Array 1 323277-325195 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZCZ01000001.1 Salmonella enterica subsp. enterica serovar Havana strain 05-0425 NODE_1_length_509802_cov_5.09789, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 323277 29 100.0 32 ............................. TGTGAGATACCGGCGCGGCCCGTCATGACGTC 323338 29 100.0 32 ............................. TTTATGCCGAAGTTAACGGGACAAGAAGCGCA 323399 29 100.0 32 ............................. TGAGATCGGCAATTGCTCTCTGGAGTTGCCAT 323460 29 100.0 32 ............................. GCCAGACAACAGCAGACACCTACGCAACTGCA 323521 29 100.0 32 ............................. ACAACTTCAAACGGTGATAACCAGGAAATAAT 323582 29 100.0 32 ............................. TTAGCCTCAACGTAAAATCCTGGGCTTTAGGC 323643 29 100.0 32 ............................. ATCGCGTTTTCCCTGGCACTTAAGGAGGTTTA 323704 29 100.0 32 ............................. CTGGACGGTCGGATCGTGGGCAATTATCCGTT 323765 29 100.0 32 ............................. CAGGTTTATTTTCCGCGCGGGCAGGCGCTGGA 323826 29 100.0 32 ............................. TTATCAGCACATAACGGAGAGCGAGGCGCAGT 323887 29 100.0 32 ............................. CGATTTATGTAAAGGGTGGCCTGGAAGGGGAT 323948 29 100.0 32 ............................. ATTATTGATGGTCATCATCGTTTCCTGGGGGC 324009 29 100.0 32 ............................. AACGCTGTCAAATTATTTTCCCGCCAGCTTGC 324070 29 100.0 32 ............................. CACCTCAGATGTTTGGGGTGCAATTTGTAATG 324131 29 100.0 32 ............................. TGCCAGCTCATCAGCGCTCATAACGGGCTCCA 324192 29 100.0 32 ............................. GCATGACTGTATGGCGTACAAACTGGATAGAT 324253 29 100.0 32 ............................. GATCGTGATTACGCTAAATATTTAATGAGAGG 324314 29 96.6 32 ............................T GCCGATTCAATAAAAACAGATAATCTGGCCGC 324375 29 100.0 32 ............................. GCTGTTATCGCCAGTATGGGCGGCCTGTGGTT 324436 29 100.0 32 ............................. AGGATCTGTCCCAGCAGGGCGTCTGCACGTTT 324497 29 100.0 32 ............................. GTCACTTGGGGCAACTTCAAGAATACTTCTGT 324558 29 100.0 32 ............................. CGCAGGTATCACCTCCGCCATGGGGATCGCGC 324619 29 100.0 32 ............................. GCCTCTACCACGGAGCAAAAATGATAAGCGCA 324680 29 100.0 32 ............................. GATGATCGTTTTTTTCGTTACGTCGCGCAAAT 324741 29 100.0 32 ............................. CCGTAGCTTGGTTGTGGACTCATCCTAACGGG 324802 29 100.0 32 ............................. ATGCCGTACATAGTCCCCATATGGTTTGTGAT 324863 29 100.0 32 ............................. AGAATGATTTATCAGAGCATTTTGATAGTAAT 324924 29 100.0 32 ............................. GCGCGTCAGCGTGGATTAACTCAACAGCGCTC 324985 29 100.0 32 ............................. GAGTTTGGGGGCACTATGAAGGGATCGATGCT 325046 29 96.6 32 ............T................ ACGTTTTGCGAGCCATCAGAAACCTTAAATGC 325107 29 100.0 32 ............................. AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 325168 28 89.7 0 ............T..........