Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007953.1 Hibiscus syriacus cultivar Beakdansim tig00110378_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 794529
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 3 of 4
Found at i:455584 original size:20 final size:20
Alignment explanation
Indices: 455559--455596 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
455549 TTTTGGTGTA
455559 GAGGGAATCGATACCCCCAT
1 GAGGGAATCGATACCCCCAT
*
455579 GAGGGAATCGATTCCCCC
1 GAGGGAATCGATACCCCC
455597 TTTGAAGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.32, G:0.26, T:0.16
Consensus pattern (20 bp):
GAGGGAATCGATACCCCCAT
Found at i:461463 original size:2 final size:2
Alignment explanation
Indices: 461447--461482 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
461437 AAAATTTTAA
*
461447 AT AT AA AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
461483 AAGCATATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:461803 original size:53 final size:53
Alignment explanation
Indices: 461740--462009 Score: 260
Period size: 53 Copynumber: 5.1 Consensus size: 53
461730 ATGAATAGAA
*
461740 GGGTTAGAGAAGATGAACAGAGATAGAAGATGAAGAGGCTCGGTTTGGGTTTG
1 GGGTTAGAGAAGATGAACAAAGATAGAAGATGAAGAGGCTCGGTTTGGGTTTG
* * * * *
461793 GGGTTAGAGAAGATAAACAAAGATAGAATATGAAGAGGTTCGTTTTGGGTTTT
1 GGGTTAGAGAAGATGAACAAAGATAGAAGATGAAGAGGCTCGGTTTGGGTTTG
* * * * * * *
461846 GGGTTAAAAAATATGAACATATATAGAAGATGAAGAGACTAGGTTTGGGTTTG
1 GGGTTAGAGAAGATGAACAAAGATAGAAGATGAAGAGGCTCGGTTTGGGTTTG
* * * * * * **
461899 GGGTTAAAAAAGATGAATATAGATAGAAGA-GAA-AGGTTAGGTTAAGGTTTG
1 GGGTTAGAGAAGATGAACAAAGATAGAAGATGAAGAGGCTCGGTTTGGGTTTG
* * * *
461950 GGATTAGAGAATG-TGAACAAAGATAGAA-ATTGAAGATGCTCAGTTAGGGTTTG
1 GGGTTAGAGAA-GATGAACAAAGATAGAAGA-TGAAGAGGCTCGGTTTGGGTTTG
*
462003 GGTTTAG
1 GGGTTAG
462010 GTTTAAGAAG
Statistics
Matches: 177, Mismatches: 36, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
50 1 0.01
51 35 0.20
52 7 0.04
53 134 0.76
ACGTcount: A:0.37, C:0.04, G:0.32, T:0.27
Consensus pattern (53 bp):
GGGTTAGAGAAGATGAACAAAGATAGAAGATGAAGAGGCTCGGTTTGGGTTTG
Found at i:462787 original size:26 final size:26
Alignment explanation
Indices: 462730--462789 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
462720 TCTTTCACTT
*
462730 AATATATATGTTTATATTAATAAATT
1 AATATATATGTTTATATTAATAAATG
*
462756 AATATATA-GTTTATATATACT-AATG
1 AATATATATGTTTATAT-TAATAAATG
462781 AACTATATA
1 AA-TATATA
462790 ATATATAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 13 0.43
26 17 0.57
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (26 bp):
AATATATATGTTTATATTAATAAATG
Found at i:462792 original size:33 final size:33
Alignment explanation
Indices: 462755--462941 Score: 293
Period size: 33 Copynumber: 5.6 Consensus size: 33
462745 ATTAATAAAT
462755 TAATATATAGTTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
462788 TAATATATAGTTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
*
462821 CAAACTATATAGTTTATATATACTAATGAACTATA
1 -TAA-TATATAGTTTATATATACTAATGAACTATA
* * *
462856 TAATATATAATTTTTATATACTAATGAACAATA
1 TAATATATAGTTTATATATACTAATGAACTATA
*
462889 TACTATATAGTTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
* *
462922 TACTATATAGTTTGTATATA
1 TAATATATAGTTTATATATA
462942 GTTTATATAT
Statistics
Matches: 142, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
33 108 0.76
34 4 0.03
35 30 0.21
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.42
Consensus pattern (33 bp):
TAATATATAGTTTATATATACTAATGAACTATA
Found at i:462804 original size:66 final size:66
Alignment explanation
Indices: 462742--462940 Score: 233
Period size: 68 Copynumber: 3.0 Consensus size: 66
462732 TATATATGTT
462742 TATATTAATAAATTAATATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATAT
1 TATATTAATAAATTAATATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATAT
462807 AC
66 -C
* * ** * *
462809 TA-ATGAACTATACAAACTATATAGTTTATATATACTAATGAACTATATAATATATAATTTTTAT
1 TATATTAA-TAAATTAA-TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATAT
462873 ATAC
64 AT-C
* * * * *
462877 TA-ATGAA-CAATATACTATATAGTTTATATATACTAATGAACTATATACTATATAGTTTGTATA
1 TATATTAATAAAT-TAATATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATA
462940 T
65 T
462941 AGTTTATATA
Statistics
Matches: 115, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
66 51 0.44
67 8 0.07
68 56 0.49
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.43
Consensus pattern (66 bp):
TATATTAATAAATTAATATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATAT
C
Found at i:462940 original size:44 final size:42
Alignment explanation
Indices: 462892--463018 Score: 146
Period size: 44 Copynumber: 3.1 Consensus size: 42
462882 AACAATATAC
462892 TATATAGTTTATATATACTAATGAACTATATACTATATAGTTT
1 TATATAGTTTATATATACTAATGAACTATATACTA-ATAGTTT
*
462935 GTATATAGTTTATATATACTAATAAACT-T-TA-TAATA----
1 -TATATAGTTTATATATACTAATGAACTATATACTAATAGTTT
462971 TATA-A-TTTATATATACTAATGAACTATATACTAAATAGTTT
1 TATATAGTTTATATATACTAATGAACTATATACT-AATAGTTT
463012 ATATATA
1 -TATATA
463019 CTAATAAACT
Statistics
Matches: 71, Mismatches: 2, Indels: 21
0.76 0.02 0.22
Matches are distributed among these distances:
33 19 0.27
34 2 0.03
35 6 0.08
36 1 0.01
37 4 0.06
40 3 0.04
41 2 0.03
42 6 0.08
43 2 0.03
44 26 0.37
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (42 bp):
TATATAGTTTATATATACTAATGAACTATATACTAATAGTTT
Found at i:462953 original size:110 final size:110
Alignment explanation
Indices: 462826--463051 Score: 362
Period size: 110 Copynumber: 2.1 Consensus size: 110
462816 CTATACAAAC
* *
462826 TATATAGTTTATATATACTAATGAACTATATAATATATAATTTTTATATACTAATGAACAATATA
1 TATATAGTTTATATATACTAATAAACTATATAATATATAATTTATATATACTAATGAACAATATA
* * * *
462891 CTATATAGTTTATATATACTAATGAACTATATACTATATAGTTTG
66 CTAAATAGTTTATATATACTAATAAACTATATACTATATAATTTA
* *
462936 TATATAGTTTATATATACTAATAAACTTTATAATATATAATTTATATATACTAATGAACTATATA
1 TATATAGTTTATATATACTAATAAACTATATAATATATAATTTATATATACTAATGAACAATATA
* *
463001 CTAAATAGTTTATATATACTAATAAACTTTATAGTATATAATTTA
66 CTAAATAGTTTATATATACTAATAAACTATATACTATATAATTTA
463046 TATATA
1 TATATA
463052 CTAATGAACG
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
110 106 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (110 bp):
TATATAGTTTATATATACTAATAAACTATATAATATATAATTTATATATACTAATGAACAATATA
CTAAATAGTTTATATATACTAATAAACTATATACTATATAATTTA
Found at i:462972 original size:66 final size:66
Alignment explanation
Indices: 462758--463095 Score: 306
Period size: 66 Copynumber: 4.9 Consensus size: 66
462748 AATAAATTAA
* *
462758 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAACTATACA
1 TATATAG-TAATATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAACTA-ATA
462823 AAC
64 AAC
* * * *
462826 TATATAGTTTATATATACTAATGAACTATATAATATATAATTTTTATATACTAATGAAC-AATAT
1 TATATAG-TAATATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAACTAATAA
462890 AC
65 AC
* * * *
462892 TATATAGTTTATATATACTAATGAACTATATACTATATAGTTTGTATATAGTTTATAT-ATACTA
1 TATATAG-TAATATATACTAATGAACTATATAATATATAGTTTATATATA--CTA-ATGA-ACTA
462956 ATAAAC
61 ATAAAC
* * * *
462962 TTTATAATATATAATTTATATATACTAATGAACTATATACTAAATAGTTTATATATACTAATAAA
1 --TAT-ATA-GT-A---ATATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAA
* * *
463027 CT-TTATAG
58 CTAATAAAC
* * *
463035 TATATAATTTATATATACTAATGAACGATATAATATATAGTTTATATATA-TAAATGAACTA
1 TATAT-AGTAATATATACTAATGAACTATATAATATATAGTTTATATATACT-AATGAACTA
463096 TATATTTTAT
Statistics
Matches: 230, Mismatches: 23, Indels: 35
0.80 0.08 0.12
Matches are distributed among these distances:
65 1 0.00
66 95 0.41
67 1 0.00
68 60 0.26
69 4 0.02
70 9 0.04
71 4 0.02
72 3 0.01
73 7 0.03
74 5 0.02
75 3 0.01
77 38 0.17
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (66 bp):
TATATAGTAATATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAACTAATAAA
C
Found at i:462973 original size:33 final size:33
Alignment explanation
Indices: 462936--463099 Score: 213
Period size: 33 Copynumber: 5.0 Consensus size: 33
462926 ATATAGTTTG
*
462936 TATATAGTTTATATATACTAATAAACTTTATAA
1 TATATAGTTTATATATACTAATAAACTATATAA
* * *
462969 TATATAATTTATATATACTAATGAACTATATAC
1 TATATAGTTTATATATACTAATAAACTATATAA
* * *
463002 TAAATAGTTTATATATACTAATAAACTTTATAG
1 TATATAGTTTATATATACTAATAAACTATATAA
* * *
463035 TATATAATTTATATATACTAATGAACGATATAA
1 TATATAGTTTATATATACTAATAAACTATATAA
*
463068 TATATAGTTTATATATA-TAAATGAACTATATA
1 TATATAGTTTATATATACT-AATAAACTATATA
463100 TTTTATTAAT
Statistics
Matches: 113, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
32 1 0.01
33 112 0.99
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (33 bp):
TATATAGTTTATATATACTAATAAACTATATAA
Found at i:462981 original size:14 final size:14
Alignment explanation
Indices: 462962--463056 Score: 50
Period size: 14 Copynumber: 6.1 Consensus size: 14
462952 ACTAATAAAC
462962 TTTATAATATA-TAA
1 TTTAT-ATATACTAA
462976 TTTATATATACTAA
1 TTTATATATACTAA
**
462990 TGAACTATATACTAAATA
1 TTTA-TATATACT--A-A
463008 GTTTATATATACTAATAAA
1 -TTTATATATAC---T-AA
463027 CTTTATAGTATA-TAA
1 -TTTATA-TATACTAA
463042 TTTATATATACTAA
1 TTTATATATACTAA
463056 T
1 T
463057 GAACGATATA
Statistics
Matches: 65, Mismatches: 5, Indels: 22
0.71 0.05 0.24
Matches are distributed among these distances:
13 9 0.14
14 20 0.31
15 10 0.15
16 1 0.02
17 1 0.02
18 8 0.12
19 9 0.14
20 6 0.09
21 1 0.02
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (14 bp):
TTTATATATACTAA
Found at i:463194 original size:27 final size:28
Alignment explanation
Indices: 463164--463225 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
463154 ACATATATAT
* *
463164 ATAAACTATAAA-CTATAGTTTATATTA
1 ATAAACTATAAAGATATAATTTATATTA
463191 ATAAACTATAAAGTATATAATTTATATTA
1 ATAAACTATAAAG-ATATAATTTATATTA
463220 ATAAAC
1 ATAAAC
463226 CATATAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 12 0.39
29 19 0.61
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (28 bp):
ATAAACTATAAAGATATAATTTATATTA
Found at i:463238 original size:29 final size:29
Alignment explanation
Indices: 463177--463238 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
463167 AACTATAAAC
* *
463177 TATAGTTTATATTAATAAACTATAAAGTA
1 TATAATTTATATTAATAAACCATAAAGTA
* *
463206 TATAATTTATATTAATAAACCATATAGTT
1 TATAATTTATATTAATAAACCATAAAGTA
463235 TATA
1 TATA
463239 TATAATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (29 bp):
TATAATTTATATTAATAAACCATAAAGTA
Found at i:463242 original size:2 final size:2
Alignment explanation
Indices: 463235--463372 Score: 104
Period size: 2 Copynumber: 67.0 Consensus size: 2
463225 CCATATAGTT
*
463235 TA TA TA TA -A TA TA TA -A TA GTT TA TA TA TA GT- TCA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA T-A TA TA TA
* * * * * * *
463275 CA CTA CA TA GTT TA TA TA TA GTA TA TA AA CA TA AA CTA TA TA GTT
1 TA -TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA
463320 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
463362 TA TA TA T- TA TA
1 TA TA TA TA TA TA
463373 ATTGTTTAAA
Statistics
Matches: 109, Mismatches: 15, Indels: 24
0.74 0.10 0.16
Matches are distributed among these distances:
1 4 0.04
2 96 0.88
3 9 0.08
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:463246 original size:29 final size:29
Alignment explanation
Indices: 463185--463252 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
463175 ACTATAGTTT
* *
463185 ATATTAATAAACTATAAAGTATATAATTT
1 ATATTAATAAACCATAAAGTATATAATTA
* *
463214 ATATTAATAAACCATATAGTTTAT-ATATA
1 ATATTAATAAACCATAAAGTATATAAT-TA
463243 ATATATAATA
1 ATAT-TAATA
463253 GTTTATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 2 0.06
29 26 0.79
30 5 0.15
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.41
Consensus pattern (29 bp):
ATATTAATAAACCATAAAGTATATAATTA
Found at i:463288 original size:31 final size:32
Alignment explanation
Indices: 463250--463333 Score: 102
Period size: 33 Copynumber: 2.7 Consensus size: 32
463240 ATAATATATA
* *
463250 ATAGTTTATATATAGT-TCAT-ATATACACTAC
1 ATAGTTTATATATAGTAT-ATAACATAAACTAC
*
463281 ATAGTTTATATATAGTATATAAACATAAACTAT
1 ATAGTTTATATATAGTATAT-AACATAAACTAC
463314 ATAGTTTATATATA-TATATA
1 ATAGTTTATATATAGTATATA
463334 TATATATATA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
31 19 0.40
32 6 0.13
33 22 0.47
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (32 bp):
ATAGTTTATATATAGTATATAACATAAACTAC
Found at i:465814 original size:13 final size:14
Alignment explanation
Indices: 465796--465825 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
465786 TTTACGTAAC
465796 AATATTTA-AGATT
1 AATATTTACAGATT
465809 AATATTTACAGATT
1 AATATTTACAGATT
465823 AAT
1 AAT
465826 CTTATAACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (14 bp):
AATATTTACAGATT
Found at i:465923 original size:18 final size:18
Alignment explanation
Indices: 465900--465939 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
465890 GAAATGTTTA
465900 TGAAGGAATTGAAATATG
1 TGAAGGAATTGAAATATG
* *
465918 TGAAGGAATTGGAATCTG
1 TGAAGGAATTGAAATATG
465936 TGAA
1 TGAA
465940 ATAATTAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.03, G:0.30, T:0.28
Consensus pattern (18 bp):
TGAAGGAATTGAAATATG
Found at i:466816 original size:223 final size:222
Alignment explanation
Indices: 466383--466826 Score: 664
Period size: 223 Copynumber: 2.0 Consensus size: 222
466373 ACACGACACA
*
466383 AAATAATAAAAAATTATTTTTATTCAATAAAAACATTAACTTAATTGAAAAAAGTATAAATAGAT
1 AAATAATAAAAAATTATTTTTATTCAATAAAAACAGTAACTTAATTGAAAAAAG-ATAAATAGAT
*
466448 GGATATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATTTTTTTCGGGTCGGTCCG
65 GGATATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATTATTTTCGGGTCGG--CG
* * * * *
466513 GTTTTTTTCACTCTAAACCCAACCCGACCTGAATATCAAACTTAAAAAAACCTGACCCGACCCGA
128 GTATTTTTCACCCTAAACCCAACCCAACCCGAATATCAAACTTAAAAAAACCTGACCCAACCCGA
466578 ACAAAATAAAGTTTCACCCGACCCGACCTG
193 ACAAAATAAAGTTTCACCCGACCCGACCTG
* *
466608 AAATAATAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAA-ATATATAGATG
1 AAATAATAAAAAATTATTTTTATTCAATAAAAACAGTAACTTAATTGAAAAAAGATAAATAGATG
*
466672 GATATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATA-TATTTTCGGGTC-G-GGTA
66 GATATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATTATTTTCGGGTCGGCGGTA
*
466734 TTTTTCACCCTAAACCCGAATCCGACCCAACCCGAATATCATACTTAAAAAAACC-GACCCAACC
131 TTTTTCACCCTAAACCC--A----ACCCAACCCGAATATCAAACTTAAAAAAACCTGACCCAACC
*
466798 CGACCAAAATAAAGTTTCACCCGACCCGA
190 CGAACAAAATAAAGTTTCACCCGACCCGA
466827 ATCTATAAAT
Statistics
Matches: 201, Mismatches: 12, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
218 19 0.09
220 1 0.00
221 1 0.00
222 11 0.05
223 90 0.45
224 28 0.14
225 51 0.25
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.30
Consensus pattern (222 bp):
AAATAATAAAAAATTATTTTTATTCAATAAAAACAGTAACTTAATTGAAAAAAGATAAATAGATG
GATATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATTATTTTCGGGTCGGCGGTA
TTTTTCACCCTAAACCCAACCCAACCCGAATATCAAACTTAAAAAAACCTGACCCAACCCGAACA
AAATAAAGTTTCACCCGACCCGACCTG
Found at i:472574 original size:22 final size:22
Alignment explanation
Indices: 472546--472590 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
472536 GCATGGCTTG
472546 TGCATCGATGCATCGAATGCAT
1 TGCATCGATGCATCGAATGCAT
472568 TGCATCGATGCATCGAATGCAT
1 TGCATCGATGCATCGAATGCAT
472590 T
1 T
472591 TGATGTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (22 bp):
TGCATCGATGCATCGAATGCAT
Found at i:475365 original size:23 final size:23
Alignment explanation
Indices: 475331--475411 Score: 80
Period size: 23 Copynumber: 3.6 Consensus size: 23
475321 ACCCGATGGA
475331 TGCATCGATGCACATTCAAGGAG
1 TGCATCGATGCACATTCAAGGAG
* *
475354 TGCATCGTTGCATC-TTC-ATGA-
1 TGCATCGATGCA-CATTCAAGGAG
*
475375 TGTATCGATGCACATTCAAAGG-G
1 TGCATCGATGCACATTC-AAGGAG
475398 ATGCATCGATGCAC
1 -TGCATCGATGCAC
475412 TGTTCAATGT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
20 1 0.02
21 13 0.28
22 3 0.07
23 16 0.35
24 13 0.28
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGAG
Found at i:475422 original size:44 final size:43
Alignment explanation
Indices: 475329--475430 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 43
475319 AAACCCGATG
* *
475329 GATGCATCGATGCACATTCAAGGAGTGCATCGTTGCATCTTCA
1 GATGTATCGATGCACATTCAAGGAGTGCATCGATGCATCTTCA
*
475372 TGATGTATCGATGCACATTCAAAGG-GATGCATCGATGCACTGTTCA
1 -GATGTATCGATGCACATTC-AAGGAG-TGCATCGATGCA-TCTTCA
*
475418 -ATGTATTGATGCA
1 GATGTATCGATGCA
475431 TTATGCACAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
44 31 0.61
45 15 0.29
46 5 0.10
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (43 bp):
GATGTATCGATGCACATTCAAGGAGTGCATCGATGCATCTTCA
Found at i:480940 original size:66 final size:63
Alignment explanation
Indices: 480820--480979 Score: 171
Period size: 66 Copynumber: 2.5 Consensus size: 63
480810 TGCACTAATA
*
480820 GTGCACGATGCATGAAGTGCATTCAATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGCTT
1 GTGCACGATGCATGAAGTGCATTCAATGTTTCAAAATACCCTGAGTGCATCGATGCATGGCTT
* *
480883 GTGCATCGATGCATCGAA-TGCATTCGATGTTTTTCATAAA-ACCCTGAGTGCATCGATGTATGG
1 GTGCA-CGATGCAT-GAAGTGCATTCAATG--TTTCA-AAATACCCTGAGTGCATCGATGCATGG
***
480946 AGA
61 CTT
* * *
480949 GTGAATCGATGCATAAACTGCATTCAATGTT
1 GTGCA-CGATGCATGAAGTGCATTCAATGTT
480980 CAATTTATTC
Statistics
Matches: 82, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
63 5 0.06
64 20 0.24
65 5 0.06
66 49 0.60
67 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (63 bp):
GTGCACGATGCATGAAGTGCATTCAATGTTTCAAAATACCCTGAGTGCATCGATGCATGGCTT
Found at i:484021 original size:23 final size:23
Alignment explanation
Indices: 483994--484050 Score: 82
Period size: 21 Copynumber: 2.6 Consensus size: 23
483984 CTCAGAGGGA
483994 ACCGATTCCCCCCCCAAGGGGGT
1 ACCGATTCCCCCCCCAAGGGGGT
*
484017 ACCGATT--CCCCCTAAGGGGGT
1 ACCGATTCCCCCCCCAAGGGGGT
*
484038 ACTGATTCCCCCC
1 ACCGATTCCCCCC
484051 TGCATGGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 19 0.63
23 11 0.37
ACGTcount: A:0.18, C:0.42, G:0.23, T:0.18
Consensus pattern (23 bp):
ACCGATTCCCCCCCCAAGGGGGT
Found at i:487480 original size:22 final size:23
Alignment explanation
Indices: 487455--487498 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
487445 AATTAAGTTT
487455 TAATCTTA-AAACAATTTCAAAA
1 TAATCTTACAAACAATTTCAAAA
* **
487477 TAATTTTACAAAGTATTTCAAA
1 TAATCTTACAAACAATTTCAAA
487499 CCATTTCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.36
Consensus pattern (23 bp):
TAATCTTACAAACAATTTCAAAA
Found at i:487709 original size:21 final size:21
Alignment explanation
Indices: 487684--487724 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
487674 ATTTGAATAT
*
487684 TATGAAGGGGTATCGATTCCA
1 TATGAAGGGGTACCGATTCCA
487705 TATGAAGGGGTACCGATTCC
1 TATGAAGGGGTACCGATTCC
487725 CCCCATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCA
Found at i:487787 original size:21 final size:21
Alignment explanation
Indices: 487754--487793 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
487744 TTTTTGCAGA
*
487754 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
487776 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
487794 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:488042 original size:34 final size:32
Alignment explanation
Indices: 488004--488073 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
