Array 1 4927-6177 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAIZGB010000026.1 Dickeya oryzae strain A003-S1-M15 A3_(paired)_trimmed_(paired)_contig_26, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 4927 29 96.6 33 ............................T TTAGGGTTGCGCTTCAGCACTTTCAGCAAGCTC 4989 29 100.0 32 ............................. CTGGATCAGGCCGCCGGACGGCGTACCGAATT 5050 29 100.0 32 ............................. TCGCTCGGGATTACCCGTGGCATCTGGATACA 5111 29 100.0 32 ............................. GTATTCTTTCGATGCACTGCCAAGCAGGGCTG 5172 29 100.0 32 ............................. CGCTTCTGGCGTGAGTAAAGCGGAATCTTTAA 5233 29 100.0 32 ............................. TGAGGACAGTGTTTTTTTCCAACTGTTTTCAC 5294 29 100.0 32 ............................. GCGGGATGTACCCCTCTGAGCGAAAACCGTCT 5355 29 100.0 32 ............................. CGCGACAGGACGACCATGTTTGAGTTCGCTCA 5416 29 100.0 32 ............................. ATGAGCTTGCTACTGGCAGTGCTGGAATGGGG 5477 29 100.0 33 ............................. AGCGCTTGCGCAAAAAGATGTACACCACACGGC 5539 29 100.0 32 ............................. CGGAATAACGCACTATTAGGAGTGGATATGAT 5600 29 100.0 32 ............................. TGGCGAGCTTTGTTACTGTGCCGGTCACGTTA 5661 29 100.0 32 ............................. CAGATGGAATGCATTCCCTTTAAGTGTTACGC 5722 29 100.0 32 ............................. AAAATGGCCGTTTTTGAATAGCTGGTAAACCG 5783 29 100.0 32 ............................. CCAATCCGATGGCTGTGGTTGAGGTAATTATG 5844 29 100.0 32 ............................. ATGGTGTAACTAATGTTGCTAATTGGGCTGTT 5905 29 100.0 32 ............................. GAATATTCCTCTCACAGCGTACCTCAACCGAC 5966 29 100.0 32 ............................. CTCAATTTCGGCAGGAACATGAATCGGTTCGC 6027 29 100.0 32 ............................. CTTGACATGAACAGTATGCCGCGTCTTTTCAC 6088 29 100.0 32 ............................. TGGGCTGGCGTGTACGGCGGTGCTGGTGTCCT 6149 29 82.8 0 ............TT...........G.GT | ========== ====== ====== ====== ============================= ================================= ================== 21 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TTTTAAAGCACGGCAGAAAATCGGTCAGTGTTGAAGGCTGGTGTTGTACCAGCCTTTCTTTTTGCAGTTTGCTCAGTTGCTTGATGCGGTATTCCCATTTCAGCGCCGTCGAGCGATCACCCGCCACACAGTGATACACCAGCGTCAACGGCCCTTTTCCGCGCAGTGATCGCGCACCTTTGCCATTCTGATGCTCTGCCAGACGCCTGTCGACATCGGTAGTAATGCCGGTATAAAGCCACCCGCTGCCAGTACGCAGCAGATAGACAAACCAGATAGTCTCACTGTTGTTCACGCCATTTCCTTTTCGTGGTTTAGCGCTTATTTTACGGTGACAAGCCGATAAAGGCTGCCTGTTTGACGGCATTCATCGGTGGACGTGGGTGAGGGAAATTGCGACCTTTATTTATCAATGAGTTAGCGCTCTTTAACAACGTGAAAAAGTTGGTGGAATTTTTCAGGCTTTAAAAGTCATTAGAAAACAAGTATATACTTTTAGA # Right flank : TTAACGTAATAGCGCGGCACAATCCGTCGCGATGCATTGGGCTTTATTGTGATAATATTCACATCTATCGTGAATTATGTGTGTGTAATTTCTTTTTTATGTGAATAAAACCACAAAAAGGGTTGTCATCTCCGGGTGAAATAGCAGTATTCGCCGGAGAGATGACCGTGTGGTCGATAAGCGGGAGCCTTGTATGACTGATTTAACTGCAGCAGCGCAGCGTGCGCTGGGATTGATGGATTTAACCACCCTGAATGACGACGACACCTATGAAAAGGTGACGGCCCTGTGTCGTCAGGCCAATAGCCCGGCGGGGAAAACCGCCGCTATTTGCATCTATCCGCGTTTCATACCGCTGGCGCGCAAGGTGCTGCGTGAGCAGGGTACGCCGGATGTTCGTATCGCCACCGTGACCAATTTTCCACACGGTAACGACGACATTGATATCGCGCTGGCGGAAACCAATGCGGCTATCGCCTATGGTGCCGACGAGGTGGACG # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [1-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-56.7]%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 1-533 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAIZGB010000011.1 Dickeya oryzae strain A003-S1-M15 A3_(paired)_trimmed_(paired)_contig_11, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ===================================== =================================== ================== 1 37 100.0 35 ..................................... GGTGATTGTGGTGCCCGGCAATATACGAAGTTTAT 73 37 100.0 34 ..................................... ATAGGCATCCCGTGGGGTGCCACTGTGTTTGTTT 144 37 100.0 34 ..................................... CTGTCACCGTAGTGACCATAGCTTTTGCCATAAC 215 37 94.6 33 .......T....C........................ ATAATCACCTTGAATAAACATTGCACCATCTTC 285 37 97.3 33 .......T............................. TCAGGGTTTTTATCAGATTTCAGAACTGCGACA 355 37 94.6 34 .......T....C........................ GAAATCACGCACTGAATGCCGTGCTGCCGGTTTG 426 37 97.3 34 .......T............................. TAGAGGGCTCTTGAGCGGCGGTGTTGACGTTGTT 497 37 86.5 0 .......T......A................A..A.A | ========== ====== ====== ====== ===================================== =================================== ================== 8 37 96.3 34 GTCCTTACGGACTTGCCCTGACTGAAGGGATTAAGAC # Left flank : | # Right flank : AACCCCTCAACTTTGAGGGGTTTTTCCATGGTGTTTTTATGCTTAGTCAATTTATGCCGCTATCTTGGGTCTCAATGGGATCGGCATCACCTCTCCCCCTCCTTCTCTCCTTTCAGCTCTGACCACATCAAACTGCGCCCTCACCCACTCGATGGCATCTGCCACCACTTCGTGGTAGTCGTAACTGGGTATGCTATCCAGGTTGTCAACGTCGACATCGGCCAGGAACGACTCCATCTCGATACCGTTATTGTAAAATACCGTTGCCTGTACACAGACTGGCGTAACGATACCTTCCGCCACCTTATCGATATACTGCACAAGATAGTCGGGGTCGAACTCACATATATCTATCTCCGATAATTTCTGCGGTCGGCACATTACATCAATGTGGCCAATCGAGAGCTGAAACCGCCGGATACGTCGTTCGTCAAAGTTGCAGCGGTGAAAGAACCGGTTGAGCTGGTGATAACAATGCCTGCTGATGTCTGCCAGTTTTT # Questionable array : NO Score: 5.76 # Score Detail : 1:0, 2:3, 3:0, 4:0.81, 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 : GTCCTTACGGACTTGCCCTGACTGAAGGGATTAAGAC # Alternate repeat : GTCCTTATGGACCTGCCCTGACTGAAGGGATTAAGAC # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [9,9] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: F [-6.10,-3.90] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-9] 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 [0.78,0 Confidence: HIGH] # Array family : NA // Array 1 153898-154705 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAIZGB010000001.1 Dickeya oryzae strain A003-S1-M15 A3_(paired)_trimmed_(paired)_contig_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================ ================== 153898 28 100.0 32 ............................ TCGACGCTGCTGATCCGAAAGCCTGGTATCTC 153958 28 100.0 32 ............................ GCGGGAGACCCGACGAAAGATGGGGAACCAAT 154018 28 100.0 32 ............................ TCTACTCGTGGAAGGTTCCCCGGTGTTGCTCG 154078 28 100.0 32 ............................ ACCGTAACGTTTAGCGAAATGCAGGACTCAAT 154138 28 100.0 32 ............................ GCAGCTAAAAACGACTCGGTAAAGTGCCTGAT 154198 28 100.0 32 ............................ CGCGCAAGGCGGGTTTGTACGCCGGTTGACCG 154258 28 100.0 32 ............................ GCGCTGACCAGTAAAGGGAAAGACGAGCGCGC 154318 28 100.0 32 ............................ ACTCGCAGCCAGCGGGTAACCCAGTACTTTGG 154378 28 100.0 32 ............................ TGACGATGGACAGTGCGCCAATCGAGACGGAG 154438 28 100.0 32 ............................ TCGCGGCATTGCGTTTCAACTCGACGACGAGG 154498 28 100.0 32 ............................ TTGAGACTGTGCTTTCAAGGTATACAAGCTAG 154558 28 85.7 32 ..TC.......TG............... TGCCGTCTGGCAGGGTGAGGTATGTCGGTTTG 154618 28 96.4 32 ............G............... CAGTCTGACAGGCATTCATCAATCAACGCCTT 154678 28 71.4 0 ...........T.C.......GGT.GTG | ========== ====== ====== ====== ============================ ================================ ================== 14 28 96.7 32 GTGAACTGCCGCATAGGCAGCTTAGAAA # Left flank : AGAAATCCCGCCCATAGCGATATCGCACTGGTCGGACTGAAAATCTGGCATCAGGGTTTTCCAGCTGGTTTTCACCCACTCCACCTTCACGCCCAGGCTTTTCGCCAGCGACTGCGCCATCGCAATATCGATACCTTCGTAACTGCCATCCGCCCGCAGCGAGGTATACGGCTTATAGTCCCCGGTGGTACAGACCTTCAGCACCCCACGTTCCTGAACCTGATCAAGATGAGAAGCCGCGCTGGCACTACCGGCCAGCCCCAATAACAACATCAATGAGAACCGTTTTTTCATGAAATTTCCCTGCACGTCACGCCTGTCTGGCAAAAACGTCACTGTAGCACGCCATATTCACCAATATCGACGTTGACCCTTTTTTTTCGCCCCGTTATAACTCGTTGATTTTCAATGATGACAAAGGTGGGTTTTAAAAAAGGGTTTCACGACCCAAAACACGACTTTCCCTTTCAACATCAAGCCATAAGCGATAAATTGCTACA # Right flank : GGGGTTACTGGCGTTAAAACTACGCTGAGGTGGGCGACTTCGCCGGATGCACGGCATGGATGCCGTGCAAGCCCATTCCGCGTAAGGAACGCGTAATGGGCGGTCCGAACAGCGAAGGCGAACGCCGAAGGCACCGCGTTAGCGGCGTAGTTTAGCCACTAAGCCAGAGGTCAAGGAGAGGTGGCGCTTGCACCTCTCCTTGTCGTGCGTGCGATGATGTGGCAAAGAGGCGACACGGTCTATCCCGCACGAAACCACCCACCGCCCCAACATACATTCGACAAACACATTCGCCAGCAGCACCCCGGCTGTTTACCAACAGCCCAAAAACACTACTCCACCGTCAACACCGCTACCGCCTTTTTACGCTGTTTGATGGCATAACCTGCCCCCAGCGCCAGCAGCCAGAACGGAATCAGCCACACGGAAATCTGAATGCCCGGCGTCATTGCCATGATCACCAGAATCCCGGCAAGAAACAGCAGGCACAGAATGTTGGT # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:0.84, 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 : GTGAACTGCCGCATAGGCAGCTTAGAAA # 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 [9,5] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGAACTGCCGCATAGGCAGCTTAGAAA with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-8.00,-7.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-13] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [58.3-41.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 2 161607-159774 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAIZGB010000001.1 Dickeya oryzae strain A003-S1-M15 A3_(paired)_trimmed_(paired)_contig_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================= ================== 161606 28 92.9 32 ...........TG............... GTTTGCGGGTGGGCGACCTGGCAAGGTCTTCA 161546 28 100.0 32 ............................ TGATGACGCGAAAGGGTTAAGTAGCCAGCCGT 161486 28 100.0 33 ............................ GCCACATGCAACGAGCGTCCGTGAGGATCACTT 161425 28 100.0 32 ............................ ATGCATAAAAAGTGGATGCCGGGCTCACACCT 161365 28 100.0 33 ............................ AGCAATCACCCGGCATGCATCCTGATACTGTTC 161304 28 100.0 32 ............................ GAGATCATTATGGCCGGTGACGGTCAGCCTGT 161244 28 100.0 32 ............................ GTTGCCAAAGACTAATGCCTGGGCTTTATGGG 161184 28 100.0 32 ............................ ATTGCCAAACAGTTTCGCCGCTGGGTTCTTGA 161124 28 100.0 32 ............................ TTGATGACTCGTTGCTGCGTTGTGTTGGAATG 161064 28 100.0 32 ............................ AATAAGCGCTCGGTCAACGCTGAACTGGTCGC 161004 28 100.0 32 ............................ CACCAGTGCGGCGACCATGGCCACAATACCGG 160944 28 100.0 33 ............................ GGTTAATGGGCTTGCGCCCATGGTTTTTATCTT 160883 28 100.0 32 ............................ GCGCTACTGTGGCCGCTGTGCCAACTGCCGCA 160823 28 100.0 32 ............................ ACGCGTTAATCACTCATCTTTGATGTCGATGA 160763 28 100.0 32 ............................ GTGCGGCCTTCCGCTCAAGCTGACGCTGTTCA 160703 28 100.0 32 ............................ GTTGGTGCTGCCAACCCGCCCGGGGCAGGCGA 160643 28 100.0 32 ............................ AAGCGGTGCGGGCTGTGACAGCGCAAACCGCA 160583 28 100.0 32 ............................ AGAAGAAATTCAAGGATGATGGGAAAGACGGC 160523 28 100.0 32 ............................ ATAAAACGGATGAAGTGGTGCCTGAGTCCTAT 160463 28 100.0 32 ............................ GCGAGTAACTCCAGATTTGGTTTTAGCGTCCA 160403 28 100.0 32 ............................ CACATGAATGCGATGTTTTTGCGTCGCGAAAA 160343 28 100.0 32 ............................ TATTACAGCGACCCGATGGGGTATGACCGGAT 160283 28 89.3 32 .......A...TG............... ATATCCGGGTTTTCGTCGTTGAACTTGTCGAT 160223 28 89.3 32 .......A...TG............... TGCAGGGATGGTAAGCACGCCCTCAGCGAATT 160163 28 89.3 32 .......A...TG............... CGTGCATTGTCTATTATTGCCAAGTGGAGCAG 160103 28 92.9 33 ...........TG............... TCAGGGCCAGAAAAACGAGCATCATGTCTTCGT 160042 28 100.0 32 ............................ GGTGACGGATTTCCATACGTTGCTCAGCGCGC 159982 28 100.0 32 ............................ CCTTCGGCTCCCCGGCGTTGCCGGGTCGTCAA 159922 28 92.9 32 ...........AG............... TGGTGATATCTGCTCTCAAAGGTGGGCAGATT 159862 28 96.4 32 .............C.............. GAGCACTAATAAAAACTGGTTTGCAAGGCTGC 159802 27 78.6 0 ...........T.C......T..-..CG | GG [159779] ========== ====== ====== ====== ============================ ================================= ================== 31 28 97.5 32 GTTCACTGCCGCATAGGCAGCTTAGAAA # Left flank : AGGTACTGACGGCACTGGAACAAACCGGCTGGCGCACAGGGCTACGCGACTATAGCACCATCACCGATGTATTAACGGTGCCAACTGGTGCGCAGTACCGCACCGTGCGCCGGGTGCAGGTGAAAAGCAGCGCTGAGCGCCTGCGCCGCCGGGCGGTGAGCAAAGGTTGGCTGACCGCGGATGAAGCCGCCGCCCGCATTCCCTATGCGGTGGAAAAACGCACCTCGCTGCCGTATCTACCGCTGCGCAGCCTTTCCAGCGGACAAACGTTTTTGCTGTTTGTCGAGCACGGCCCGCTACAGGATAAACCGGTCGCCGGTACCTTCTCCAGCTACGGCTTAAGCGCGACCGCCACCATCCCGTGGTTTTGACCCTTTTTTTGCGGCCAGTTGTAACGTATTGATTTTCAATACCGCAATCTGGCCGCCAGAAAAAAAGGTTTTCCCGGGAAAACGGCAATTTTTCTTTAACAATCAGGCGATAAGCGATTGTTCGCTACA # Right flank : GGTTTACTGGCGTTAAAACTACGCTGAGGTGGGCGACTTCGCCGGATGCACGGCATGGATGCCGTGCAAGCCCATTCCGCGTAAGGAACGCGTAATGGGCGGTCCGAACAGCGAAGGCGAACGCCGAAGGCACCGCGTCAGCGGCGTAGTTTAGCCACTCAGCCAGAGGTCAAGGAGAGGTGGCGCTTGCACCTCTCCTTGTCGTGCGTGCGATGATGTGGCAAAGAAGCGACACGGTTTATCCCGCACGAAACCACCCACCGCCCCCACATACATTCGACAAACACATTCGCCAGCAGCACCTCGGCTGTTGCCAACAGCCCATCCCCGGCGGGCATAGCCGTTTCCTGCAAGGAAAAAAATCCCCCAACCGTTACCGGCTGGGGGAAAGGGCGTAAAAAAGTGAAAGGAATAACTTACTGTACGGCGGCGAAGGCAGCAGCGACGCGCTGTACGTTGTGATGGTTTAACCCGGCGATGCAAACACGGCCGCTGGCGAT # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 : GTTCACTGCCGCATAGGCAGCTTAGAAA # 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 [6,8] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTTCACTGCCGCATAGGCAGCTTAGAAA with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-7.70,-8.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [5-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [50.0-58.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 3 170591-171519 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAIZGB010000001.1 Dickeya oryzae strain A003-S1-M15 A3_(paired)_trimmed_(paired)_contig_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================= ================== 170591 28 100.0 32 ............................ TGTGCAGCAAGAACGGCTGGCGGATGCTATCG 170651 28 100.0 32 ............................ ATTTACCACTGAATACAAAGCGACCACTTGAT 170711 28 100.0 32 ............................ GGAGAGTTGGCGGCATCACTACTGGCACTTTC 170771 28 100.0 32 ............................ GTGCTGCACGCCAACCTGTGCATTGCGTTTGC 170831 28 100.0 32 ............................ TCAACACAGAAAAGGGGATGTGGGTCGGCAAC 170891 28 100.0 32 ............................ CTCTCAGTGTCGCGCGGATGATAATGCCTATG 170951 28 100.0 32 ............................ CCAACTGAACCACGAACAGCTTGCGTGCCGTT 171011 28 100.0 32 ............................ CGCGACATGCGCCAACATCAACTGTCTCTTTT 171071 28 92.9 32 ...........AG............... AGGGTAATTAAGAAAATCAGTCGTGCCGCCAA 171131 28 100.0 32 ............................ AACAAGCAGAAGAACGGCTATAAGCCGCTTCT 171191 28 100.0 32 ............................ AAGAACAGCGCTATGATGGCCGCGAAGAGCGC 171251 28 100.0 32 ............................ AGCTTCTGGTCGCGCTGCACCCAGCCCAGCCC 171311 28 92.9 33 ...........AG............... CCATAAAATTCACCCTCACCCAGCGCGATCAGA 171372 28 92.9 32 ...........AG............... TCGGCAGCAATGCCTGTCGTAATGCCGGAAGC 171432 28 92.9 32 ...........AG............... TTTTTGCAAAAGGTGATCAGCCACTCCTATTT 171492 28 92.9 0 ...........AG............... | ========== ====== ====== ====== ============================ ================================= ================== 16 28 97.8 32 GTTCACTGCCGGATAGGCAGCTTAGAAA # Left flank : CGTGACCGAAGTACCGGTGCCAAGCATCACCACGCTGGTATTAGCAATCGGGATATTCCAGTACAACGACTGATTCCCTTCTTCGGTGACATATTCCACCCGCCCGCCATTCACCAAAATACGGCAATGTTGGAGGTAATAAATATTGGCGCGTTTGGAATGCAGAATAGTTTTTAAATCCGACGGGCTGAATACGTTATCCATAAAACCGTTTCTCTGTGGTGGTGATAAAACGACCCCATCCGCGTAATAAAACGCAGACTAATAATTCATTGAAAAACACGTAATACACTGGAAAGTAACGAGAATCAGCCTAGCACAACCCAAACCAGAAAATGAATGACGCCAGAAACACTTTTCCCGCTTTAATACCCTTTTTTTCAGACGTCTTTTTCGATATTGAAAAATCAATAAGTTACCGACAGCCGAAAAAAAGGGTCTGACAGCGAAAATCGACAATTGCAGGCTGAAATACAACGAGTTAGAGTCAACAGGCTACA # Right flank : AACAGTTCTGGCGATTAAGGGGATTAAATTAGATTTTCACTGCCGTACAAGCGGTGGTCGACGGGGTTTACTGGCGTTAAAACTACGCTGAGGTGGGCGACTTCGCCGGATGAGCGGCAGGACGCCGCGAAAGCCTGTGCCGCTCCGGGAGAGCGTCACAGGCGGTCCGAACAGCGAAGGCGAACGCCGAAGGCACCGCGTTAGCGGCGTAGTTTAGCCATCAAGCCAGAGGTCAAGGAGAGGTGGCGCTTGCACCTCTCCTTGTCGTGCGTGCGATGATGTGGCAAAGAAGCGACACGGTCTATCCCGCACGAAACCCTTCACGCTTTCAGGCACGCCTTCGGTGTCGGCGTGATGCGGTTTATCCCGCACGAAACCCTCCACCACACTACCCTATACACTACGCCCTTAATCCAACAGCGCTTTCCCCGCTTCAGGGATATTCAGTCAAAACGACGCCCAATCACTATTGCTACCCGCCGCCGCCGTGGCCCGCTTTT # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 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 : GTTCACTGCCGGATAGGCAGCTTAGAAA # Alternate repeat : GTTCACTGCCGAGTAGGCAGCTTAGAAA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [8,6] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTCACTGCCGGATAGGCAGCTTAGAAA with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-8.00,-7.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [56.7-55.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 1 124509-125880 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAIZGB010000014.1 Dickeya oryzae strain A003-S1-M15 A3_(paired)_trimmed_(paired)_contig_14, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 124509 29 100.0 32 ............................. TCGTTAACCTCTTTGGTTTTCTGCGCGGTATC 124570 29 100.0 32 ............................. TGGGCGATGACGCTGTTTTGTAATCCTTCGCG 124631 29 96.6 32 ............................T GCTGCACATCATGACTGATGACATCAGTCGGT 124692 29 100.0 32 ............................. CCAAAATCGCTATCAACAATTGGGACGGCACT 124753 29 100.0 32 ............................. GCGGAATTGTCCCAGTCGTCGGCGTGGACGGA 124814 29 100.0 32 ............................. AGGTAAATCGGCAAAATCCGGTAGAAGAATCG 124875 29 100.0 33 ............................. TAATTTTATGCGCCCCTGCCAGTCTAGTGCCAG 124937 29 100.0 32 ............................. TATACAGAGAGCTTTTTCAGCGGAAATGCGCG 124998 29 100.0 32 ............................. GGAAAGCCGTGTCAAGACCGGCTGAGACCATC 125059 29 100.0 32 ............................. CCATTTACCCGCGCACGACCTTCTTTCACCGT 125120 29 100.0 32 ............................. AGTTGCGCCGTCAGGATCAGACGTATGTTGAT 125181 29 100.0 32 ............................. TAGTTTCAACACAAACAACGTGTATCTGTCCT 125242 29 100.0 32 ............................. GCTGAAATCGCCACTATCAATGAGCAGCACTC 125303 29 100.0 32 ............................. CTGGCCGAAATTACCGAAGACAAATTCGACGC 125364 29 100.0 32 ............................. CCGCCAAGAAAGCCGCTGGTGATGAAACGAAA 125425 29 100.0 32 ............................. TCACGGTTCGTACAATGTGGGAATTTACCCTG 125486 29 100.0 32 ............................. CTCAAGAAGATCGGCGACTATCCCCACATCCC 125547 29 100.0 32 ............................. CATAGTCTTGTGATCTGACTGCTTGATCTTTC 125608 29 96.6 32 ...........T................. CCCCTTAAACACCTCTATATGCTCTTTTTTCT 125669 29 100.0 32 ............................. GTGGCTACGGGTTCCAGCCTAACGCGCTACCA 125730 29 96.6 32 ........T.................... GAGCGAGAAAAGACCCGAGTAAGGATGGAAAA 125791 29 96.6 32 .....................G....... AACGGAGCCAAAGCAATGGCTACGCTCGTCGA 125852 29 86.2 0 ..A......................GG.A | ========== ====== ====== ====== ============================= ================================= ================== 23 