Array 1 686289-687843 **** Predicted by CRISPRDetect 2.4 *** >NZ_CM003135.1 Streptococcus thermophilus TH1477 chromosome, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 686289 36 100.0 30 .................................... TAATTTATCAAGAGAATTTCCCACAGCGCG 686355 36 100.0 30 .................................... CATAAGGCTGATAACGCTGCTGTAATGCAT 686421 36 100.0 29 .................................... TAAGACCACTTTCGGAAACTTCAAAGAGC 686486 36 100.0 30 .................................... ATGGGGCTATTTATTTCACTACAGCAATTA 686552 36 100.0 31 .................................... TTATATCGTCCAGATTATCGTAGGATACTGA 686619 36 100.0 30 .................................... TGCAAGATACAAAAGACGATTATAAACTTA 686685 36 100.0 30 .................................... TAATTCTAAGTTGGTATTATTACAAGTCAC 686751 36 100.0 30 .................................... CGTCAAGTTGGCGGAATGTTTGACTGGATT 686817 36 100.0 31 .................................... TCTATGTCTTTACTGTTCTCCCAAAACCATC 686884 36 100.0 29 .................................... GTCAAGTTGGCGGAATGTTTGACTGGATT 686949 36 100.0 31 .................................... TCTATGTCTTTACTGTTCTCCCAAAACCATC 687016 36 100.0 31 .................................... CTAAAGGAGCGGACGGAACGCAAGGGACACC 687083 36 100.0 30 .................................... ATAACTCGATTGCTAACTTAAGCAAGCAGT 687149 36 100.0 31 .................................... CTAAAGGAGCGGACGGAACGCAAGGGACACC 687216 36 100.0 29 .................................... AGAGAATGAGCGATGGTTACGATGCTATT 687281 36 100.0 30 .................................... TGGAAAAATCAGAATGGTATAGAGAATACA 687347 36 100.0 30 .................................... TGTTCGTTAGTGGTTCCAAGTCCTGTCTTC 687413 36 100.0 30 .................................... AATACGGTTATATTAAGTTATCCGTAACTG 687479 36 100.0 30 .................................... ATGGTTCTAATATCGGTACTTACTTTATCG 687545 36 100.0 30 .................................... CACACATTCAACAGATTAATGAAGAATACA 687611 36 100.0 29 .................................... CATTGGTAAACGTGAACGCTTCACAAATG 687676 36 100.0 30 .................................... AACGAATTTAAAGATTTTGATGAAAGTCTA 687742 36 100.0 30 .................................... AATTGGAACGTGTCAAACGAACAAAGGTCA 687808 36 94.4 0 ..................................GT | ========== ====== ====== ====== ==================================== =============================== ================== 24 36 99.8 30 GTTTTTGTACTCTCAAGATTTAAGTAACTGTACAAC # Left flank : ATTGATGGATTTATCTCAGAAGAATCTTATACTATTTTTTATAGGCAAATCTGTCATCTGGTCAAGAAGTATCCAAATCTAACCTTTATTTTGTTTCCTAGTGACCAAGGCTATTTAAAAATTGATGAAGAAAATAGTAGGTTCGTCAATATTTTATCTGACCAGGTGGAGCATTTGTATGATGTTGAGTTTATGTATGAAAGGGTAATGAAATATTATCCAAGTAATGATTTTCCGACGAGAGAAGGTTTTAGGATGTCTTTAGAAACTGTGACACCTTATTTATTGACAAAAATGCTGAGACAACCTAGTCTCTCACTTGTTGATTCAGTAATATTGAATATCCTAAATCAGCTGTTTCATTTTAGTTACCGTATAAGATATTCACAAACATCTGATGAAAAACTTTTACAGAAATTTTTAGAAAGTAAGGATTGACAAGAACAGTTATTGATTTTATAATCACTATGTGGGTATGAAAATCTCAAAAATCATTTGAG # Right flank : TTTGATTCAACATAAAAAGCCGGTTCAATTGAACTTGGCTTTTTAAAATACACGATAAACATAAGGATTGTCAGGCTGACTAACCTCTTTAACCTCAGTCAAATTAAGGATAGGGAGGCTCTGTTTAAGGTTTTGATAATAATTCACAGTGATGGTACCAGTGACTGTTACCCAGGTATTATCCTTAAAGGTTTGGTCGCTTCCTGTCGTTGCCAGTCCGTAAACACCTGAATCGGCGATACAGTGGATAATACCGAAACGGAAGATGAACTGATATCCCATGGTCTGTGGATCATTGTAAACAAAGCCGGTATAGGTGACCTTCTTACCCACGAAATCGTTTGGATAGAGATAGATGAGCTCCATGACTTCCATGTAATTTTCCGTGGTAATCTGGATGGTCTCACGTCCCTTGTACTTGGCTAGCTCCTTGGTCATCTCCTTCTCATAAGCTGAGGAGGTGAAGTAGGAGCTGGTGTCTGGCTTCAAATACTGGATAG # 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 : GTTTTTGTACTCTCAAGATTTAAGTAACTGTACAAC # 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: NA [Repeat is AT rich:69.44%AT] # Reference repeat match prediction: F [matched GTTTTTGTACTCTCAAGATTTAAGTAACTGTACAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [0.00,-1.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.37 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], // Array 2 916882-917645 **** Predicted by CRISPRDetect 2.4 *** >NZ_CM003135.1 Streptococcus thermophilus TH1477 chromosome, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ========================================= ================== 916882 36 100.0 38 .................................... ACAACGATTGATTTCGATTATTACAGAGAACAATTTGC 916956 36 100.0 41 .................................... TATTTTCATAATTATCGAGTTTAACTTGATTGTCGTCATTG 917033 36 100.0 37 .................................... TTAAAAGATGTTGTGGTTTGAGCTTTTCCCATAGCTT 917106 36 100.0 35 .................................... GCGAATTCCTCTTGTGTCAAATTGTGACGTGCTCG 917177 36 100.0 36 .................................... GGTCAAAATCAATGATATCTACGTTCTTAGTACCTG 917249 36 100.0 35 .................................... AAAAAAAGTTGTTTTAACGTGAATTTGCTGCTTTT 917320 36 100.0 36 .................................... CCATATACTCTAGCATTTCCATACACTTTAGCATTT 917392 36 97.2 36 ......A............................. GCTTTCTAGCTCGCTATAATTACCCATTCCTAGAAA 917464 36 94.4 38 ......AG............................ TCTTTCGACTTAGAATCGTATTCAAATTTCATGTTTTT 917538 36 97.2 36 ......A............................. TTAACGAAGTTGTCATCAATCATTACTCCTTGCCTG 917610 36 80.6 0 ......A.......................TTTTTT | ========== ====== ====== ====== ==================================== ========================================= ================== 11 36 97.2 37 GATATAGACCTAATTACCTCGAGAGGGGACGGAAAC # Left flank : AGAGTTTGATTAGGGCTTTTAGAGAACTTGACCCTAGTCTCTATGAGACAAGTTACACAGGAGGGCATTAATGGGACTTTACTTTAACCTCAGCGAAGAAGAGCGTGAGTTTGCCAAACAAAAAACCATGTTTTGTCTGATTATTTATGATATCCGAAGTAACAAACGTAGACTTAAACTCTCGAAATTACTTGAGGGTTATGGCGTGAGGGTGCAAAAATCCTGTTTCGAGGTCGACCTGTCAAGAAATGATTATCAGTCTCTCCTTAAGGATATCGAGGGCTTCTACAAGGCTGATGAAGAAGACAGCATAATAGTGTATGTGACAACCAAAGAAGAGGTGACTAGTTTTAGCCCCTACCATAGTGCTGAAAAATTAGATGACATTCTCTTCTTCTAAGCCTTTATAGACCTTTAATCATATGGTACACTATAGATAGTGTTTCCAGTAGGTCCTACATCTTGTGCCTCTAGCAACTGCCTAGAGCACAAGATATGGG # Right flank : TGAAAATTTTGAAAACAATATTGACACCGCTTCCAGAAAGTGTTAGACTAAAAGCACATTAAGGGCGCCCCAATGAGTTGAAAAGTACTTTCAGCTTTTGGGTTTTTTTCATACAAAGATGAAGGAGTCGAATGAAAAAATTAGTATTTACTTTTAAAAGGATCGACCATCCTGCACAAGATTTGGCTGTTAAATTTCATGGCTTCTTGATGGAGCAGTTGGATAGTGACTATGTTGATTATCTGCATCAGCAGCAAACAAATCCCTATGCGACCAAGGTAATCCAAGGGAAAGAAAACACGCAGTGGGTTGTACATCTGCTCACAGATGACCTCGAGGATAAGGTTTTTATGACCTTATTACAGATTAAAGAGGTGTCCTTAAACGATCTGCCTAAACTCAGTGTCGAAAAAGTTGAGATTCAGGAGTTGGGGACAGATAAACTGTTAGAGATTTTCAATAGTGAGGAAAATCAAACCTATTTTTCAATTATTTTTGAG # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 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 : GATATAGACCTAATTACCTCGAGAGGGGACGGAAAC # Alternate repeat : GATATAAACCTAATTACCTCGAGAGGGGACGGAAAC # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:52.78%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: F [-4.70,-1.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-11] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [51.7-68.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.78,0.27 Confidence: MEDIUM] # Array family : NA // Array 3 1378623-1378454 **** Predicted by CRISPRDetect 2.4 *** >NZ_CM003135.1 Streptococcus thermophilus TH1477 chromosome, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 1378622 35 91.7 30 -.....AC............................ CATCACAGATACAGGTAGAGGTGGATATTA CT [1378614] 1378555 36 100.0 30 .................................... ACATCTGGAACGGTAGCACCAACGAATGGT 1378489 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ============================== ================== 3 36 97.2 30 GTTTTAGAGCTGTGTTGTTTCGAATGGTTCCAAAAC # Left flank : TTGTGGATGAACTCCACTCACGTGGCTTCAAGGTAGGTTTAGTTTCTGGTGGTTTCCATGAGACAGTTGATAGACTGGCAAAAGAGGCAGGTATTGATTATGTGAAGGCCAATCACCTTGAGGTGATCGATGGTTTCTTAACTGGAAAGGTTTATGGTGAGATTGTTACCAAAGATGTCAAGGTAGCTAAGCTTAAAGATTGGGCAGCGGAAAATGGACTTAAACTCTCTCAAACCATTGCTATGGGTGATGGAGCCAATGATTTGCCTATGATTAAGACAGCCGGCATAGGCATCGCCTTTTGTGCCAAACCAATTGTCCGTGCACAAGCTCCTTATCAGATCACAGAACCAGATTTGTATAAGGTCATTGAGATCTTGGATGAGGTGGGAAAATAGTAGAGATAAAAGAGTCCTTTGGATGATTCCAAGGGACTCTTTGTGTATAAAAAAACACCGAATCGGTGCCACCTTTTCAAGTTGAATACGGACTAATCCTTA # Right flank : TTTTGTTATCACAATTTTCGGTTGACATCTCTTAGAACTCATCTTATCATAAAGGAGTCTAGTATTGAAATGTGAGAAGGGACATGTTATACGAATATCCAGCTATTTTTCACACGATTGAGGAAGCTTGCAGGATTAGTTTTCCCAATTTGGGTCGGATTATTCAGGTAGCTTCTTTATTTAATGTTATGACGAAATCGTCAGTATTTTTGGCTTATATTATTTATTATTATGTGGACCAGGTCTTGCCTGATTTGACGGCAGTAAGTAGTATTCCTAATGAGAAAGAGCTTGTGGTTTTGATTCAGTTAGAACTTGATTGACAGCAAAAAACTCTTGGAGGATAAATTTCCAAGAGTTTTAATTTTTATTAGCCACATAGACTCCAAGGACTACCAAGATTCCCGCTAAGATTTGTAACTGTGAGAAGGGCTCTCCTAAGAAGACTACAGCAGCTAGAATTGAGATAATCGTTGATATGCCAATGAAAGAAGCAGTTC # Questionable array : NO Score: 5.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 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 : GTTTTAGAGCTGTGTTGTTTCGAATGGTTCCAAAAC # 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: NA [Repeat is AT rich:61.11%AT] # Reference repeat match prediction: R [matched GTTTTAGAGCTGTGTTGTTTCGAATGGTTCCAAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [0.00,-4.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,4.87 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], //