487994 ATCTTTAAAG
*
488004 GGGAAAGGTTCTAGCTAATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTAATCCCG-G-AAAAACTA
* *
488038 GGGAAAGGTTCTAGTTTATCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTAATCCCGGAAAAACTA
488070 GGGA
1 GGGA
488074 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTAATCCCGGAAAAACTA
Found at i:490372 original size:19 final size:22
Alignment explanation
Indices: 490333--490373 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 22
490323 ATCATATGAA
490333 CATATATAATTTATGCATGTAT
1 CATATATAATTTATGCATGTAT
490355 CATA-ATAA-TTAT-CATGTAT
1 CATATATAATTTATGCATGTAT
490374 GCATGTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 4 0.21
22 4 0.21
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (22 bp):
CATATATAATTTATGCATGTAT
Found at i:501423 original size:20 final size:21
Alignment explanation
Indices: 501384--501442 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
501374 AATAATAAAT
*
501384 TAAATAAAAAAAA-ACTAAAAG
1 TAAATAAAAAAAAGA-AAAAAG
501405 -AAATAAAAAAAAGAAAAAAG
1 TAAATAAAAAAAAGAAAAAAG
*
501425 TTGAAT-AAAAAAAGAAAA
1 -TAAATAAAAAAAAGAAAA
501443 GGAAAATGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 17 0.52
21 13 0.39
22 3 0.09
ACGTcount: A:0.78, C:0.02, G:0.08, T:0.12
Consensus pattern (21 bp):
TAAATAAAAAAAAGAAAAAAG
Found at i:501434 original size:21 final size:21
Alignment explanation
Indices: 501410--501465 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 21
501400 AAAAGAAATA
**
501410 AAAAAAAGAAAAAAGTTGAAT
1 AAAAAAAGAAAAAAAATGAAT
501431 AAAAAAAGAAAAGGAAAATGAAT
1 AAAAAAAGAAAA--AAAATGAAT
501454 AAAAAAA-AAAAA
1 AAAAAAAGAAAAA
501466 TGGCTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 1 0.03
21 12 0.39
22 4 0.13
23 14 0.45
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (21 bp):
AAAAAAAGAAAAAAAATGAAT
Found at i:501435 original size:23 final size:21
Alignment explanation
Indices: 501389--501464 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 21
501379 TAAATTAAAT
**
501389 AAAAAAAAACTAAAA-GAAATA
1 AAAAAAAAAAGAAAATG-AATA
*
501410 AAAAAAAGAAA-AAAGTTGAATA
1 AAAAAAA-AAAGAAA-ATGAATA
501432 AAAAAAGAAAAGGAAAATGAATA
1 AAAAAA-AAAA-GAAAATGAATA
501455 AAAAAAAAAA
1 AAAAAAAAAA
501465 ATGGCTAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
21 10 0.22
22 19 0.41
23 14 0.30
24 3 0.07
ACGTcount: A:0.79, C:0.01, G:0.11, T:0.09
Consensus pattern (21 bp):
AAAAAAAAAAGAAAATGAATA
Found at i:501465 original size:23 final size:21
Alignment explanation
Indices: 501384--501465 Score: 67
Period size: 23 Copynumber: 3.6 Consensus size: 21
501374 AATAATAAAT
501384 TAAATAAAAAAAAACTAAAA-GAAA
1 TAAA-AAAAAAAAA--AAAATG-AA
**
501408 TAAAAAAAAGAAAAAAGTTGAA
1 TAAAAAAAA-AAAAAAAATGAA
*
501430 TAAAAAAAGAAAAGGAAAATGAA
1 TAAAAAAA-AAAA-AAAAATGAA
501453 TAAAAAAAAAAAA
1 TAAAAAAAAAAAA
501466 TGGCTAAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
22 19 0.40
23 21 0.44
24 8 0.17
ACGTcount: A:0.78, C:0.01, G:0.10, T:0.11
Consensus pattern (21 bp):
TAAAAAAAAAAAAAAAATGAA
Found at i:505261 original size:17 final size:19
Alignment explanation
Indices: 505241--505281 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 19
505231 AAAACTTGAC
505241 CAAATAC-AAAAAC-AAAT
1 CAAATACGAAAAACAAAAT
505258 C-AA-ACGAAAAACAAAAT
1 CAAATACGAAAAACAAAAT
505275 CAAATAC
1 CAAATAC
505282 TGGAAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
15 2 0.10
16 8 0.40
17 6 0.30
18 2 0.10
19 2 0.10
ACGTcount: A:0.68, C:0.20, G:0.02, T:0.10
Consensus pattern (19 bp):
CAAATACGAAAAACAAAAT
Found at i:506801 original size:17 final size:16
Alignment explanation
Indices: 506779--506819 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
506769 TATGCCCCGC
506779 ATAGTATATTATAGTAT
1 ATAGTATATTAT-GTAT
*
506796 ATAGTATAATATGTAT
1 ATAGTATATTATGTAT
506812 AT-GTATAT
1 ATAGTATAT
506820 AATATAAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 5 0.23
16 6 0.27
17 11 0.50
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.46
Consensus pattern (16 bp):
ATAGTATATTATGTAT
Found at i:506817 original size:22 final size:20
Alignment explanation
Indices: 506784--506826 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
506774 CCCGCATAGT
*
506784 ATATTATAGTATATAGTATA
1 ATATTATAGTATATAATATA
506804 ATATGTATATGTATATAATATA
1 ATAT-TATA-GTATATAATATA
506826 A
1 A
506827 ACGTAACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 4 0.20
22 12 0.60
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (20 bp):
ATATTATAGTATATAATATA
Found at i:510880 original size:4 final size:4
Alignment explanation
Indices: 510871--510898 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
510861 TCTTGCATTG
510871 ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT
510899 TTTCTACTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:511994 original size:17 final size:16
Alignment explanation
Indices: 511968--512001 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
511958 TTTCACTAAT
511968 AGAGGAAATATTACAA
1 AGAGGAAATATTACAA
511984 AGAGAGAAATATTACAA
1 AGAG-GAAATATTACAA
512001 A
1 A
512002 TAGCCTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.59, C:0.06, G:0.18, T:0.18
Consensus pattern (16 bp):
AGAGGAAATATTACAA
Found at i:518826 original size:16 final size:16
Alignment explanation
Indices: 518777--518844 Score: 63
Period size: 16 Copynumber: 4.2 Consensus size: 16
518767 ATGAGATTAA
518777 AAAAATCTAAGAAATT
1 AAAAATCTAAGAAATT
*
518793 -AAAATGGATAA-AAA-T
1 AAAAAT--CTAAGAAATT
518808 AAAAATCTAAGAAATT
1 AAAAATCTAAGAAATT
518824 AAAAAAT-TAAGAAACTT
1 -AAAAATCTAAGAAA-TT
518841 AAAA
1 AAAA
518845 TTTATAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
14 3 0.07
15 9 0.21
16 20 0.47
17 11 0.26
ACGTcount: A:0.66, C:0.04, G:0.07, T:0.22
Consensus pattern (16 bp):
AAAAATCTAAGAAATT
Found at i:518830 original size:17 final size:17
Alignment explanation
Indices: 518776--518844 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
518766 TATGAGATTA
518776 AAAAAATCTAAGAAATT
1 AAAAAATCTAAGAAATT
****
518793 AAAATGGATAA-AAA-T
1 AAAAAATCTAAGAAATT
518808 -AAAAATCTAAGAAATT
1 AAAAAATCTAAGAAATT
518824 AAAAAAT-TAAGAAACTT
1 AAAAAATCTAAGAAA-TT
518841 AAAA
1 AAAA
518845 TTTATAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
14 6 0.15
15 4 0.10
16 11 0.28
17 19 0.47
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (17 bp):
AAAAAATCTAAGAAATT
Found at i:518833 original size:57 final size:56
Alignment explanation
Indices: 518720--518842 Score: 131
Period size: 57 Copynumber: 2.2 Consensus size: 56
518710 TCAACATAGG
* * ** ** *
518720 AAAAAATTAAGAAATTAAAATGGATAAAAATAAATTTTACTATAACTATGAGATTA
1 AAAAAATTAAGAAATTAAAATGGATAAAAATAAAATCTAAGATAACTAAAAAATTA
*
518776 AAAAAATCTAAGAAATTAAAATGGATAAAAATAAAAATCTAAGA-AATTAAAAAATTA
1 AAAAAAT-TAAGAAATTAAAATGGATAAAAAT-AAAATCTAAGATAACTAAAAAATTA
* *
518833 AGAAACTTAA
1 AAAAAATTAA
518843 AATTTATAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
56 10 0.18
57 38 0.69
58 7 0.13
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.26
Consensus pattern (56 bp):
AAAAAATTAAGAAATTAAAATGGATAAAAATAAAATCTAAGATAACTAAAAAATTA
Found at i:523826 original size:101 final size:101
Alignment explanation
Indices: 523651--523852 Score: 404
Period size: 101 Copynumber: 2.0 Consensus size: 101
523641 ATTGTAATCG
523651 TAGCACCATTAGTCTTTGACTTTCAGAGCTTGGATACGGTTGGATCGTCGCCGATTCATGGCCTG
1 TAGCACCATTAGTCTTTGACTTTCAGAGCTTGGATACGGTTGGATCGTCGCCGATTCATGGCCTG
523716 TCTATGAAAAATGTGGCAGTTGTCCTTAAATGAATT
66 TCTATGAAAAATGTGGCAGTTGTCCTTAAATGAATT
523752 TAGCACCATTAGTCTTTGACTTTCAGAGCTTGGATACGGTTGGATCGTCGCCGATTCATGGCCTG
1 TAGCACCATTAGTCTTTGACTTTCAGAGCTTGGATACGGTTGGATCGTCGCCGATTCATGGCCTG
523817 TCTATGAAAAATGTGGCAGTTGTCCTTAAATGAATT
66 TCTATGAAAAATGTGGCAGTTGTCCTTAAATGAATT
523853 CAATTAAACC
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (101 bp):
TAGCACCATTAGTCTTTGACTTTCAGAGCTTGGATACGGTTGGATCGTCGCCGATTCATGGCCTG
TCTATGAAAAATGTGGCAGTTGTCCTTAAATGAATT
Found at i:524263 original size:31 final size:31
Alignment explanation
Indices: 524221--524333 Score: 111
Period size: 31 Copynumber: 3.6 Consensus size: 31
524211 GTTCATAATC
524221 AAAA-ATATATTTTATTCTTATTTTAATTTA
1 AAAATATATATTTTATTCTTATTTTAATTTA
* *
524251 AAAATATATATTTTAATCTTATCTTAAATTTA
1 AAAATATATATTTTATTCTTAT-TTTAATTTA
* * * *
524283 AAAAAATTATAATTTATTCTTATATTAACTTA
1 AAAATA-TATATTTTATTCTTATTTTAATTTA
** * *
524315 AGTATTTATGTTTTATTCT
1 AAAATATATATTTTATTCT
524334 GATAATATTT
Statistics
Matches: 66, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
30 4 0.06
31 27 0.41
32 21 0.32
33 14 0.21
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (31 bp):
AAAATATATATTTTATTCTTATTTTAATTTA
Found at i:524304 original size:33 final size:31
Alignment explanation
Indices: 524221--524310 Score: 117
Period size: 31 Copynumber: 2.8 Consensus size: 31
524211 GTTCATAATC
*
524221 AAAAATATATTTTATTCTTATTTTAATTTAA
1 AAAAATATATTTTATTCTTATTTAAATTTAA
* *
524252 AAATATATATTTTAATCTTATCTTAAATTTAA
1 AAAAATATATTTTATTCTTAT-TTAAATTTAA
*
524284 AAAAATTATAATTTATTCTTATATTAA
1 AAAAA-TATATTTTATTCTTAT-TTAA
524311 CTTAAGTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
31 19 0.38
32 13 0.26
33 18 0.36
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (31 bp):
AAAAATATATTTTATTCTTATTTAAATTTAA
Found at i:524466 original size:30 final size:29
Alignment explanation
Indices: 524338--524710 Score: 259
Period size: 30 Copynumber: 12.6 Consensus size: 29
524328 TATTCTGATA
* * *
524338 ATATTTTAAATTTAAGATAAAAATATAAT
1 ATATTTTTAAGTTAAGATAAAAATAAAAT
*
524367 ATATTTTTTGTAGTTAAGATAAAAATAAAAT
1 ATA-TTTTT-AAGTTAAGATAAAAATAAAAT
