ............................. CGACTAGCTCAATACTTTCAAGCGGCGCGAAC 348474 29 100.0 32 ............................. CCGAATACAAAAAACCCCGGTTGGTAGCCGGG 348535 29 100.0 32 ............................. CGACGAATGCGTTCATTGAGAATAGCCAGAAC 348596 29 100.0 32 ............................. TGACCAGAGCAACGGCGACGATCCGTATACGA 348657 29 100.0 32 ............................. TTCCTGTCCGATCTGAGCGTGACCGGCGAGGA 348718 29 100.0 32 ............................. GGGTCGTTTTAGAGGAACTATTGAGGAATTTG 348779 29 100.0 32 ............................. TTTGAACAGGCGCTGAACTGGGCTGATATCGC 348840 29 96.6 32 ............................T TTCTGTTATTAATTGCCATTGGCCACCACACC 348901 29 100.0 32 ............................. GGTAAAACGGTGGAACAGTGATTTTAGCGTTA 348962 29 100.0 32 ............................. ACTGTTTCTATAACGGTTCGTAAACCGTCATT 349023 29 100.0 33 ............................. GCTTCAACAGCAACAGGCTCAGGCTCATATGCC 349085 29 100.0 32 ............................. GATACATTATGAAAAAAAGCATCATTGCCGCC 349146 29 100.0 32 ............................. CTGCGCGACAAACGCCATACGCAGGAGGAAAT 349207 29 100.0 32 ............................. TTCAATGCTAAATCAGGTCGCCGCACCGAGAT 349268 29 100.0 32 ............................. TTGATACGAGGCGTCGAAACCTCTTCTTAACG 349329 29 100.0 32 ............................. TCTCCCCCCGCGCCGTTTGAATACCATTTCCA 349390 29 100.0 32 ............................. GGGCGTTTAATCTTATCTCGCCTGTTGATTTT 349451 29 100.0 32 ............................. GCGGATGAGTGTGGGGCTGTTGCCAGCGTCAT 349512 29 100.0 32 ............................. TGTAGCTCCCGGGAATCGCGAACTCGTTACGG 349573 29 100.0 32 ............................. GTGTTCACATCCAGATAGCTGTCGTCATCAAC 349634 29 100.0 32 ............................. TGCGGCCCGTCTTTTAGCGTTTTCCAGTCGCC 349695 29 100.0 32 ............................. GGAATATGAAAATTATTATTTTTGCAACTGCA 349756 29 100.0 32 ............................. AATCTAAACAGTAATTTAAAATTGTTAGCGTC 349817 29 100.0 32 ............................. CTGGCCGGGTTACAGGGTGGCAGTGAGAAAAA 349878 29 100.0 32 ............................. ATCCTCGAATCACTGGCGGTAAAAAAACGCAA 349939 29 100.0 32 ............................. CGCAAACCAGACTGGCAAATAAAATTAGGTGC 350000 29 100.0 32 ............................. GATACAACGCCGTTTTTACGCGTTGTGATGGA 350061 29 100.0 33 ............................. AATAAACCAGTTCTTTGCAGACGTAGGTTCCGC 350123 29 100.0 32 ............................. ACGACTGAATTAAAACCATACGGCGGCTCATA 350184 29 100.0 32 ............................. TAGCTATGACAACTAAAGACGACACAAACCAA 350245 29 100.0 33 ............................. ACGGAAATCCGCGTGACCTACAACGGGCACAGG 350307 29 100.0 32 ............................. TCGCCGTTCTGGCGTCTGATTAAGGCAATCGT 350368 29 100.0 32 ............................. CTGTTTTCATTAAAAATCACCTCCGTTATGGT 350429 29 100.0 32 ............................. GTACTGGCCTATTCCACATACAGTGGCACGCG 350490 29 100.0 32 ............................. CGGGCAAATGCCCGCTTTCTTGTTTCTATCAG 350551 29 96.6 32 ............T................ TGCCGCCGTCCGGGCGACGGGAATAATGTGGC 350612 29 100.0 32 ............................. GCTGGAGCGCAACTGCCAGTGACTACAGAAGC 350673 29 96.6 32 ............T................ AGCACGCCACAGCGCGTAACTGTCGCAATAGA 350734 29 100.0 32 ............................. CGTCTTATCAGGATACCTGCAAACAGATGTTG 350795 29 100.0 32 ............................. ACCCGACACGCGTGCGCGTATTTGAGAATGAC 350856 29 96.6 32 ............................T CGTCGACAAGTTACGACCGGACTTATTCGCGC 350917 29 100.0 32 ............................. GATGACCCGTATACGTTCAAAATCAAAATCTA 350978 29 100.0 32 ............................. ATTGTTGCGCCACCAAAATTTTGAGCGCCACG 351039 29 100.0 32 ............................. CCGACATGGGCAGGATTGCTGACGTTAGTCGA 351100 29 100.0 33 ............................. GCCTCAAGGTCATGCAGGTGAATGTCCCCAGAC 351162 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 351223 29 93.1 0 A...........T................ | A [351249] ========== ====== ====== ====== ============================= ================================= ================== 68 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTAACCCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGATAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCTATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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 [1-6] 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], //