Array 1 4233799-4235291 **** Predicted by CRISPRDetect 2.4 ***
>NZ_OU015323.1 Salmonella enterica subsp. enterica serovar Typhimurium strain AUSMDU00004549 isolate AUSMDU00004549 chromosome C1, complete sequence Array_Orientation: Forward
Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion
========== ====== ====== ====== ============================= ================================= ==================
4233799 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG
4233860 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC
4233921 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC
4233982 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA
4234043 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC
4234104 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT
4234165 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT
4234226 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT
4234287 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC
4234348 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT
4234409 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC
4234470 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA
4234531 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA
4234592 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT
4234653 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA
4234714 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC
4234776 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA
4234837 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG
4234898 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT
4234959 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA
4235020 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA
4235081 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA
4235142 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA
4235203 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT
4235264 28 82.8 0 ...............A.AA....-.G... |
========== ====== ====== ====== ============================= ================================= ==================
25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG
# Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT
# Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG
# 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: 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 [0-10] Score: 0.41/0.41
# AT richness analysis in flanks prediction: NA [70.0-63.3]%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 2 4251423-4253387 **** Predicted by CRISPRDetect 2.4 ***
>NZ_OU015323.1 Salmonella enterica subsp. enterica serovar Typhimurium strain AUSMDU00004549 isolate AUSMDU00004549 chromosome C1, complete sequence Array_Orientation: Forward
Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion
========== ====== ====== ====== ============================= ================================= ==================
4251423 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA
4251484 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG
4251545 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC
4251606 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC
4251667 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG
4251728 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT
4251789 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC
4251851 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT
4251912 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA
4251973 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG
4252034 29 96.6 32 ..........................A.. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA
4252095 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA
4252156 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC
4252217 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC
4252278 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC
4252339 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC
4252400 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG
4252461 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG
4252522 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC
4252583 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA
4252644 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC
4252706 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT
4252767 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [4252809]
4252809 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT
4252870 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA
4252931 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA
4252992 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA
4253053 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT
4253114 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC
4253175 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA
4253236 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC
4253297 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA
4253358 29 96.6 0 A............................ | A [4253384]
========== ====== ====== ====== ============================= ================================= ==================
33 29 98.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG
# Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT
# Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG
# Questionable array : NO Score: 6.13
# Score Detail : 1:0, 2:3, 3:0, 4:0.92, 5:0, 6:0.25, 7:-0.04, 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 [2-13] 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],
//