* * * * *
524398 ATATTTTTTAGTTAATATATATAT-ATAT
1 ATATTTTTAAGTTAAGATAAAAATAAAAT
* * *
524426 ATA-TATTAAGTTAAGATAAGAATAAAAG
1 ATATTTTTAAGTTAAGATAAAAATAAAAT
* * *
524454 ATATGTTTTAAGTTAAAATAAAAATTAATT
1 ATAT-TTTTAAGTTAAGATAAAAATAAAAT
* * * *
524484 ATATTTAATAATTTAAGGA-AATAATAGAAT
1 ATATTT-TTAAGTTAA-GATAAAAATAAAAT
** * * *
524514 ATATTGAATAATTTAA-ATTAAGAATATAAT
1 ATATT-TTTAAGTTAAGA-TAAAAATAAAAT
* **
524544 TTATGTAATAAGTTAAGATAAAAATAAAAT
1 ATAT-TTTTAAGTTAAGATAAAAATAAAAT
*
524574 ATATTTTTTAAGTTAAGATAAAGACTAAAAT
1 ATA-TTTTTAAGTTAAGATAAA-AATAAAAT
* * * *
524605 ATTTTTTTTAATTTAAAATAAGAATAAAAT
1 A-TATTTTTAAGTTAAGATAAAAATAAAAT
* * * *
524635 ATAGTTTTAGGTTAAGACAATAATAAAAT
1 ATATTTTTAAGTTAAGATAAAAATAAAAT
* *
524664 ATATTTAATAAGTTAATATAAAAATAAAAT
1 ATATTT-TTAAGTTAAGATAAAAATAAAAT
524694 ATATTTTTAATGTTAAG
1 ATATTTTTAA-GTTAAG
524711 CTGTAAAATT
Statistics
Matches: 267, Mismatches: 60, Indels: 33
0.74 0.17 0.09
Matches are distributed among these distances:
27 14 0.05
28 12 0.04
29 47 0.18
30 145 0.54
31 48 0.18
32 1 0.00
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.40
Consensus pattern (29 bp):
ATATTTTTAAGTTAAGATAAAAATAAAAT
Found at i:524590 original size:90 final size:87
Alignment explanation
Indices: 524338--524709 Score: 288
Period size: 90 Copynumber: 4.2 Consensus size: 87
524328 TATTCTGATA
* * * *
524338 ATATT-TTAAATTTAAGATAAAAATATAATATATTTTTTGTAGTTAAGATAAAAATAAAATATAT
1 ATATTATT-AATTTAA-ATAAGAATAAAATATATGTTTT-AAGTTAAGATAAAAATAAAATATAT
* * * *
524402 TT-TTTAGTTAA-TATAT-ATATAT
63 TTAATAAGTTAAGTAAATAATAAAT
* * * * *
524424 ATATATATTAAGTTAAGATAAGAATAAAAGATATGTTTTAAGTTAAAATAAAAATTAATTATATT
1 ATAT-TATTAATTTAA-ATAAGAATAAAATATATGTTTTAAGTTAAGATAAAAATAAAATATATT
* *
524489 TAATAATTTAAGGAAATAATAGAAT
64 TAATAAGTTAAGTAAATAATA-AAT
* * * **
524514 ATATTGAATAATTTAAATTAAGAATATAATTTATGTAATAAGTTAAGATAAAAATAAAATATATT
1 ATATT-ATTAATTTAAA-TAAGAATAAAATATATGTTTTAAGTTAAGATAAAAATAAAATATATT
** * *
524579 TTTTAAGTTAAGATAAAGACTAAAAT
64 TAATAAGTTAAG-TAAATAAT-AAAT
* * * * *
524605 ATTTTTTTTAATTTAAAATAAGAATAAAATATA-GTTTTAGGTTAAGACAATAATAAAATATATT
1 A-TATTATTAATTT-AAATAAGAATAAAATATATGTTTTAAGTTAAGATAAAAATAAAATATATT
*
524669 TAATAAGTTAA-TATAAAAATAAAAT
64 TAATAAGTTAAGTA-AATAAT-AAAT
*
524694 ATATTTTTAATGTTAA
1 ATATTATTAAT-TTAA
524710 GCTGTAAAAT
Statistics
Matches: 226, Mismatches: 46, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
86 27 0.12
87 32 0.14
88 18 0.08
89 17 0.08
90 97 0.43
91 28 0.12
92 7 0.03
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.41
Consensus pattern (87 bp):
ATATTATTAATTTAAATAAGAATAAAATATATGTTTTAAGTTAAGATAAAAATAAAATATATTTA
ATAAGTTAAGTAAATAATAAAT
Found at i:530761 original size:13 final size:13
Alignment explanation
Indices: 530743--530786 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
530733 ATAAATAATA
*
530743 AAAAAATTACAAT
1 AAAAAACTACAAT
* *
530756 AAAAAAGTCCAAT
1 AAAAAACTACAAT
*
530769 AAACAACTACAAT
1 AAAAAACTACAAT
530782 AAAAA
1 AAAAA
530787 GTACTAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.68, C:0.14, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAAAACTACAAT
Found at i:533191 original size:22 final size:23
Alignment explanation
Indices: 533139--533196 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
533129 AAATATAATT
*
533139 AATATTTTAT-TTTAAATATTTA
1 AATATTTTATAATTAAATATTTA
* * *
533161 ATTAATTTATAATTACATA-TTA
1 AATATTTTATAATTAAATATTTA
*
533183 AATATTTTAAAATT
1 AATATTTTATAATT
533197 TTATAAATTA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
AATATTTTATAATTAAATATTTA
Found at i:538233 original size:111 final size:112
Alignment explanation
Indices: 538104--538333 Score: 322
Period size: 111 Copynumber: 2.1 Consensus size: 112
538094 TAAATGTAGT
** *
538104 TATTTTTATTTCCCGACGGGTTGACTATTCCATCACAAATTAAATTTG-TATATTTTAATTAAAG
1 TATTTTTATTTCCCGACGGAATGACTATTCCATCACAAATTAAA-TTGATATATTTTAATTAAAA
* * * *
538168 TTGAGCAAAACTTCCGACGGAAT-TTTATCTCGCCATAAATTAAATTAA
65 TTGAACAAAA-TTCCGACAGAATCATTATCCCGCCATAAATTAAATTAA
538216 TATTTTTATTT-CCGACGGAATGACTATTCCATCACAAATTAAATTGATATATTTTAATTAAAAT
1 TATTTTTATTTCCCGACGGAATGACTATTCCATCACAAATTAAATTGATATATTTTAATTAAAAT
* * * *
538280 TGAACAAAATTTCGACAGAATCATTGTCCCGTCATAAATTAAATTGA
66 TGAACAAAATTCCGACAGAATCATTATCCCGCCATAAATTAAATTAA
538327 TATTTTT
1 TATTTTT
538334 TATTGAAATG
Statistics
Matches: 105, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
110 13 0.12
111 81 0.77
112 11 0.10
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (112 bp):
TATTTTTATTTCCCGACGGAATGACTATTCCATCACAAATTAAATTGATATATTTTAATTAAAAT
TGAACAAAATTCCGACAGAATCATTATCCCGCCATAAATTAAATTAA
Found at i:541854 original size:19 final size:19
Alignment explanation
Indices: 541832--541902 Score: 72
Period size: 19 Copynumber: 3.5 Consensus size: 19
541822 TTAATAAAAC
541832 ATAAAAAATTTAAATAATG
1 ATAAAAAATTTAAATAATG
* *
541851 ATAAAATTGATATTAAATAA-A
1 ATAAAA--AAT-TTAAATAATG
541872 ATAAAAAAATTTAAATAATG
1 AT-AAAAAATTTAAATAATG
541892 ATAATAAAATT
1 ATAA-AAAATT
541903 GTTATTAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
19 16 0.38
20 10 0.24
21 4 0.10
22 12 0.29
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.32
Consensus pattern (19 bp):
ATAAAAAATTTAAATAATG
Found at i:541868 original size:22 final size:22
Alignment explanation
Indices: 541841--541914 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 22
541831 CATAAAAAAT
541841 TTAAATAATGATAAAATTGATA
1 TTAAATAATGATAAAATTGATA
* **
541863 TTAAATAA-AATAAAA-AAAT-
1 TTAAATAATGATAAAATTGATA
*
541882 TTAAATAATGATAATAAAATTGTTA
1 TTAAATAATG---ATAAAATTGATA
541907 TTAAATAA
1 TTAAATAA
541915 ATTTGTTACC
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
19 8 0.21
20 2 0.05
21 6 0.15
22 8 0.21
23 6 0.15
24 1 0.03
25 8 0.21
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (22 bp):
TTAAATAATGATAAAATTGATA
Found at i:541879 original size:41 final size:43
Alignment explanation
Indices: 541824--541915 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 43
541814 AAAAATCATT
541824 AATAAAACATAAAAAATTTAAATAATG-ATAAAATTGATATTA
1 AATAAAACATAAAAAATTTAAATAATGAATAAAATTGATATTA
* *
541866 AATAAAATA-AAAAAATTTAAATAATGATAATAAAATTGTTATTA
1 AATAAAACATAAAAAATTTAAATAATG--AATAAAATTGATATTA
541910 AATAAA
1 AATAAA
541916 TTTGTTACCA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
41 17 0.38
42 8 0.18
44 20 0.44
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (43 bp):
AATAAAACATAAAAAATTTAAATAATGAATAAAATTGATATTA
Found at i:546888 original size:44 final size:43
Alignment explanation
Indices: 546748--546899 Score: 118
Period size: 43 Copynumber: 3.5 Consensus size: 43
546738 AATTTAGAAG
* * * *
546748 CCTCAA-TATAAAGGTAAAGAATGAGATT-AGAAAAGTTAAAGA-
1 CCTCAATTATAAAGATAAAAAATAAGATTGAGAAAAATT--AGAC
* * *
546790 CTTCAATAATAAAGATAAAAAGTAAGATTGAGAAAAATTAGAC
1 CCTCAATTATAAAGATAAAAAATAAGATTGAGAAAAATTAGAC
* *
546833 CCTCAGTTATAAAGATAAAAGAATAAGATAT-A-AAAAATTAGAAAT
1 CCTCAATTATAAAGATAAAA-AATAAGAT-TGAGAAAAATTAG--AC
546878 CCT-AATTATAAAAGATAAAAAA
1 CCTCAATTAT-AAAGATAAAAAA
546900 AATAAGACCA
Statistics
Matches: 89, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
42 8 0.09
43 43 0.48
44 23 0.26
45 15 0.17
ACGTcount: A:0.57, C:0.07, G:0.13, T:0.23
Consensus pattern (43 bp):
CCTCAATTATAAAGATAAAAAATAAGATTGAGAAAAATTAGAC
Found at i:547844 original size:5 final size:5
Alignment explanation
Indices: 547836--547929 Score: 61
Period size: 5 Copynumber: 18.8 Consensus size: 5
547826 AAGAAGGGGA
* **
547836 AAAAT AAAAT -AAAT AATAT AAGGAAT -AAA- AAAAT AAAAT GGTAAT
1 AAAAT AAAAT AAAAT AAAAT AA--AAT AAAAT AAAAT AAAAT -AAAAT
* * * *
547881 -AAAT AAACAT AAAAC AAAAT AAAAA AAAAA AAAAT AAAAG AAAAT AAAA
1 AAAAT AAA-AT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
547930 AGAATAAGAT
Statistics
Matches: 70, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
4 12 0.17
5 47 0.67
6 9 0.13
7 2 0.03
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:547902 original size:10 final size:9
Alignment explanation
Indices: 547878--547936 Score: 52
Period size: 10 Copynumber: 6.6 Consensus size: 9
547868 ATAAAATGGT
547878 AATAAATAAA
1 AATAAA-AAA
*
547888 CATAAAACAA
1 AATAAAA-AA
547898 AAT--AAAA
1 AATAAAAAA
547905 AA-AAAAAA
1 AATAAAAAA
547913 AATAAAAGAA
1 AATAAAA-AA
*
547923 AATAAAAAG
1 AATAAAAAA
547932 AATAA
1 AATAA
547937 GATAATATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
7 4 0.10
8 8 0.20
9 11 0.27
10 18 0.44
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.12
Consensus pattern (9 bp):
AATAAAAAA
Found at i:547948 original size:2 final size:2
Alignment explanation
Indices: 547941--547972 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
547931 GAATAAGATA
547941 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
547973 GAAATGTGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:549214 original size:14 final size:14
Alignment explanation
Indices: 549195--549232 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
549185 ACAAAACAAT
*
549195 ATAAAAAATAAGTA
1 ATAAAAAATAAATA
549209 ATAAAAAATAAAT-
1 ATAAAAAATAAATA
549222 A-AAAAAATAAA
1 ATAAAAAATAAA
549233 ATATTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.43
13 1 0.04
14 12 0.52
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (14 bp):
ATAAAAAATAAATA
Found at i:549379 original size:38 final size:37
Alignment explanation
Indices: 549230--549532 Score: 296
Period size: 38 Copynumber: 8.1 Consensus size: 37
549220 ATAAAAAAAT
* *
549230 AAAATATTTTTAAAAACTATAT-ATATATATATATTTA
1 AAAATGTTTTTAAAAACTATATAATATATATAT-TTTC
*
549267 AAAATGTTTTTAAAAACTATATATTATATATAAGTTTTC
1 AAAATGTTTTTAAAAACTATATAATATATAT-A-TTTTC
