Array 1 90-2054 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDJM01000022.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM25, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 90 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 151 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 212 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 273 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 334 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 395 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 456 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 518 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 579 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 640 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 701 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 762 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 823 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 884 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 945 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 1006 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 1067 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 1128 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 1189 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 1250 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 1311 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 1373 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 1476 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 1537 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 1598 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 1659 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 1720 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 1781 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 1842 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1903 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 1964 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 2025 29 96.6 0 A............................ | A [2051] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGTG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.08, 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 [1-3] 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], // Array 1 17713-16220 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDJM01000099.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM25, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 17712 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 17651 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 17590 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 17529 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 17468 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 17407 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 17346 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 17285 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 17224 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 17163 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 17102 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 17041 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 16980 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 16919 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 16858 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 16797 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 16735 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 16674 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 16613 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 16552 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 16491 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 16430 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 16369 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 16308 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 16247 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [9-1] 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 [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //