Array 1 477-20 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIR01000128.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM156, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 476 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 415 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 354 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 293 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 232 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 171 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 110 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 48 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 8 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GCGTTGCGGATTATCGTTAA # 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: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [18.3-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 147-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIR01000040.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM156, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 146 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 85 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 23 23 79.3 0 .......................------ | ========== ====== ====== ====== ============================= ================================= ================== 3 29 93.1 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCGCGACGCGGTTTATCCCCGCTGGCGCGGGGAACACTCCCATTCACCAACAACAATATCGCCCTGCAACGGTTTATCCCCGCTGGCGCGGGGAACACCGTTGCGTCAGGTTGATCCAGTGCGTCAGCGGCGGTTTATCCCCGCTGGCGCGGGGAACACTCTCGGTCTCGGTCTCGGTCTCGGTAGTGACGCGGTTTATCCCCGCTGGCGCGGGGAACACACTTCCTTCAGTCTTAACGATAATCCGCAACGCGGTTTATCCCCGCTGGCGCGGGGAACACGCAAAATAGCGATGAGCTGGCTACGCCCACTGGCGGTTTATCCCCGCTGGCGCGGGGAACACAGCCGGCGCGAGCCTGGAGGGTTGAATAATGGCGGTTTATCCCCGCTGGCGCGGGGAACACCAATCTCGCATTCGTTACCCCACCTGCATTTTCGGTTTATCCCCGCTGGKGCGGGGATAAACCGAAAATGCAGGTGGGGTAACGAATGCGAGATTG # Right flank : T # Questionable array : NO Score: 5.01 # Score Detail : 1:0, 2:3, 3:0, 4:0.65, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # 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 [4,6] 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 [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%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], // Array 2 243-1902 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIR01000040.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM156, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 243 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 304 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 366 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 427 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 488 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 549 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 610 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 671 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 732 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 793 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 854 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 915 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 976 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 1037 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 1098 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 1159 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 1221 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 1324 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 1385 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 1446 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 1507 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 1568 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 1629 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 1690 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1751 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 1812 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1873 29 96.6 0 A............................ | A [1899] ========== ====== ====== ====== ============================= ========================================================================== ================== 27 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ATCCCCGCTGGCGCGGGGAACACGCAAAATAGCGATGAGCTGGCTACGCCCACTGGCGGTTTATCCCCGCTGGCGCGGGGAACACAGCCGGCGCGAGCCTGGAGGGTTGAATAATGGCGGTTTATCCCCGCTGGCGCGGGGAACACCAATCTCGCATTCGTTACCCCACCTGCATTTTCGGTTTATCCCCGCKCCAGCGGGGATAAACCGAAAATGCAGGTGGGGTAACGAATGCGAGATTGG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.09, 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: NA [45.0-48.3]%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 1 8999-7506 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIR01000100.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM156, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 8998 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 8937 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 8876 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 8815 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 8754 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 8693 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 8632 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 8571 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 8510 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 8449 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 8388 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 8327 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 8266 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 8205 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 8144 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 8083 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 8021 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 7960 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 7899 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 7838 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 7777 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 7716 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 7655 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 7594 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 7533 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], //