549306 AAAAATG-TTTTAAAAACTATAT--TATATATATTTTC
1 -AAAATGTTTTTAAAAACTATATAATATATATATTTTC
*
549341 AAAATGTTTTTAAAAAACTTTATAATATATATATTTTC
1 AAAATGTTTTT-AAAAACTATATAATATATATATTTTC
* *
549379 AAAATGTTTTTTAAAAGCTATATAATATATAAGTGTTTTC
1 AAAATG-TTTTTAAAAACTATATAATATAT-A-TATTTTC
** * * **
549419 AAAATG-TTTCCAAAACTATATATTATATCTATTTAA
1 AAAATGTTTTTAAAAACTATATAATATATATATTTTC
*
549455 AAAATGTTTTCAAAAACTATATAATATATAT-TTTTC
1 AAAATGTTTTTAAAAACTATATAATATATATATTTTC
* * * * * *
549491 GAAAATTGTTTCTGAAAATTATATATTAT-TTTTTTTTC
1 -AAAA-TGTTTTTAAAAACTATATAATATATATATTTTC
549529 AAAA
1 AAAA
549533 ACTTTTCAAA
Statistics
Matches: 225, Mismatches: 26, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
34 6 0.03
35 9 0.04
36 24 0.11
37 59 0.26
38 83 0.37
39 25 0.11
40 19 0.08
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (37 bp):
AAAATGTTTTTAAAAACTATATAATATATATATTTTC
Found at i:549422 original size:113 final size:111
Alignment explanation
Indices: 549230--549501 Score: 338
Period size: 113 Copynumber: 2.4 Consensus size: 111
549220 ATAAAAAAAT
* *
549230 AAAATATTTTTAAAAACTATAT-ATATATATATATTTAAAAATG-TTTTTAAAAACTATATATTA
1 AAAATGTTTTTAAAAACTATATAATATATATAT-TTTCAAAATGTTTTTTAAAAACTATATA-TA
* **
549293 TATATAAGTTTTCAAAAATGTTTTAAAAAC-TATATTATATATATTTTC
64 TATATAAGTTTTC-AAAATGTTTCAAAAACATATATTATATATATTTAA
* *
549341 AAAATGTTTTTAAAAAACTTTATAATATATATATTTTCAAAATGTTTTTTAAAAGCTATATA-AT
1 AAAATGTTTTT-AAAAACTATATAATATATATATTTTCAAAATGTTTTTTAAAAACTATATATAT
* *
549405 ATATAAGTGTTTTCAAAATGTTTCCAAAACTATATATTATATCTATTTAA
65 ATATAA--GTTTTCAAAATGTTTCAAAAAC-ATATATTATATATATTTAA
*
549455 AAAATGTTTTCAAAAACTATATAATATATAT-TTTTCGAAAATTGTTT
1 AAAATGTTTTTAAAAACTATATAATATATATATTTTC-AAAA-TGTTT
549502 CTGAAAATTA
Statistics
Matches: 141, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
111 18 0.13
112 38 0.27
113 55 0.39
114 30 0.21
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.45
Consensus pattern (111 bp):
AAAATGTTTTTAAAAACTATATAATATATATATTTTCAAAATGTTTTTTAAAAACTATATATATA
TATAAGTTTTCAAAATGTTTCAAAAACATATATTATATATATTTAA
Found at i:550204 original size:40 final size:40
Alignment explanation
Indices: 550149--550225 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
550139 ATAGTTTTTG
550149 TTGACAGATAACCCTTCTCACCTTGAGTTATGCTGTAAAT
1 TTGACAGATAACCCTTCTCACCTTGAGTTATGCTGTAAAT
*
550189 TTGACAGATAACCCTTCTCACCTTGAGTTATGTTGTA
1 TTGACAGATAACCCTTCTCACCTTGAGTTATGCTGTA
550226 CTGGATGTGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (40 bp):
TTGACAGATAACCCTTCTCACCTTGAGTTATGCTGTAAAT
Found at i:550803 original size:84 final size:83
Alignment explanation
Indices: 550193--551173 Score: 870
Period size: 84 Copynumber: 12.0 Consensus size: 83
550183 GTAAATTTGA
* * * * *
550193 CAGATAACCCTTCTCACCTTGAGTTATGTTG-TACTGGATGTGCCTTTGAG-T-AGTGTAATCGA
1 CAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAAT-GATGTGCCTTTGAGCTGAGTGTAATCGA
550255 ACTCGAAGGTCTTTTGTTGG
65 ACTCGAAGGTC-TTTGTTGG
* * * * * * * *
550275 CATATAGCCCTTCTTGCCTTGAGCTATGCCGCAAATGATGTGCCTTTAAGTTGAGGGTAATCAAA
1 CAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
* * *
550340 CTCAAAGGTCTTGGTTGA
66 CTCGAAGGTCTTTGTTGG
* ** * * * *
550358 CAGATAACCCTTTTCGCCTTGAGCTATATTGTAAATTTGATGTGCCTTTAAGCTGAGTGTGATCA
1 CAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAA--TGATGTGCCTTTGAGCTGAGTGTAATCG
* *
550423 AACTTGAAGGTCTTTTATTGG
64 AACTCGAAGGTC-TTTGTTGG
* *
550444 CAGATAACCCTTTTCGCCTTGAGTTTATGCTGC-AATGATGTGCCTTTGAGC----T-TAA-CGA
1 CAGATAACCCTTCTCGCCTTGAG-CTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGA
* * *
550502 ACTCGACGGTCTTGGTTGA
65 ACTCGAAGGTCTTTGTTGG
* * * *
550521 TAGATAACTCTTCTCGCCTTGAGTTATGCTGTAAATTGGATGTGCCTTTGAGCTGAGTGTAATCG
1 CAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAA-T-GATGTGCCTTTGAGCTGAGTGTAATCG
550586 AACTCGAAGGTC--T-TTGG
64 AACTCGAAGGTCTTTGTTGG
* * * *
550603 CAGGTAGCACTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGACTGTAATCGAA
1 CAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
*
550668 CTCGAACGTC--T-TTGG
66 CTCGAAGGTCTTTGTTGG
* * * * * *
550683 TAGGTAACCCTTCTCACCTTGAGCTATGCTACAAATGATGTTCCTTTAAGCTGAGTGTAATCGAA
1 CAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
* *
550748 CTCGAAGATCTTTTATTGG
66 CTCGAAGGTC-TTTGTTGG
* * *
550767 TAGATAACCCTTCTCACCTTGAGCTATGCTACAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
1 CAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
* * * *
550832 TTTGAAGGTCTTGGTTGA
66 CTCGAAGGTCTTTGTTGG
* * * ** *
550850 CAGATAACCCTTCTCACCTTGAGTTATGTTTTAAAT--TGGATGCCTTTGAGCTAAGTGTAATCG
1 CAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGAT-G-TGCCTTTGAGCTGAGTGTAATCG
* *
550913 ATCTCGAAGGTCTTTTATTGG
64 AACTCGAAGGTC-TTTGTTGG
*** *
550934 CAGATAACCCTTCTCGCCTTGAG-TA--CTGC--ATGATGTATATTTGAGCT---TGTAATTGAA
1 CAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
* *
550991 CTCGAAGGTCTTGGTTGA
66 CTCGAAGGTCTTTGTTGG
* * *
551009 CAGATAACCCTTCTCGCCTT-AGTTATGTTGTAAAT--TGGATGCCTTTG-GCTGAGTGTAATCG
1 CAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGAT-G-TGCCTTTGAGCTGAGTGTAATCG
* *
551070 AACTCGAAGGTCTTGGTTGA
64 AACTCGAAGGTCTTTGTTGG
** * * * * * * *
551090 CAGATAACTATTCTTGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGAGCTGAATGGAATCA
1 CAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAA-T-GATGTGCCTTTGAGCTGAGTGTAATCG
551155 AACTCGAAGGTCTTTGTTG
64 AACTCGAAGGTCTTTGTTG
551174 AGGTGCTTTT
Statistics
Matches: 742, Mismatches: 116, Indels: 79
0.79 0.12 0.08
Matches are distributed among these distances:
74 2 0.00
75 27 0.04
76 26 0.04
77 30 0.04
78 16 0.02
79 35 0.05
80 109 0.15
81 48 0.06
82 83 0.11
83 108 0.15
84 145 0.20
85 77 0.10
86 31 0.04
87 5 0.01
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (83 bp):
CAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
CTCGAAGGTCTTTGTTGG
Found at i:550994 original size:323 final size:320
Alignment explanation
Indices: 550189--551083 Score: 989
Period size: 328 Copynumber: 2.8 Consensus size: 320
550179 TGCTGTAAAT
*
550189 TTGACAGATAACCCTTCTCACCTTGAGTTATGTTGT--ACTGGATGTGCCTTTGAG-TAGTGTAA
1 TTGACAGATAACCCTTCTCACCTTGAGTTATGTTGTAAATTGGA-GTGCCTTTGAGCTAGTGTAA
* * *
550251 TCGAACTCGAAGGTCTTTTGTTGGCATATAGCCCTTCTTGCCTTGAGCTATGCCGCAAATGATGT
65 TCGAACTCGAAGGTCTTTT-TTGGCAGATAGCCCTTCTCGCCTTGAGCTA-GCTGC-AATGATGT
* * * *
550316 GCCTTTAAG-TTGAGGGTAATCAAACTCAAAGGTCTTGGTTGACAGATAACCCTTTTCGCCTTGA
127 GCCTTTGAGCTT----GTAATCGAACTCGAAGGTCTTGGTT-A-AGATAACCCTTCTCGCCTTGA
* * * *
550380 GCTATATTGTAAATTTGATGTGCCTTTAAGCTGAGTGTGATCAAACTTGAAGGTCTTTTATTGGC
186 GCTATGTTGTAAA-TTGATGT-CCTTTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGC
* * * * *
550445 AGATAACCCTTTTCGCCTTGAGTTTATGCTGCAATGATGTGCCTTTGAGCTTAACGAACTCGACG
249 AGATAACCCTTCTCACCTTGAGTCTATGCTACAATGATGTGCCTTTGAGCTTAACGAACTCGAAG
550510 GTCTTGG
314 GTCTTGG
* * * *
550517 TTGATAGATAACTCTTCTCGCCTTGAGTTATGCTGTAAATTGGATGTGCCTTTGAGCTGAGTGTA
1 TTGACAGATAACCCTTCTCACCTTGAGTTATGTTGTAAATTGGA-GTGCCTTTGAGCT-AGTGTA
* *
550582 ATCGAACTCGAAGGTC---TTTGGCAGGTAGCACTTCTCGCCTTGAGCTATGCTGCAAATGATGT
64 ATCGAACTCGAAGGTCTTTTTTGGCAGATAGCCCTTCTCGCCTTGAGCTA-GCTGC-AATGATGT
* * *
550644 GCCTTTGAGCTGACTGTAATCGAACTCGAACGTCTTTGG-T-AGGTAACCCTTCTCACCTTGAGC
127 GCCTTTGAGCT---TGTAATCGAACTCGAAGGTC-TTGGTTAAGATAACCCTTCTCGCCTTGAGC
* ** * *
550707 TATGCTACAAA-TGATGTTCCTTTAAGCTGAGTGTAATCGAACTCGAAGATCTTTTATTGGTAGA
188 TATGTTGTAAATTGATG-TCCTTTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGA
* *
550771 TAACCCTTCTCACCTTGAG-CTATGCTACAAATGATGTGCCTTTGAGCTGAGTGTAATCGAATTT
252 TAACCCTTCTCACCTTGAGTCTATGCTAC-AATGATGTGCCTTTGAGC----T-TAA-CGAACTC
550835 GAAGGTCTTGG
310 GAAGGTCTTGG
*
550846 TTGACAGATAACCCTTCTCACCTTGAGTTATGTTTTAAATTGGA-TGCCTTTGAGCTAAGTGTAA
1 TTGACAGATAACCCTTCTCACCTTGAGTTATGTTGTAAATTGGAGTGCCTTTGAGCT-AGTGTAA
* * **
550910 TCGATCTCGAAGGTCTTTTATTGGCAGATAACCCTTCTCGCCTTGAG-TA-CTGC-ATGATGTAT
65 TCGAACTCGAAGGTCTTTT-TTGGCAGATAGCCCTTCTCGCCTTGAGCTAGCTGCAATGATGTGC
* * *
550972 ATTTGAGCTTGTAATTGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTT-AGTTATG
129 CTTTGAGCTTGTAATCGAACTCGAAGGTCTTGGTT-A-AGATAACCCTTCTCGCCTTGAGCTATG
*
551036 TTGTAAATTGGATG-CCTTT-GGCTGAGTGTAATCGAACTCGAAGGTCTT
192 TTGTAAATT-GATGTCCTTTAAGCTGAGTGTAATCGAACTCGAAGGTCTT
551084 GGTTGACAGA
Statistics
Matches: 484, Mismatches: 56, Indels: 58
0.81 0.09 0.10
Matches are distributed among these distances:
322 11 0.02
323 100 0.21
324 28 0.06
325 42 0.09
326 33 0.07
327 38 0.08
328 104 0.21
329 60 0.12
330 20 0.04
331 25 0.05
332 23 0.05
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (320 bp):
TTGACAGATAACCCTTCTCACCTTGAGTTATGTTGTAAATTGGAGTGCCTTTGAGCTAGTGTAAT
CGAACTCGAAGGTCTTTTTTGGCAGATAGCCCTTCTCGCCTTGAGCTAGCTGCAATGATGTGCCT
TTGAGCTTGTAATCGAACTCGAAGGTCTTGGTTAAGATAACCCTTCTCGCCTTGAGCTATGTTGT
AAATTGATGTCCTTTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAACCCTTC
TCACCTTGAGTCTATGCTACAATGATGTGCCTTTGAGCTTAACGAACTCGAAGGTCTTGG
Found at i:551097 original size:323 final size:326
Alignment explanation
Indices: 550189--551174 Score: 1059
Period size: 323 Copynumber: 3.0 Consensus size: 326
550179 TGCTGTAAAT
*
550189 TTGACAGATAACCCTTCTCACCTTGAGTTATGTTGT--ACTGGATGTGCCTTTGAG-TAGTGTAA
1 TTGACAGATAACCCTTCTCACCTTGAGTTATGTTGTAAATTGGA-GTGCCTTTGAGCTAGTGTAA
* * *
550251 TCGAACTCGAAGGTCTTTTGTTGGCATATAGCCCTTCTTGCCTTGAGCTATGCCGCAAATGATGT
65 TCGAACTCGAAGGTCTTTT-TTGGCAGATAGCCCTTCTCGCCTTGAGCTA-GCTGC-AATGATGT
* * * *
550316 GCCTTTAAG-TTGAGGGTAATCAAACTCAAAGGTCTTGGTTGACAGATAACCCTTTTCGCCTTGA
127 GCCTTTGAGCTT----GTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGA
* * * *
550380 GCTATATTGTAAATTTGATGTGCCTTTAAGCTGAGTGTGATCAAACTTGAAGGTCTTTTATTGGC