-.G... | ========== ====== ====== ====== ============================= ================================ ================== 32 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGCCCCTCTACCGATTGG # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 341805-346170 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZCZ01000001.1 Salmonella enterica subsp. enterica serovar Havana strain 05-0425 NODE_1_length_509802_cov_5.09789, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 341805 29 100.0 32 ............................. CTCTTTCATGGTCGTCGGTTTGATAAGCTCGG 341866 29 100.0 32 ............................. CCCGTATTCGCTATCGCCTCCGAGATGGTCGC 341927 29 100.0 32 ............................. CCAACGAAGTAGAAGCGCCCCCGGTGCTGGTG 341988 29 100.0 32 ............................. TTACTGTTTTTATTGGGTTTTCTTTTTATCTC 342049 29 100.0 32 ............................. TTGATGAGCGCGGGCACCTACAGATAGACGAA 342110 29 100.0 32 ............................. CCTCGCTGGCCGAACAAAACCGCCTGATCGAT 342171 29 100.0 32 ............................. ATCACAAGAAAACTTGATACTCGATTATCGCT 342232 29 100.0 32 ............................. GCGGTAAACAAATAAACATTTAATTAAATAAT 342293 29 100.0 32 ............................. TTTGGTTAGACTGCGTGTTAGTCATAGTTTAA 342354 29 100.0 32 ............................. GGGGGCAATGACGATGACGGCGCGGCGAGATG 342415 29 96.6 32 ............................C GCTGGCGCGGTCACCTCTTCCCCTTCTGGGGC 342476 29 100.0 32 ............................. ATGACTGGTGAGATCGCGTGTGCGGTATACCA 342537 29 100.0 32 ............................. TGACGCTTTTTATTGATTCATTTTGCGATACG 342598 29 100.0 32 ............................. CGCAGCGCCGCGCCGGCATAACTGACGATCAG 342659 29 100.0 32 ............................. CGAGCCCAAATAAGCCGCCAGGCGTCGCGAGA 342720 29 100.0 32 ............................. ACCCACTCCCACCTGCGGAAATTGAAACTACA 342781 29 100.0 33 ............................. CCCGCAAGGGCTTTTTTTATGCCCGGAGTAAAC 342843 29 100.0 32 ............................. TGCTTCAGGCTGGCTTAATCATTACGGCTTGA 342904 29 100.0 32 ............................. AGTACAATGAACTGATCTCAGCGGCTAAAACC 342965 29 100.0 32 ............................. CCGCGGCTTACCAGGTACTTTTCACCGTCCGT 343026 29 100.0 32 ............................. GCTCAGAAAGGGGATAAAGGGGACAAAGGCGA 343087 29 100.0 32 ............................. CGACTAGCTCAATACTTTCAAGCGGCGCGAAC 343148 29 100.0 32 ............................. CCGAATACAAAAAACCCCGGTTGGTAGCCGGG 343209 29 100.0 32 ............................. CGACGAATGCGTTCATTGAGAATAGCCAGAAC 343270 29 100.0 32 ............................. TGACCAGAGCAACGGCGACGATCCGTATACGA 343331 29 100.0 32 ............................. TTCCTGTCCGATCTGAGCGTGACCGGCGAGGA 343392 29 100.0 32 ............................. GGGTCGTTTTAGAGGAACTATTGAGGAATTTG 343453 29 100.0 32 ............................. TTTGAACAGGCGCTGAACTGGGCTGATATCGC 343514 29 96.6 32 ............................T TTCTGTTATTAATTGCCATTGGCCACCACACC 343575 29 100.0 32 ............................. GGTAAAACGGTGGAACAGTGATTTTAGCGTTA 343636 29 100.0 32 ............................. ACTGTTTCTATAACGGTTCGTAAACCGTCATT 343697 29 100.0 33 ............................. GCTTCAACAGCAACAGGCTCAGGCTCATATGCC 343759 29 100.0 32 ............................. GATACATTATGAAAAAAAGCATCATTGCCGCC 343820 29 100.0 32 ............................. CTGCGCGACAAACGCCATACGCAGGAGGAAAT 343881 29 100.0 32 ............................. TTCAATGCTAAATCAGGTCGCCGCACCGAGAT 343942 29 100.0 32 ............................. TTGATACGAGGCGTCGAAACCTCTTCTTAACG 344003 29 100.0 32 ............................. TCTCCCCCCGCGCCGTTTGAATACCATTTCCA 344064 29 100.0 32 ............................. CTGCGCGACAAACGCCATACGCAGGAGGAAAT 344125 29 100.0 32 ............................. TTCAATGCTAAATCAGGTCGCCGCACCGAGAT 344186 29 100.0 32 ............................. TTGATACGAGGCGTCGAAACCTCTTCTTAACG 344247 29 100.0 32 ............................. TCTCCCCCCGCGCCGTTTGAATACCATTTCCA 344308 29 100.0 32 ............................. GGGCGTTTAATCTTATCTCGCCTGTTGATTTT 344369 29 100.0 32 ............................. GCGGATGAGTGTGGGGCTGTTGCCAGCGTCAT 344430 29 100.0 32 ............................. TGTAGCTCCCGGGAATCGCGAACTCGTTACGG 344491 29 100.0 32 ............................. GTGTTCACATCCAGATAGCTGTCGTCATCAAC 344552 29 100.0 32 ............................. TGCGGCCCGTCTTTTAGCGTTTTCCAGTCGCC 344613 29 100.0 32 ............................. GGAATATGAAAATTATTATTTTTGCAACTGCA 344674 29 100.0 32 ............................. AATCTAAACAGTAATTTAAAATTGTTAGCGTC 344735 29 100.0 32 ............................. CTGGCCGGGTTACAGGGTGGCAGTGAGAAAAA 344796 29 100.0 32 ............................. ATCCTCGAATCACTGGCGGTAAAAAAACGCAA 344857 29 100.0 32 ............................. CGCAAACCAGACTGGCAAATAAAATTAGGTGC 344918 29 100.0 32 ............................. GATACAACGCCGTTTTTACGCGTTGTGATGGA 344979 29 100.0 33 ............................. AATAAACCAGTTCTTTGCAGACGTAGGTTCCGC 345041 29 100.0 32 ............................. ACGACTGAATTAAAACCATACGGCGGCTCATA 345102 29 100.0 32 ............................. TAGCTATGACAACTAAAGACGACACAAACCAA 345163 29 100.0 33 ............................. ACGGAAATCCGCGTGACCTACAACGGGCACAGG 345225 29 100.0 32 ............................. TCGCCGTTCTGGCGTCTGATTAAGGCAATCGT 345286 29 100.0 32 ............................. CTGTTTTCATTAAAAATCACCTCCGTTATGGT 345347 29 100.0 32 ............................. GTACTGGCCTATTCCACATACAGTGGCACGCG 345408 29 100.0 32 ............................. CGGGCAAATGCCCGCTTTCTTGTTTCTATCAG 345469 29 96.6 32 ............T................ TGCCGCCGTCCGGGCGACGGGAATAATGTGGC 345530 29 100.0 32 ............................. GCTGGAGCGCAACTGCCAGTGACTACAGAAGC 345591 29 96.6 32 ............T................ AGCACGCCACAGCGCGTAACTGTCGCAATAGA 345652 29 100.0 32 ............................. CGTCTTATCAGGATACCTGCAAACAGATGTTG 345713 29 100.0 32 ............................. ACCCGACACGCGTGCGCGTATTTGAGAATGAC 345774 29 96.6 32 ............................T CGTCGACAAGTTACGACCGGACTTATTCGCGC 345835 29 100.0 32 ............................. GATGACCCGTATACGTTCAAAATCAAAATCTA 345896 29 100.0 32 ............................. ATTGTTGCGCCACCAAAATTTTGAGCGCCACG 345957 29 100.0 32 ............................. CCGACATGGGCAGGATTGCTGACGTTAGTCGA 346018 29 100.0 33 ............................. GCCTCAAGGTCATGCAGGTGAATGTCCCCAGAC 346080 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 346141 29 93.1 0 A...........T................ | A [346167] ========== ====== ====== ====== ============================= ================================= ================== 72 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTAACCCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGATAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCTATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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], //