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTGATTGAAGACGTGCTGGCCGCTGGCGAGATTGAGCCACCGCAGGCACCGCCAGACGCACAACCGCCCGCCATTCCCGAACCGACACCCTTTGGTGACGCCGGGCACCGGGGGCATGGCGGATGAGCATGCTGGTGGTGGTAACAGAAAACGTGCCGCCACGCCTGCGTGGTCGGCTGGCGGTTTGGCTGCTGGAGGTGCGTGCTGGCGTCTATGTGGGTGATACCTCGCGTAGGGTACGGGAAATGATCTGGCAGCAGGTGGTGGAACTGGCCGAACAGGGCAATGTAGTGATGGCCTGGGCCACCAACACCGAGTCCGGTTTTGAGTTCCAGACCTTCGGCGAAAACCGGCGGATGCCGGTGGACCTCGATGGTTTGCGGTTAGTCTCTTTTCACCCCGTTGAAAATCAGTGAGTTAGTGCTCTTTAACAACCGGGAAAAATCGGTAGAATTTTCCTGCCTCTAAAACGCCTTATAAAACAGGTATATACTTTTAGA # Right flank : AGAAATAAATCGGGCACGCGGTGTGATTACGCGTGCCCGATGTTGGACCGTCAGACAGGGTTAAAACGACTGCCAGTCGTCTGCGCTGGCTGATGTTTTGGCGGCGGGTTTTTTGAGTGCCAGTGTTTTCGCTGCCGGTGCCGATGAAGGGGAAATCATCGGTCGGTTGCCCGCCAGATTGTAAGACCCGCTTCTTGCTTCTTCGAGATGGAAAATACTGACCACCTGTTTTAACTGCTCAGCCTGCTGTTGCAGGGATTGCGTGGCGTTGTAGCCTTCTCTGACCAGCGAAGCATTTTGCAGCGTGGTTTGTTCCATTTTATTAATCGCCTGGTTGACCTGCTCGATACCCAGTGACTGCTCCTGACTGGCGACGCTGATTTCGCCGACCAGTTCACTGACTTTGCGCACGCCATCCACAATCCCCTGAATGGAGACCCCGGCTTTTTCCACCAGCCGGTTCCCGGCGTCCACCGTTTCTACCGAATGACCGATCAGTT # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [1-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [68.3-43.3]%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 355245-355912 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAIZGB010000003.1 Dickeya oryzae strain A003-S1-M15 A3_(paired)_trimmed_(paired)_contig_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ===================================== ================================== ================== 355245 37 100.0 34 ..................................... CTAAAATTATCTTTATTTAATATATTTGTTTGTA 355316 37 100.0 33 ..................................... AAGTACGCGGTCACATACGCGTCAGGGGCTTTA 355386 37 100.0 32 ..................................... CCGTCTTTGCACGCGCCGGCATCCAGAATTTC 355455 37 100.0 34 ..................................... AGGAACAGCACCACCTCAGCCTCCAGCATCATCG 355526 37 100.0 32 ..................................... TATTTGACGCTGAGCTTCGAATGTTCTTTTAA 355595 37 97.3 32 ....................................T CAATGGGCGGGCCTGACGAATATAGCTATTTG 355664 37 97.3 33 ............G........................ ATAGGCGGCACGGGCGGCAGCATAGGCGGCATC 355734 37 100.0 34 ..................................... CCAAATTTTTCAACGCGATTGGATGATGAACCTT 355805 37 83.8 33 ....T..T....TCA....................G. ACTTCCTCCTCTTCTTCAACTTCTTCCTCTCCT 355875 37 81.1 0 ....T..T......C.................TTCT. | T [355882] ========== ====== ====== ====== ===================================== ================================== ================== 10 37 95.9 33 GTCCGTAAGGACATTCCCTGACTGAAGGGATTAAGAC # Left flank : GGCTGCGAAAAATGCAGCGACGCTGCGCGTCACAAGGCTGGGCATTGCAAAAGTCGCTTTTTTTATTTGCGCTTACCGTACCGGAACGCCAGGCTCTATGCCGTGAATTACAACGTCTGATTAACCCAGAGGAAGACCGTCTGCTTTGCCTGCCGTTTGACACCCCACCCGGCAGTTTTCACCTTGGCCCTCGATCGGACTACTTACTCATTCACTCCGACCCGCGTCTGAATGATTTTGTGTTTTAAGCACACAACCGGCACGTAATTTGCTTATTTTCCCCTCCGCGCCCATCGCTCCCCAGTGGGCCGCTTTTACGTACAAAAAACCAGCAAAAATAAAATAACGCTCACCACAATTCACGCCACATCAAGCCATTAGCGCCACGGCGTTTGTAGTGGCACTACTTTTGCTTAAAAACGTGTTTTTTGCGGCGGAAAAAACAGAAAAAAACGCGTTTGCTTGCTCAAATAAAAACAATGAGTTATACATTTTCATTA # Right flank : CTCCACCGGGCGGTTTTCCGCCCATTCTCAAATTTCCTTTATCCGTTGGTAGGCATTCCGGCTGAAATTTCGTATGGTTAAGCCCGTTACGGGCGGGCAACGTGGCGCGCCCCGTTTTGGCACAAGGAGATGTCAATGAACTGGCTTGCCGCCTCTTGCCATGTGGCTGCCTTTGCGCTGTTACATAACCTGAAACCGCTGGCGCAGCGTGCCGGCATTCAGGACTTCCCGTCACCGGCACTGGCAAACAAACTGTTTGCGCCGCTACCGGAAAGCCTCTCAAACCGTGCGGATCTGCACGAAAATACATTAACCCCGCTATTGGATTTCGCCGCCAGACTGGCGCGCGGCGTGCCGGACACGCCCGTAAGCCGTGGCGAAACCGGGCTGATACCGCTCACCCACCTGTTAGCGGACGATAACCACAGCGCCCCGGCAGCACCCAGTTACAGCCCGCTGGCCCCGCTGGGGGTCGATTCGCTGATGCCGGTGACGGCAGC # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 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 : GTCCGTAAGGACATTCCCTGACTGAAGGGATTAAGAC # 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:51.35%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: F [-7.50,-6.10] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-16] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-46.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [1.05,0 Confidence: HIGH] # Array family : NA // Array 2 364678-365030 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAIZGB010000003.1 Dickeya oryzae strain A003-S1-M15 A3_(paired)_trimmed_(paired)_contig_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ===================================== ==================================================================== ================== 364678 37 100.0 34 ..................................... GATATCACCGCCGAATACCGTGCAGAACATCTGC 364749 37 100.0 34 ..................................... CTGCAGGTCATACCCGCATTTCATCAGATACTTG 364820 37 62.2 68 .......................NNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN 364925 37 100.0 32 ..................................... GTAGCGTGCAAGGGTTGTTTCATCCGTCCAGT 364994 37 100.0 0 ..................................... | ========== ====== ====== ====== ===================================== ==================================================================== ================== 5 37 92.4 42 GTCCTTACGGACTTGCCCTGACTGAAGGGATTAAGAC # Left flank : TACCATCTTTTTTAGATAACTCTTTTATCTGATTAGACATATTATTTTCCTGATTTTAATTTTATAAATATCCACCCGGAGGGAAAGTATACACCCTAAATAATTCGAGTTGCAGGAAGGCGGCAACCGAGTGAATCCCCAGGAGCTTACTCAAGTAAGTGACTGGGGTGAGCGTGGGAAGCCAACGCACCTGCAACTTGAAGTATGACGGGTATATCGCTTATCTATAAATTTTCCTGCGATATCAGGCCCCCGTTTAGGCACAGATTTTGCTTATTTTCGCCACTCTGCCCGTCGCTCCCCGGCGGGCCGCTTTTTCGCACAAAAACAGGCAAAAATAAAACCATACCGATAACAACTCACATGACATCAAGCCATTAGCACCACAACACATGCACTGGCACCGTTTTTGCTTAAAAACGTGTTTTTTGAGGCGGGAAAAACAGAAAAAAGCGCACAGCCTTGATCAAATAAAAACAATGGGTTATAAGTTTTCATTA # Right flank : TATATTCAATAGATGCATTATCCATAATTTTTTGTCCTTACGGACTTGCCCTGA # Questionable array : NO Score: 5.01 # Score Detail : 1:0, 2:3, 3:0, 4:0.62, 5:0, 6:0.25, 7:-0.66, 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 : GTCCTTACGGACTTGCCCTGACTGAAGGGATTAAGAC # 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 [9,9] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: F [-6.10,-3.90] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [70.0-60.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.64,0 Confidence: HIGH] # Array family : NA //