188 GCTATGTTGTAAA-TTGA--TGCCTTTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGC
*
550445 AGATAACCCTTTTCGCCTTGAGTTTATGCTGC-AATGATGTGCCTTTGAGC---T-TAA-CGAAC
250 AGATAACCCTTCTCGCCTTGAG-TTATGCTGCAAATGATGTGCCTTTGAGCTGATGTAATCGAAC
*
550504 TCGACGGTCTTGG
314 TCGAAGGTCTTGG
* * * *
550517 TTGATAGATAACTCTTCTCGCCTTGAGTTATGCTGTAAATTGGATGTGCCTTTGAGCTGAGTGTA
1 TTGACAGATAACCCTTCTCACCTTGAGTTATGTTGTAAATTGGA-GTGCCTTTGAGCT-AGTGTA
* *
550582 ATCGAACTCGAAGGTC---TTTGGCAGGTAGCACTTCTCGCCTTGAGCTATGCTGCAAATGATGT
64 ATCGAACTCGAAGGTCTTTTTTGGCAGATAGCCCTTCTCGCCTTGAGCTA-GCTGC-AATGATGT
* * *
550644 GCCTTTGAGCTGACTGTAATCGAACTCGAACGTCTTTGG-T---AGGTAACCCTTCTCACCTTGA
127 GCCTTTGAGCT---TGTAATCGAACTCGAAGGTC-TTGGTTGACAGATAACCCTTCTCGCCTTGA
* ** * *
550705 GCTATGCTACAAA-TGATGTTCCTTTAAGCTGAGTGTAATCGAACTCGAAGATCTTTTATTGGTA
188 GCTATGTTGTAAATTGATG--CCTTTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCA
* * * *
550769 GATAACCCTTCTCACCTTGAGCTATGCTACAAATGATGTGCCTTTGAGCTGAGTGTAATCGAATT
251 GATAACCCTTCTCGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGA-TGTAATCGAACT
*
550834 TGAAGGTCTTGG
315 CGAAGGTCTTGG
*
550846 TTGACAGATAACCCTTCTCACCTTGAGTTATGTTTTAAATTGGA-TGCCTTTGAGCTAAGTGTAA
1 TTGACAGATAACCCTTCTCACCTTGAGTTATGTTGTAAATTGGAGTGCCTTTGAGCT-AGTGTAA
* * **
550910 TCGATCTCGAAGGTCTTTTATTGGCAGATAACCCTTCTCGCCTTGAG-TA-CTGC-ATGATGTAT
65 TCGAACTCGAAGGTCTTTT-TTGGCAGATAGCCCTTCTCGCCTTGAGCTAGCTGCAATGATGTGC
* * *
550972 ATTTGAGCTTGTAATTGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTT-AGTTATG
129 CTTTGAGCTTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
* ** * *
551036 TTGTAAATTGGATGCCTTT-GGCTGAGTGTAATCGAACTCGAAGGTC-TTGGTTGACAGATAACT
194 TTGTAAATT-GATGCCTTTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAACC
* * * * * *
551099 ATTCTTGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGAGCTGAATGGAATCAAACTCGAAG
258 CTTCTCGCCTTGAGTTATGCTGCAAA-T-GATGTGCCTTTGAGCTG-ATGTAATCGAACTCGAAG
*
551164 GTCTTTG
320 GTCTTGG
551171 TTGA
1 TTGA
551175 GGTGCTTTTG
Statistics
Matches: 554, Mismatches: 73, Indels: 65
0.80 0.11 0.09
Matches are distributed among these distances:
321 2 0.00
322 11 0.02
323 130 0.23
324 26 0.05
325 81 0.15
326 34 0.06
327 38 0.07
328 104 0.19
329 60 0.11
330 20 0.04
331 25 0.05
332 23 0.04
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (326 bp):
TTGACAGATAACCCTTCTCACCTTGAGTTATGTTGTAAATTGGAGTGCCTTTGAGCTAGTGTAAT
CGAACTCGAAGGTCTTTTTTGGCAGATAGCCCTTCTCGCCTTGAGCTAGCTGCAATGATGTGCCT
TTGAGCTTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGCTATGTT
GTAAATTGATGCCTTTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAACCCTT
CTCGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGATGTAATCGAACTCGAAGGTCTTG
G
Found at i:552118 original size:90 final size:89
Alignment explanation
Indices: 552011--552188 Score: 250
Period size: 90 Copynumber: 2.0 Consensus size: 89
552001 CATTGTATAG
* * * * ** *
552011 ATATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGGCAGGGTGTTTAACTAATT
1 ATATTATAATCAACTTTATCAAGCTAGCTGAATCTTATCCAT-AAGCCAAGACGTTTAACCAATT
*
552076 GCTCTATAGGGACAA-CTCAAGCTTT
65 GCTCTAGAGGGA-AAGCTCAAGCTTT
552101 ATATTATAATCAACTTTATCAAGCTAGCTGAATCTTATCCATAAGCCAAGACGTTTAACCAATTG
1 ATATTATAATCAACTTTATCAAGCTAGCTGAATCTTATCCATAAGCCAAGACGTTTAACCAATTG
*
552166 CTTTAGAGGGAAAGCTCAAGCTT
66 CTCTAGAGGGAAAGCTCAAGCTT
552189 ATTGTCTATA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
88 2 0.03
89 36 0.46
90 40 0.51
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (89 bp):
ATATTATAATCAACTTTATCAAGCTAGCTGAATCTTATCCATAAGCCAAGACGTTTAACCAATTG
CTCTAGAGGGAAAGCTCAAGCTTT
Found at i:554741 original size:15 final size:14
Alignment explanation
Indices: 554688--554744 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 14
554678 TCTTTTGGAT
*
554688 GAAAATAAATAAAA
1 GAAAAAAAATAAAA
* *
554702 TAAAATAAAATAGAA
1 GAAAA-AAAATAAAA
554717 GAACACAAAAATAAAA
1 GAA-A-AAAAATAAAA
554733 GGAAAAAAAATA
1 -GAAAAAAAATA
554745 GTAAGATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
14 4 0.12
15 16 0.47
16 10 0.29
17 4 0.12
ACGTcount: A:0.75, C:0.04, G:0.09, T:0.12
Consensus pattern (14 bp):
GAAAAAAAATAAAA
Found at i:556861 original size:6 final size:7
Alignment explanation
Indices: 556840--556872 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
556830 TACTTTTTAC
556840 TTTATTT
1 TTTATTT
556847 TTTATTT
1 TTTATTT
556854 TTTA-TT
1 TTTATTT
*
556860 TTCATTT
1 TTTATTT
556867 TTTATT
1 TTTATT
556873 CTTGATGTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTATTT
Found at i:556866 original size:20 final size:20
Alignment explanation
Indices: 556833--556889 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
556823 TTTCTTCTAC
*
556833 TTTTTACTTT-ATTTTTTAT
1 TTTTTATTTTCATTTTTTAT
556852 TTTTTATTTTCATTTTTTAT
1 TTTTTATTTTCATTTTTTAT
* * *
556872 TCTTGATGTTCATTTTTT
1 TTTTTATTTTCATTTTTT
556890 TTACTTGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 9 0.27
20 24 0.73
ACGTcount: A:0.14, C:0.07, G:0.04, T:0.75
Consensus pattern (20 bp):
TTTTTATTTTCATTTTTTAT
Found at i:557002 original size:6 final size:6
Alignment explanation
Indices: 556915--556990 Score: 62
Period size: 6 Copynumber: 12.0 Consensus size: 6
556905 TTATTAGTAC
* ** * *
556915 TTTATT TATTATT TTATGTT TTTAGTT TTTAGTT TTTAGC TTTAAT TTTAAT
1 TTTATT T-TTATT TT-TATT TTTA-TT TTTA-TT TTTATT TTTATT TTTATT
*
556967 TTTATT TTTATT TGTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT
556991 CCTTTTTATT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
6 34 0.59
7 24 0.41
ACGTcount: A:0.20, C:0.01, G:0.07, T:0.72
Consensus pattern (6 bp):
TTTATT
Found at i:557006 original size:11 final size:11
Alignment explanation
Indices: 556915--556990 Score: 53
Period size: 14 Copynumber: 6.1 Consensus size: 11
556905 TTATTAGTAC
556915 TTTATTTATTAT
1 TTTATTT-TTAT
556927 TTTATGTTTTTAGTT
1 TTTA--TTTTTA--T
556942 TTTAGTTTTTAGCT
1 TTTA-TTTTTA--T
* *
556956 TTAATTTTAAT
1 TTTATTTTTAT
556967 TTTATTTTTAT
1 TTTATTTTTAT
556978 TTGTATTTTTAT
1 TT-TATTTTTAT
556990 T
1 T
556991 CCTTTTTATT
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
11 12 0.22
12 14 0.26
13 8 0.15
14 15 0.28
15 5 0.09
ACGTcount: A:0.20, C:0.01, G:0.07, T:0.72
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:562699 original size:37 final size:36
Alignment explanation
Indices: 562636--562742 Score: 124
Period size: 37 Copynumber: 2.9 Consensus size: 36
562626 GTTTTCCTTG
* **
562636 AAACAAAGTTTTGTCTCTCTCGAGACAGTTTCTTTTA
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCGTA
* * * *
562673 TAACTAAATTTTTTCTCTCTTGAGACATTTTCCCGTA
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCGTA
*
562710 AAACAAATTTTGTCTTTCTTGAGACAGTTTCTC
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTC
562743 TTGAAATAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
36 25 0.44
37 29 0.51
38 3 0.05
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCGTA
Found at i:562832 original size:102 final size:102
Alignment explanation
Indices: 562714--562912 Score: 260
Period size: 102 Copynumber: 2.0 Consensus size: 102
562704 CCCGTAAAAC
* *
562714 AAATTTTGTCTTTCTTGAGAC-AGTTTCTCTTGAAATAAAATCTCTGAATATGCTTTCC-TTGAA
1 AAATTTTGTCTCTCTTGAGACAATTTTC-CTTGAAATAAAATCTCTGAATATGCTTTCCATT-AA
* **
562777 ACAAATTGT-GTCTCCCTTGAGACAGTTTCTTTTGGAACT
64 ACAAATT-TCGTCTCACTCAAGACAGTTTCTTTTGGAACT
* * * *
562816 AAATTTTGTCTCTCTTGATACAATTTTCCTTGAAATAAAATCTTTGAATCTGTTTTCCATTAAAC
1 AAATTTTGTCTCTCTTGAGACAATTTTCCTTGAAATAAAATCTCTGAATATGCTTTCCATTAAAC
*
562881 AAATTTCGTCTCACTCAAGATAGTTTCTTTTG
66 AAATTTCGTCTCACTCAAGACAGTTTCTTTTG
562913 AGATAGTTTC
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
101 1 0.01
102 76 0.90
103 7 0.08
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.43
Consensus pattern (102 bp):
AAATTTTGTCTCTCTTGAGACAATTTTCCTTGAAATAAAATCTCTGAATATGCTTTCCATTAAAC
AAATTTCGTCTCACTCAAGACAGTTTCTTTTGGAACT
Found at i:562918 original size:15 final size:15
Alignment explanation
Indices: 562898--562928 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
562888 GTCTCACTCA
*
562898 AGATAGTTTCTTTTG
1 AGATAGTTTCTCTTG
562913 AGATAGTTTCTCTTG
1 AGATAGTTTCTCTTG
562928 A
1 A
562929 AACACACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.48
Consensus pattern (15 bp):
AGATAGTTTCTCTTG
Found at i:564730 original size:13 final size:14
Alignment explanation
Indices: 564707--564736 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
564697 TACTTTTTAC
564707 TTTATTTTTCATTT
1 TTTATTTTTCATTT
564721 TTTA-TTTTCATTT
1 TTTATTTTTCATTT
564734 TTT
1 TTT
564737 TATTCTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTATTTTTCATTT
Found at i:564856 original size:6 final size:6
Alignment explanation
Indices: 564783--564844 Score: 61
Period size: 6 Copynumber: 10.0 Consensus size: 6
564773 TTATTAATAC
* * * *
564783 TTTATT TATTATT TTATGTT TTTAGT TTTAAT TTTATT TCTATT TTTATT
1 TTTATT T-TTATT TT-TATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
564833 TGTATT TTTATT
1 TTTATT TTTATT
564845 CCTTTTTATT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
6 34 0.76
7 11 0.24
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:565567 original size:20 final size:20
Alignment explanation
Indices: 565531--565568 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
565521 ATAAAATGGT
565531 AAAATAAATAAACATAAAAC
1 AAAATAAATAAACATAAAAC
*
565551 AAAATGAAA-AAATATAAA
1 AAAAT-AAATAAACATAAA
565569 TAAAACAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (20 bp):
AAAATAAATAAACATAAAAC
Found at i:565571 original size:24 final size:24
Alignment explanation
Indices: 565536--565584 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
