Array 1 1-364 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV835834.1 Neisseria sp. HMSC078H04 Scaffold152, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= =================================== ================== 1 29 87.9 33 ----............................. ATACCGTTAGTAGCTTTAACCGCTTTAGTGATT 63 33 100.0 34 ................................. TAATACGCCGTCCCTGCGAACTGGGTAGGACGCA 130 33 93.9 33 C............A................... CCATCTGCATTGATAATACAGCTAGTAATTTAT 196 33 97.0 34 G................................ CCTGCGTTGATGATACTCAGGAAAGACATTGTCG C [210] 264 33 100.0 35 ................................. TTATATTTCCTTTCGGAGAGAAAACATGTCAGATG 332 33 87.9 0 A.......T.......TA............... | ========== ====== ====== ====== ================================= =================================== ================== 6 33 94.5 34 TCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC # Left flank : | # Right flank : CTCTGCCACCGTATCTCATGTCTGAGTAAGGAAGAGGGGCTGTATGTTCGGATATCGTCCAAGCAGACCGCTCTTCTTTTGATCCTTCGCTTTCCGAAGCTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCGTCTGAAAAAGTTTCAGACGGCATTTTTTATATTTACATATTAAATTTAATATCATATTATCATTGCATGATATCAGTTTGAATTTTTTTAGAATTTCAATATGAAACCCCTAATTTACTATGCTCATTTTGCCCAAGATGAACTCGGCAATCTCTTGCCTTACGAACATTGGCAAACCTTGCAAAGTCATTCGGTAAATGTTGGGGAAATGGCGGCGGAGTTTGCGCGAGTATTTGGGGCACAGGAAATTGCCTGCCAGATGGGAAAGTTGCATGACTTAGGGAAATATTCGGA # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:0.72, 5:0, 6:0.25, 7:0.01, 8:1, 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 : TCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC # 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 [3,7] Score: 0.37/0.37 # Reference repeat match prediction: F [matched TCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.30,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-50.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.64 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 1 231-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV835840.1 Neisseria sp. HMSC078H04 Scaffold290, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ================================== ================== 230 33 97.0 33 A................................ ATTAAAGAATTGGGAGGCGTTTCAGCAGTTGCA 164 33 100.0 34 ................................. GTCCCTACATATCAATTTGATAATCTTAGCATTA 97 33 100.0 33 ................................. CCGCCCTCGTCGTCGTCATCGTCAACCGCCTGA 31 31 90.9 0 T..............................-- | ========== ====== ====== ====== ================================= ================================== ================== 4 33 97.0 34 CCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC # Left flank : TGTGTGTTGAAACATGCGGCAAACGTCGCCAATCAGCACGGTCTTGCCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACATGAGTCAACCAAGACGCGGTTTCTCGTACATGCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACGTGGTAAAAAAGGCCGTTCAGTTGCTTTTATACACCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTCAACCAATTTGTCGTAACGCTCTTGGCTGAATGCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACCAGATAGCTTTTCGGCTTCGGGTCGATTCGTACACCCAGCCGCCTTCGGGCGGCTGTGTGTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCGCCTTCGGGCGGCTGTGTGTTGAAACTTTGATTTCGTTCATCACATATTCGCTATGTCG # Right flank : A # Questionable array : NO Score: 5.71 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 : CCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC # 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 [7,3] Score: 0.37/0.37 # Reference repeat match prediction: R [matched TCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-5.20,-6.80] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.37,4.87 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 2 751-454 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV835840.1 Neisseria sp. HMSC078H04 Scaffold290, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ================================== ================== 750 33 87.9 33 NNNN............................. ATGCGGCAAACGTCGCCAATCAGCACGGTCTTG 684 33 100.0 32 ................................. ATGAGTCAACCAAGACGCGGTTTCTCGTACAT 619 33 97.0 34 G................................ GTGGTAAAAAAGGCCGTTCAGTTGCTTTTATACA 552 33 100.0 33 ................................. TCAACCAATTTGTCGTAACGCTCTTGGCTGAAT 486 33 97.0 0 G................................ | ========== ====== ====== ====== ================================= ================================== ================== 5 33 96.4 33 CCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC # Left flank : GCCGCCTTCGGGCGGCTGTGTGTTGAAACAGGCCATCCGTTATATGCCATTTTGCACGATTGTCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACATTGGAATTATGTAGCGAGAGTTACCATGTTTGCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACGCGCATGGGACTTAGCCTCAACAGCGAACGATGGCCCAGCCGCCTTCGGGCGGCTGTGTGTTGAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN # Right flank : CCAGATAGCTTTTCGGCTTCGGGTCGATTCGTACACCCAGCCGCCTTCGGGCGGCTGTGTGTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCGCCTTCGGGCGGCTGTGTGTTGAAACTTTGATTTCGTTCATCACATATTCGCTATGTCGACCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACATTAAAGAATTGGGAGGCGTTTCAGCAGTTGCACCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACGTCCCTACATATCAATTTGATAATCTTAGCATTACCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACCCGCCCTCGTCGTCGTCATCGTCAACCGCCTGATCCAGCCGCCTTCGGGCGGCTGTGTGTTGAA # Questionable array : NO Score: 5.88 # Score Detail : 1:0, 2:3, 3:0, 4:0.82, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 : CCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC # 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 [7,4] Score: 0.37/0.37 # Reference repeat match prediction: R [matched TCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-5.20,-6.80] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [38.3-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [1.05,4.87 Confidence: MEDIUM] # Array family : I-C [Matched known repeat from this family], // Array 3 1072-845 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV835840.1 Neisseria sp. HMSC078H04 Scaffold290, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ================================== ================== 1071 29 87.9 33 ----............................. AGGCCATCCGTTATATGCCATTTTGCACGATTG 1009 33 97.0 32 T................................ ATTGGAATTATGTAGCGAGAGTTACCATGTTT 944 33 100.0 34 ................................. GCGCATGGGACTTAGCCTCAACAGCGAACGATGG 877 33 90.9 0 C..............................NN | ========== ====== ====== ====== ================================= ================================== ================== 4 33 93.9 33 GCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC # Left flank : | # Right flank : NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCCGCCTTCGGGCGGCTGTGTGTTGAAACATGCGGCAAACGTCGCCAATCAGCACGGTCTTGCCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACATGAGTCAACCAAGACGCGGTTTCTCGTACATGCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACGTGGTAAAAAAGGCCGTTCAGTTGCTTTTATACACCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTCAACCAATTTGTCGTAACGCTCTTGGCTGAATGCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACCAGATAGCTTTTCGGCTTCGGGTCGATTCGTACACCCAGCCGCCTTCGGGCGGCTGTGTGTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN # Questionable array : NO Score: 5.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.70, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 : GCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC # 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 [7,4] Score: 0.37/0.37 # Reference repeat match prediction: R [matched TCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-5.20,-6.80] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-1] 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 [0.37,5.28 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 1 1-299 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV835841.1 Neisseria sp. HMSC078H04 Scaffold317, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== =================================== ================================ ================== 1 33 85.7 32 --..............................ATT TTTATAAAACGGGAGGGCGCGTGAGATTACCC 66 35 100.0 32 ................................... CGTTATTGAGCCTAGTAAAGACAAGCTTGGAG 133 35 97.1 31 ..................................C TGTCCGGTAAATGCCTAATTCGTGTTGCGTT 199 35 94.3 31 .................................TG CTCCGTTTAGTTTGGTAGGCCGTCTGAAATT 265 35 85.7 0 ..............................NNNNN | ========== ====== ====== ====== =================================== ================================ ================== 5 35 92.6 32 CCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTGA # Left flank : | # Right flank : NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTTCGGGCGTGTTGATTTGGATGGCTTTATTGGTCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTTTGCGACCCATTCGACAAAACCAATCGCCAACACCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACGTCTTCATTGCCGGATTGATGGCGAGGATGAGGACCAGCCGCCTTCGGGCGGCTGTGTGTTGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCGCCTTCGGGCGGCTGTGTGTTGAAACCCTCCGCCCTGACCGCCGACATCACGCACACAACCCAGCCGCCTTCGGGCGG # Questionable array : NO Score: 5.61 # Score Detail : 1:0, 2:3, 3:0, 4:0.63, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:0.92, # 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 : CCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTGA # 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 [4,8] Score: 0.37/0.37 # Reference repeat match prediction: F [matched CCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTGA with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-6.80,-5.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [2-3] 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: F [5.28,0.37 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 2 393-558 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV835841.1 Neisseria sp. HMSC078H04 Scaffold317, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== =================================== =============================== ================== 393 35 91.4 30 NN................................C GGGCGTGTTGATTTGGATGGCTTTATTGGT 458 35 100.0 31 ................................... GCGACCCATTCGACAAAACCAATCGCCAACA 524 35 94.3 0 ................................G.C | ========== ====== ====== ====== =================================== =============================== ================== 3 35 95.2 31 CCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTTT # Left flank : AGCCGCCTTCGGGCGGCTGTGTGTTGAAACATTTTTATAAAACGGGAGGGCGCGTGAGATTACCCCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTGACGTTATTGAGCCTAGTAAAGACAAGCTTGGAGCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTGCTGTCCGGTAAATGCCTAATTCGTGTTGCGTTCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTTGCTCCGTTTAGTTTGGTAGGCCGTCTGAAATTCCAGCCGCCTTCGGGCGGCTGTGTGTTGAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN # Right flank : CTTCATTGCCGGATTGATGGCGAGGATGAGGACCAGCCGCCTTCGGGCGGCTGTGTGTTGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCGCCTTCGGGCGGCTGTGTGTTGAAACCCTCCGCCCTGACCGCCGACATCACGCACACAACCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACGTGTGCAGCTAAGGCTTACGGCTGCCGTGTTTGACCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACGGATTGGCCCTACATACCGGAGCATTAATTTGGCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTGCCGATGACAGGCGGAAGTCCTGCTGTTGGCAGCCCAGCCGCCTTCGGGCGGCTGTGTGTTGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN # Questionable array : NO Score: 5.43 # Score Detail : 1:0, 2:3, 3:0, 4:0.76, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : CCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTTT # 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 [4,9] Score: 0.37/0.37 # Reference repeat match prediction: F [matched CCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTGA with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-6.80,-5.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-38.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.87,1.05 Confidence: MEDIUM] # Array family : I-C [Matched known repeat from this family], // Array 3 780-1010 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV835841.1 Neisseria sp. HMSC078H04 Scaffold317, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ================================== ================== 780 33 100.0 33 ................................. GTGTGCAGCTAAGGCTTACGGCTGCCGTGTTTG 846 33 97.0 32 A................................ GGATTGGCCCTACATACCGGAGCATTAATTTG 911 33 97.0 34 G................................ TGCCGATGACAGGCGGAAGTCCTGCTGTTGGCAG 978 33 90.9 0 ..............................NNN | ========== ====== ====== ====== ================================= ================================== ================== 4 33 96.2 33 CCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC # Left flank : CGGCTGTGTGTTGAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTTCGGGCGTGTTGATTTGGATGGCTTTATTGGTCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTTTGCGACCCATTCGACAAAACCAATCGCCAACACCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACGTCTTCATTGCCGGATTGATGGCGAGGATGAGGACCAGCCGCCTTCGGGCGGCTGTGTGTTGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCGCCTTCGGGCGGCTGTGTGTTGAAACCCTCCGCCCTGACCGCCGACATCACGCACACAA # Right flank : NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCGCCTTCGGGCGGCTGTGTGTTGAAACAAAGACATCTCCGAATTAACGTTGGTGTCTGTTTTCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTATCGATAATGGTTCAGGCACCGTTATTAGTGCGCCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTGCCTGTTTTGAATAAAAAAGACAATAATCCGCCCAGCCGCCTTCGGGCGGCTGTGTGTTGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCGCCTTCGGGCGGCTGTGTGTTGAAACGGTCGGTAGGACATTATCAGTACAAATGGCTGACCCAGCCGCCTTCGGGC # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:0.81, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 : CCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC # 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 [4,7] Score: 0.37/0.37 # Reference repeat match prediction: F [matched TCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-6.80,-5.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [35.0-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.55,0.37 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 4 1171-1337 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV835841.1 Neisseria sp. HMSC078H04 Scaffold317, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== =================================== ================================ ================== 1171 35 94.3 32 .................................AT CGATAATGGTTCAGGCACCGTTATTAGTGCGC 1238 35 100.0 30 ................................... CTGTTTTGAATAAAAAAGACAATAATCCGC 1303 35 82.9 0 .............................NNNNNN | ========== ====== ====== ====== =================================== ================================ ================== 3 35 92.4 32 CCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTGC # Left flank : NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCGCCTTCGGGCGGCTGTGTGTTGAAACCCTCCGCCCTGACCGCCGACATCACGCACACAACCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACGTGTGCAGCTAAGGCTTACGGCTGCCGTGTTTGACCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACGGATTGGCCCTACATACCGGAGCATTAATTTGGCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTGCCGATGACAGGCGGAAGTCCTGCTGTTGGCAGCCCAGCCGCCTTCGGGCGGCTGTGTGTTGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCGCCTTCGGGCGGCTGTGTGTTGAAACAAAGACATCTCCGAATTAACGTTGGTGTCTGTTTT # Right flank : NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCGCCTTCGGGCGGCTGTGTGTTGAAACGGTCGGTAGGACATTATCAGTACAAATGGCTGACCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACGGCCGACGTGGTCGGCTCGGAATTTGAGCTTTGCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTAATTCACCGATTCGTTCATTGAATGGTAAACTCTCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTGTCATGCGCCGGTGTGAATTTAAGGGTGTTACTCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACGGTCATTAACGGTCGATATGAGCGGCTTATGCCAACCAGCCGCCTTCGGGCGGCTGTGTGTTGA # Questionable array : NO Score: 4.98 # Score Detail : 1:0, 2:3, 3:0, 4:0.62, 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 : CCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTGC # 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 [4,8] Score: 0.37/0.37 # Reference repeat match prediction: F [matched CCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTGA with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-6.80,-5.