565526 ATGGTAAAAT
*
565536 AAATAAACATAAAACAAAATGAAA
1 AAATAAACATAAAACAAAAAGAAA
565560 AAATATAA-ATAAAACAAAAAGAAA
1 AAATA-AACATAAAACAAAAAGAAA
565584 A
1 A
565585 TAAGAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.78, C:0.06, G:0.04, T:0.12
Consensus pattern (24 bp):
AAATAAACATAAAACAAAAAGAAA
Found at i:565585 original size:63 final size:62
Alignment explanation
Indices: 565469--565587 Score: 152
Period size: 64 Copynumber: 1.9 Consensus size: 62
565459 GATAAATATA
* * * *
565469 AAAATAATAAACAAAACAAGAAGGAAAAAATATAAATAATATAAGGAATAAAATAAAATGGT
1 AAAATAATAAACAAAACAAGAAGGAAAAAATATAAATAAAACAAGAAAGAAAATAAAATGGT
*
565531 AAAATAAATAAACATAAAACAA-AATGAAAAAATATAAATAAAACAA-AAAGAAAATAA
1 AAAAT-AATAAAC--AAAACAAGAAGGAAAAAATATAAATAAAACAAGAAAGAAAATAA
565588 GAATAATATA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
62 5 0.10
63 16 0.33
64 21 0.43
65 7 0.14
ACGTcount: A:0.72, C:0.04, G:0.08, T:0.16
Consensus pattern (62 bp):
AAAATAATAAACAAAACAAGAAGGAAAAAATATAAATAAAACAAGAAAGAAAATAAAATGGT
Found at i:566870 original size:20 final size:19
Alignment explanation
Indices: 566845--566899 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
566835 AAAAACAAAC
566845 AAAAATAAAAAATAAGTAAT
1 AAAAATAAAAAATAA-TAAT
*
566865 AAAAATAATAAATAATAAT
1 AAAAATAAAAAATAATAAT
*
566884 AATAATAAATAAATAA
1 AAAAATAAA-AAATAA
566900 ATATTTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAAATAAAAAATAATAAT
Found at i:566874 original size:16 final size:16
Alignment explanation
Indices: 566851--566900 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
566841 AAACAAAAAT
*
566851 AAAA-AATAAGTAATA
1 AAAATAATAAATAATA
566866 AAAATAATAAATAATA
1 AAAATAATAAATAATA
*
566882 ATAATAATAAATAAATA
1 AAAATAATAAAT-AATA
566899 AA
1 AA
566901 TATTTTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
15 4 0.13
16 21 0.70
17 5 0.17
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (16 bp):
AAAATAATAAATAATA
Found at i:566894 original size:13 final size:13
Alignment explanation
Indices: 566848--566895 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
566838 AACAAACAAA
*
566848 AATAAAAAATAAGT
1 AATAAATAATAA-T
566862 AATAAA-AATAAT
1 AATAAATAATAAT
566874 AA-ATAATAATAAT
1 AATA-AATAATAAT
566887 AATAAATAA
1 AATAAATAA
566896 ATAAATATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
11 1 0.03
12 5 0.16
13 18 0.58
14 7 0.23
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (13 bp):
AATAAATAATAAT
Found at i:566969 original size:24 final size:27
Alignment explanation
Indices: 566927--566976 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
566917 AATATATATA
566927 TATATATATCAAAATGTTTT-AAAAAC
1 TATATATATCAAAATGTTTTCAAAAAC
*
566953 TATATATAT-ATAA-GTTTTCAAAAA
1 TATATATATCAAAATGTTTTCAAAAA
566977 TGTTTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 8 0.36
26 9 0.41
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (27 bp):
TATATATATCAAAATGTTTTCAAAAAC
Found at i:566977 original size:36 final size:36
Alignment explanation
Indices: 566918--567225 Score: 206
Period size: 36 Copynumber: 8.2 Consensus size: 36
566908 AAAAACTATA
*
566918 ATATATATATATATATATC-AAAATGTTTT-AAAAACT
1 ATATATATATA-AT-TTTCAAAAATGTTTTAAAAAACT
566954 ATATATATATAAGTTTTCAAAAATGTTTT-AAAAACT
1 ATATATATATAA-TTTTCAAAAATGTTTTAAAAAACT
*
566990 ATAT-TATATATTTTTC-AAAATGTTTTTAAAAAAACT
1 ATATATATATAATTTTCAAAAATG-TTTT-AAAAAACT
*
567026 ATATA-ATATATATTTTCAAAATAT-TTTTAAAAAATAT
1 ATATATATATA-ATTTTCAAAA-ATGTTTTAAAAAA-CT
*
567063 ATATAATATATAAGTGTTTTC-AAAATGTTTT-CAAAACT
1 ATAT-ATATATAA---TTTTCAAAAATGTTTTAAAAAACT
* *
567101 ATATATTATATCTATTTT-AAAAATGTTTTCAAAAACT
1 ATATA-TATAT-AATTTTCAAAAATGTTTTAAAAAACT
* ** *
567138 ATATAATATATATATATATTCAAAAAACCGTTTTCTGAAAATT
1 ATAT-ATATATA-AT-T-TTC-AAAAA-TGTTTT-AAAAAACT
* * * *
567181 ATATAT-TATATTTTTTCAAAAATATTTTCAAAAATT
1 ATATATATATA-ATTTTCAAAAATGTTTTAAAAAACT
567217 ATACTATAT
1 ATA-TATAT
567226 TACTATATTT
Statistics
Matches: 224, Mismatches: 18, Indels: 58
0.75 0.06 0.19
Matches are distributed among these distances:
33 6 0.03
34 9 0.04
35 10 0.04
36 78 0.35
37 39 0.17
38 23 0.10
39 19 0.08
40 8 0.04
41 16 0.07
42 7 0.03
43 9 0.04
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.44
Consensus pattern (36 bp):
ATATATATATAATTTTCAAAAATGTTTTAAAAAACT
Found at i:566998 original size:75 final size:72
Alignment explanation
Indices: 566904--567162 Score: 289
Period size: 75 Copynumber: 3.5 Consensus size: 72
566894 AAATAAATAT
566904 TTTTAAAAACTATAATATATATATATATATATCAAAATGTTTTAAAAACTATATATATATAAGTT
1 TTTTAAAAACTAT-ATATATATATATATAT-TCAAAATGTTTTAAAAACTATATATATATAA-TT
566969 TTCAAAAATG
63 TTCAAAAATG
566979 TTTTAAAAACTATAT-TATATAT-T-T-TTCAAAATGTTTTTAAAAAAACTATATA-ATATATAT
1 TTTTAAAAACTATATATATATATATATATTCAAAATG-TTTT--AAAAACTATATATATATA-AT
567039 TTTCAAAATAT-
62 TTTCAAAA-ATG
* * * * *
567050 TTTTAAAAAATATATATAATATATAAGTGTTTTCAAAATGTTTTCAAAACTATATATTATATCTA
1 TTTTAAAAACTATATAT-ATATAT-A-TATATTCAAAATGTTTTAAAAACTATATA-TATAT-AA
567115 TTTT-AAAAATG
61 TTTTCAAAAATG
567126 TTTTCAAAAACTATATAATATATATATATATTCAAAA
1 TTTT-AAAAACTATAT-ATATATATATATATTCAAAA
567163 AACCGTTTTC
Statistics
Matches: 160, Mismatches: 6, Indels: 36
0.79 0.03 0.18
Matches are distributed among these distances:
69 8 0.05
70 5 0.03
71 29 0.18
72 17 0.11
73 13 0.08
74 2 0.01
75 35 0.22
76 10 0.06
77 30 0.19
78 11 0.07
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (72 bp):
TTTTAAAAACTATATATATATATATATATTCAAAATGTTTTAAAAACTATATATATATAATTTTC
AAAAATG
Found at i:574623 original size:16 final size:16
Alignment explanation
Indices: 574602--574640 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
574592 TCATGTCTGA
574602 TGTTTGTAATAGTGAT
1 TGTTTGTAATAGTGAT
574618 TGTTTGTAATAGTGAT
1 TGTTTGTAATAGTGAT
574634 TGTTTGT
1 TGTTTGT
574641 GCACGAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.54
Consensus pattern (16 bp):
TGTTTGTAATAGTGAT
Found at i:577282 original size:14 final size:14
Alignment explanation
Indices: 577263--577289 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
577253 ATTGGTTTTC
577263 TGGAAAATGAATTT
1 TGGAAAATGAATTT
577277 TGGAAAATGAATT
1 TGGAAAATGAATT
577290 ACATTTCTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (14 bp):
TGGAAAATGAATTT
Found at i:577719 original size:99 final size:101
Alignment explanation
Indices: 577561--577764 Score: 230
Period size: 99 Copynumber: 2.0 Consensus size: 101
577551 TATTTATTGA
* * *
577561 AATA-AAATATTATTAGATTATTATATTAATATTAAATATATATATAATATTAGTCATTATTAAT
1 AATATAAATATTATTAGATAATTATATTAATATTAAATAAAAATATAATATTAGTCATTATT-AT
*
577625 AATTTAATAA-T-ATTATTT-TTATGAA-ATTAAAA-AT
65 -ATATAATAATTGATTATTTATTAT-AATATTAAAATAT
*
577659 AATATAAATTTTATTA-ATAATT-TATTATATATTAAAATAAAAATATAATATCTTA-T-ATTAT
1 AATATAAATATTATTAGATAATTATATTA-ATATT-AAATAAAAATATAATA--TTAGTCATTAT
577720 TATATATAATAATTGATTATTTATTATAATATTAAAATAT
62 TATATATAATAATTGATTATTTATTATAATATTAAAATAT
577760 AATAT
1 AATAT
577765 TTATTAGAAA
Statistics
Matches: 91, Mismatches: 5, Indels: 17
0.81 0.04 0.15
Matches are distributed among these distances:
97 13 0.14
98 17 0.19
99 39 0.43
100 12 0.13
101 10 0.11
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.48
Consensus pattern (101 bp):
AATATAAATATTATTAGATAATTATATTAATATTAAATAAAAATATAATATTAGTCATTATTATA
TATAATAATTGATTATTTATTATAATATTAAAATAT
Found at i:577793 original size:26 final size:25
Alignment explanation
Indices: 577737--577821 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 25
577727 AATAATTGAT
*
577737 TATTTATTATAATATTAAAATATAA
1 TATTTATTAAAATATTAAAATATAA
577762 TATTTATTAGAAATATT--AATA-AA
1 TATTTATTA-AAATATTAAAATATAA
**
577785 TATATT-TT-AAATATTTTAAT-TAA
1 TAT-TTATTAAAATATTAAAATATAA
577808 TATTTGATTAAAAT
1 TATTT-ATTAAAAT
577822 GATATTAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
21 7 0.14
22 2 0.04
23 15 0.29
24 8 0.16
25 13 0.25
26 6 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
TATTTATTAAAATATTAAAATATAA
Found at i:587297 original size:81 final size:81
Alignment explanation
Indices: 587190--587371 Score: 260
Period size: 81 Copynumber: 2.2 Consensus size: 81
587180 TCGCGCACGA
* *
587190 GTATCCGTTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGAGAA
1 GTATCCG-TAAATCGCAACGACAATACAT-AAAT-GCAACGCGTATCCGTAAATCGCAACGACAA
587255 TACG-T-AAATCGCAACGC
63 TACGTTAAAATCGCAACGC
* * * * *
587272 GTATCTGTAAATCGCAACGAGAATACATAAATGCAATGTGTATCCGTAAATTGCAACGACAATAC
1 GTATCCGTAAATCGCAACGACAATACATAAATGCAACGCGTATCCGTAAATCGCAACGACAATAC
587337 GTTAAAATCGCAACGC
66 GTTAAAATCGCAACGC
587353 GTATCCGTAAATCGCAACG
1 GTATCCGTAAATCGCAACG
587372 CGATTTTTAA
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
79 30 0.33
80 5 0.06
81 49 0.54
82 6 0.07
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (81 bp):
GTATCCGTAAATCGCAACGACAATACATAAATGCAACGCGTATCCGTAAATCGCAACGACAATAC
GTTAAAATCGCAACGC
Found at i:587372 original size:20 final size:20
Alignment explanation
Indices: 587190--587373 Score: 158
Period size: 20 Copynumber: 9.1 Consensus size: 20
587180 TCGCGCACGA
587190 GTATCCGTTAAATCGCAACGAC
1 GTATCCG-TAAATCGCAACG-C
* *
587212 -AATACGTAAAATCGCAACGC
1 GTATCCGT-AAATCGCAACGC
*
587232 GTATCCGTAAATCGCAACGA
1 GTATCCGTAAATCGCAACGC
* *
587252 GAATACGTAAATCGCAACGC
1 GTATCCGTAAATCGCAACGC
* *
587272 GTATCTGTAAATCGCAACGA
1 GTATCCGTAAATCGCAACGC
* * * * *
587292 GAATACATAAAT-GCAATGT
1 GTATCCGTAAATCGCAACGC
*
587311 GTATCCGTAAATTGCAACGAC
1 GTATCCGTAAATCGCAACG-C
* *
587332 -AATACGTTAAAATCGCAACGC
1 GTATCCG-T-AAATCGCAACGC
587353 GTATCCGTAAATCGCAACGC
1 GTATCCGTAAATCGCAACGC
587373 G
1 G
587374 ATTTTTAAAG
Statistics
Matches: 127, Mismatches: 28, Indels: 16
0.74 0.16 0.09