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [53.3-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.55,0.37 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 5 1493-1787 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV835841.1 Neisseria sp. HMSC078H04 Scaffold317, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ================================== ================== 1493 33 97.0 32 C................................ GGCCGACGTGGTCGGCTCGGAATTTGAGCTTT 1558 33 97.0 34 G................................ TAATTCACCGATTCGTTCATTGAATGGTAAACTC 1625 33 100.0 33 ................................. TGTCATGCGCCGGTGTGAATTTAAGGGTGTTAC 1691 33 100.0 34 ................................. GGTCATTAACGGTCGATATGAGCGGCTTATGCCA 1758 30 87.9 0 A.............................--- | ========== ====== ====== ====== ================================= ================================== ================== 5 33 96.4 34 TCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC # Left flank : GCGGCTGTGTGTTGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCGCCTTCGGGCGGCTGTGTGTTGAAACAAAGACATCTCCGAATTAACGTTGGTGTCTGTTTTCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTATCGATAATGGTTCAGGCACCGTTATTAGTGCGCCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACTGCCTGTTTTGAATAAAAAAGACAATAATCCGCCCAGCCGCCTTCGGGCGGCTGTGTGTTGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCGCCTTCGGGCGGCTGTGTGTTGAAACGGTCGGTAGGACATTATCAGTACAAATGGCTGA # Right flank : | # Questionable array : NO Score: 5.80 # Score Detail : 1:0, 2:3, 3:0, 4:0.82, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:0.92, # 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 : TCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC # 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 [4,7] Score: 0.37/0.37 # Reference repeat match prediction: F [matched TCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-6.80,-5.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [46.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.55,0.37 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 1 14731-14898 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV835851.1 Neisseria sp. HMSC078H04 Scaffold436, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 14731 36 100.0 30 .................................... ATCTACGGCAAACACTGTACCTAAGTACAC 14797 36 100.0 30 .................................... GGCTACCTGAAAAAATATGCGACAGCAGCG 14863 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ============================== ================== 3 36 100.0 30 GTTGTAGCTCCCTTTCTCATTTCGCAGTGCTACAAT # Left flank : NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCTCCCTTTCTCATTTCGCAGTGCTACAATCCTAAAAGATTGGCGACGTCATTTATTGTTGTTGTAGCTCCCTTTCTCATTTCGCAGTGCTACAATAAACTCTGAATGCGTTGGAGTAAAAATGGCGTTGTAGCTCCCTTTCTCATTTCGCAGTGCTACAATAGTCGGTTTGAGCTTCAATTTATGGGACGTGTTGTAGCTCCCTTTCTCATTTCGCAGTGCTACAATACGGTACAGCCAAACATACAAGCGCGGCTTGTTGTAGCTCCCTTTCTCATTTCGCAGTGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCCCTTTCTCATTTCGCAGTGCTACAATAAACGGATAAAAGGGGGGATATTTTTTTTG # Right flank : TACGCTCCGCGTTTGATGATCAGCTTATAAGGTTGTAGCTCCCTTTCTCATTTCGCAGTGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCTCCCTTTCTCATTTCGCAGTGCTACAATCGGAATATATTGCCAAGATAGACACGACAGGTTGTAGCTCCCTTTCTCATTTCGCAGTGCTACAATCGCAAATGTGATATTGCCTTTATAGACGACGTTGTAGCTCCCTTTCTCATTTCGCAGTGCTACAATGGAGGTTAAGCCGCCAAACACAAAACACCCGTTGTAGCTCCCTTTCTCATTTCGCAGTGCTACAATGAAAATTGGAAGGAACAGCAATGCAAAAAAGTTGTAGCTCCCTTTCTCATTTCGCAGTGCTACAATATTGCCAACGGATTGGAATGGGTTTTGATGGTTGTAGCTCCCTTTC # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : GTTGTAGCTCCCTTTCTCATTTCGCAGTGCTACAAT # 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:55.56%AT] # Reference repeat match prediction: F [matched GTTGTAGCTCCCTTTCTCATTTCGCAGTGCTACAAT with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.40,-0.90] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [60.0-51.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0 Confidence: HIGH] # Array family : NA // Array 2 15118-15549 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV835851.1 Neisseria sp. HMSC078H04 Scaffold436, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 15118 36 100.0 30 .................................... CGCAAATGTGATATTGCCTTTATAGACGAC 15184 36 100.0 30 .................................... GGAGGTTAAGCCGCCAAACACAAAACACCC 15250 36 100.0 30 .................................... GAAAATTGGAAGGAACAGCAATGCAAAAAA 15316 36 100.0 30 .................................... ATTGCCAACGGATTGGAATGGGTTTTGATG 15382 36 100.0 30 .................................... ATGAAAGCTGAGGTTAATCTTAAGTCAGCA 15448 36 100.0 30 .................................... AAGATTTGCTGGTATGTCCTAAGTCCTCCA 15514 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ============================== ================== 7 36 100.0 30 GTTGTAGCTCCCTTTCTCATTTCGCAGTGCTACAAT # Left flank : NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCCCTTTCTCATTTCGCAGTGCTACAATAAACGGATAAAAGGGGGGATATTTTTTTTGGTTGTAGCTCCCTTTCTCATTTCGCAGTGCTACAATATCTACGGCAAACACTGTACCTAAGTACACGTTGTAGCTCCCTTTCTCATTTCGCAGTGCTACAATGGCTACCTGAAAAAATATGCGACAGCAGCGGTTGTAGCTCCCTTTCTCATTTCGCAGTGCTACAATACGCTCCGCGTTTGATGATCAGCTTATAAGGTTGTAGCTCCCTTTCTCATTTCGCAGTGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCTCCCTTTCTCATTTCGCAGTGCTACAATCGGAATATATTGCCAAGATAGACACGACAG # Right flank : TAGGAAATAAAAAAATAAGTATGGGCGATAAGTTGTAGCTCCCTTTCTCATTTCGCAGTGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCTCCCTTTCTCATTTCGCAGTGCTACAATAGTCAAGGGTTATTTCGTGTTACCATGATTGTTGTAGCTCCCTTTCTCATTTCGCAGTGCTACAATACCTCAACGGGAAATCCTTATTTTATAAGGGTTTCCCGTTTTATTTTGTCTAAAAAATGAGCTTAAAATAATAATAGTTGGTCTGAATTTACTCTTTTTTCTTGGGTTTTTAGCTCTCCCAATAGTAGTTTCATGGTGGCATATTGCTTTTCCGTTACTTCCAAACAGCGGATTGACCCTTCTTGCGGTAGGTTTGCACATAGCCTGTTGTGGTGTTTTTGCAACGAATCTCGACCTTTGACA # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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 : GTTGTAGCTCCCTTTCTCATTTCGCAGTGCTACAAT # 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:55.56%AT] # Reference repeat match prediction: F [matched GTTGTAGCTCCCTTTCTCATTTCGCAGTGCTACAAT with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.40,-0.90] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [55.0-61.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0 Confidence: HIGH] # Array family : NA // Array 1 59212-59441 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV835853.1 Neisseria sp. HMSC078H04 Scaffold446, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ================================== ================== 59212 33 97.0 34 C................................ TTTCGATAACAGACGGCTTATACATATTTGTTAA 59279 33 100.0 33 ................................. GGTCATGTGGCAGGCTGAGATAATGAGGTATGC 59345 33 100.0 34 ................................. TAGCGGTAGCAAGCGGTTAGGAGCGAGCCATGCC 59412 30 90.9 0 ..............................--- | ========== ====== ====== ====== ================================= ================================== ================== 4 33 97.0 34 GCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC # Left flank : ACACCACGGCGCAAAACCGACGGTGGATGTGTTTAAGGATACGTTGATTGTGTGAATCGCCAACCTGTTGTTCTCATGAAAATGTGGCAGGATTAGCGAATTAGGATTGTTCTTTAACAATCAGGATATTGCAAATGTGGGTATAACAGAAAAGGCTGTGTTATACTCGCATTTCTGCTTTTCTTGAGAGTTTAGCGAGATTAGGCTTGCGAAACCTGATGTAGCAAGGCTTTTGAGAGAGGCACCAGCCGCCTTCGGGCGGCTGTGTGTTGAAACGTTGGGATGTCATAGGATTTCTCCTGTCATTGGGCCAGCCGCCTTCGGGCGGCTGTGTGTTGAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCGCCTTCGGGCGGCTGTGTGTTGAAACTGTCCGGTGTTCTGATAGCTGCGGAGGTTATC # Right flank : | # Questionable array : NO Score: 5.71 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 : GCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC # 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 [2,7] Score: 0.37/0.37 # Reference repeat match prediction: F [matched TCCAGCCGCCTTCGGGCGGCTGTGTGTTGAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-6.80,-5.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [41.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.14,0.37 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], //