Matches are distributed among these distances:
19 14 0.11
20 76 0.60
21 23 0.18
22 14 0.11
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
GTATCCGTAAATCGCAACGC
Found at i:587958 original size:21 final size:21
Alignment explanation
Indices: 587897--587972 Score: 61
Period size: 20 Copynumber: 3.7 Consensus size: 21
587887 TTCTAAACTT
587897 AAAATCGCAAC-ATGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
* *
587917 AAAACCGCAAC-ACG-TAAATG
1 AAAATCGCAACGA-GAGAAATG
**
587937 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGAGAAATG
*
587958 AAAATCGCAATGAGA
1 AAAATCGCAACGAGA
587973 ATCGCAACGC
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
20 26 0.59
21 18 0.41
ACGTcount: A:0.50, C:0.18, G:0.18, T:0.13
Consensus pattern (21 bp):
AAAATCGCAACGAGAGAAATG
Found at i:588018 original size:19 final size:19
Alignment explanation
Indices: 587991--588089 Score: 108
Period size: 19 Copynumber: 5.1 Consensus size: 19
587981 GCGAAAAAAA
*
587991 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
588010 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* **
588029 TCGCATTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
588048 TCCGCGTTGCGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
* *
588068 CTCTCGTTGTGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
588088 TC
1 TC
588090 AACCAAAAGA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
19 37 0.54
20 31 0.45
21 1 0.01
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:589932 original size:94 final size:94
Alignment explanation
Indices: 589771--590130 Score: 623
Period size: 94 Copynumber: 3.8 Consensus size: 94
589761 TAGATTGCTT
* *
589771 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
589836 ATTTGTCGTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
*
589865 AGTAAATTTATTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
589930 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
589959 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
590024 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * * *
590053 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTATGTATTCTTTAATACTCTAAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
590118 ATTTGTCTTTGTT
66 ATTTGTCTTTGTT
590131 ATCTGATGCA
Statistics
Matches: 256, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
93 20 0.08
94 236 0.92
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:590483 original size:42 final size:42
Alignment explanation
Indices: 590407--590486 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
590397 GACTCGCCTG
* * *
590407 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
* * *
590449 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
590487 ACTGTCATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.21, C:0.39, G:0.17, T:0.23
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
Found at i:594379 original size:60 final size:61
Alignment explanation
Indices: 594302--594442 Score: 151
Period size: 60 Copynumber: 2.3 Consensus size: 61
594292 CGATAGTTAG
* * * * *
594302 AATCTCGTTGCGATTTACAG-ATTCACATTGCGATTTACAGATTCGCATTGTGA-TTTACGT
1 AATCGCGTTGCGATTTAC-GTAATCACATTGCGAATTACAGATACGCATTGCGATTTTACGT
* * * *
594362 AATCGCGTTGCGATTTACGTAATCGCGTTGCGAATTACGGATACGCGTTGCGATTTTACGT
1 AATCGCGTTGCGATTTACGTAATCACATTGCGAATTACAGATACGCATTGCGATTTTACGT
* *
594423 ATTTGTCGTTGCGATTTACG
1 AATCG-CGTTGCGATTTACG
594443 GATACGCGTT
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
59 1 0.01
60 42 0.63
61 10 0.15
62 14 0.21
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (61 bp):
AATCGCGTTGCGATTTACGTAATCACATTGCGAATTACAGATACGCATTGCGATTTTACGT
Found at i:594400 original size:40 final size:40
Alignment explanation
Indices: 594307--594457 Score: 162
Period size: 40 Copynumber: 3.7 Consensus size: 40
594297 GTTAGAATCT
* * * *
594307 CGTTGCGATTTACAGATTCACATTGCGATTTACAG-ATTCG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTAC-GTATTCG
* * * *
594347 CATTGTGATTTACGTA-ATCGCGTTGCGATTTACGTAATCG
1 CGTTGCGATTTACGGATA-CGCGTTGCGATTTACGTATTCG
* *
594387 CGTTGCGAATTACGGATACGCGTTGCGATTTTACGTATTTG
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCG
594428 TCGTTGCGATTTACGGATACGCGTTGCGAT
1 -CGTTGCGATTTACGGATACGCGTTGCGAT
594458 AGTCAGAATT
Statistics
Matches: 91, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
39 1 0.01
40 51 0.56
41 12 0.13
42 27 0.30
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.36
Consensus pattern (40 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCG
Found at i:594454 original size:20 final size:20
Alignment explanation
Indices: 594307--594457 Score: 126
Period size: 20 Copynumber: 7.5 Consensus size: 20
594297 GTTAGAATCT
* * *
594307 CGTTGCGATTTACAGATTCA
1 CGTTGCGATTTACGGATACG
* * *
594327 CATTGCGATTTACAGATTCG
1 CGTTGCGATTTACGGATACG
* * *
594347 CATTGTGATTTACGTA-ATCG
1 CGTTGCGATTTACGGATA-CG
*
594367 CGTTGCGATTTACGTA-ATCG
1 CGTTGCGATTTACGGATA-CG
*
594387 CGTTGCGAATTACGGATACG
1 CGTTGCGATTTACGGATACG
* **
594407 CGTTGCGATTTTACGTATTTG
1 CGTTGCGA-TTTACGGATACG
594428 TCGTTGCGATTTACGGATACG
1 -CGTTGCGATTTACGGATACG
594449 CGTTGCGAT
1 CGTTGCGAT
594458 AGTCAGAATT
Statistics
Matches: 110, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
20 84 0.76
21 18 0.16
22 8 0.07
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACG
Found at i:594494 original size:20 final size:20
Alignment explanation
Indices: 594471--594518 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
594461 CAGAATTGCG
*
594471 TTGCGATTTAT-ATGTTCACA
1 TTGCGATTT-TCATATTCACA
*
594491 TTGCGATTTTCATATTCGCA
1 TTGCGATTTTCATATTCACA
594511 TTGCGATT
1 TTGCGATT
594519 CTGGAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.46
Consensus pattern (20 bp):
TTGCGATTTTCATATTCACA
Found at i:594571 original size:21 final size:21
Alignment explanation
Indices: 594489--594583 Score: 65
Period size: 21 Copynumber: 4.6 Consensus size: 21
594479 TATATGTTCA
594489 CATTGCGATT-TTCAT-ATTCG
1 CATTGCGATTCTTCATCA-TCG
** **
594509 CATTGCGATTCTGGAAAATCG
1 CATTGCGATTCTTCATCATCG
*
594530 CAATGCGAATT-TGT-A-CTATCG
1 CATTGCG-ATTCT-TCATC-ATCG
594551 CATTGCGATTCTTCATCATCG
1 CATTGCGATTCTTCATCATCG
*
594572 CGTTGCGATTCT
1 CATTGCGATTCT
594584 GGGAACTGAT
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
20 14 0.24
21 40 0.68
22 5 0.08
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (21 bp):
CATTGCGATTCTTCATCATCG
Found at i:594617 original size:20 final size:19
Alignment explanation
Indices: 594568--594621 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
594558 ATTCTTCATC
594568 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
594587 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
594608 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
594622 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:598628 original size:46 final size:46
Alignment explanation
Indices: 598570--598692 Score: 205
Period size: 45 Copynumber: 2.7 Consensus size: 46
598560 AAAAATAAGA
598570 CCTAGACAAAAACTTGTATATGCATATGCAAACAAATTAAGAAAAC
1 CCTAGACAAAAACTTGTATATGCATATGCAAACAAATTAAGAAAAC
* * *
598616 CCTAGAAAAAAAC-TATATATACATATGCAAACAAATTAAGAAAAC
1 CCTAGACAAAAACTTGTATATGCATATGCAAACAAATTAAGAAAAC
598661 CCTAGACAAAAA-TTGTATATGCATATGCAAAC
1 CCTAGACAAAAACTTGTATATGCATATGCAAAC
598693 GAAACAAATT
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
45 58 0.83
46 12 0.17
ACGTcount: A:0.51, C:0.17, G:0.10, T:0.22
Consensus pattern (46 bp):
CCTAGACAAAAACTTGTATATGCATATGCAAACAAATTAAGAAAAC
Found at i:600928 original size:15 final size:16
Alignment explanation
Indices: 600879--600930 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
600869 AATTATGGAA
*
600879 TATAATTTAATTAATAT
1 TATATTTTAATTAAT-T
* * *
600896 TTTATTTTAAATAGTT
1 TATATTTTAATTAATT
600912 TAT-TTTTAATTAATT
1 TATATTTTAATTAATT
600927 TATA
1 TATA
600931 ATTATACATT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
15 13 0.48
16 3 0.11
17 11 0.41
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TATATTTTAATTAATT
Found at i:603317 original size:51 final size:51
Alignment explanation
Indices: 603204--603319 Score: 214
Period size: 51 Copynumber: 2.3 Consensus size: 51
603194 CAGTAATTAC
* *
603204 ATTTATTTTTCATATATTTTAGAAATTGAATTAAACTAGTAACCAACCCTT
1 ATTTAATTTTCTTATATTTTAGAAATTGAATTAAACTAGTAACCAACCCTT
603255 ATTTAATTTTCTTATATTTTAGAAATTGAATTAAACTAGTAACCAACCCTT
1 ATTTAATTTTCTTATATTTTAGAAATTGAATTAAACTAGTAACCAACCCTT
603306 ATTTAATTTTCTTA
1 ATTTAATTTTCTTA
603320 CTTTAACTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (51 bp):
ATTTAATTTTCTTATATTTTAGAAATTGAATTAAACTAGTAACCAACCCTT
Found at i:603978 original size:13 final size:13
Alignment explanation
Indices: 603960--603999 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
603950 TGATTGTAAA
603960 TCTTTATTATAAT
1 TCTTTATTATAAT
*
603973 TCTTTACTATAAT
1 TCTTTATTATAAT
603986 TCTTTATTATAAT
1 TCTTTATTATAAT
603999 T
1 T
604000 TAAGATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (13 bp):
TCTTTATTATAAT
Found at i:604299 original size:13 final size:14
Alignment explanation
Indices: 604276--604305 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
604266 TTGGTTGATA
604276 TAACTTTTTAAAAG
1 TAACTTTTTAAAAG
604290 TAAC-TTTTAAAAG
1 TAACTTTTTAAAAG
604303 TAA
1 TAA
604306 GTTAAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (14 bp):
TAACTTTTTAAAAG
Found at i:605332 original size:41 final size:41
Alignment explanation
Indices: 605287--605367 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
605277 CGTTTTTACA
605287 ACAAACG-CCGCAAAAGAGTAGTAATTTAGCGGCATTTTTAG
1 ACAAACGTCCGCAAAA-AGTAGTAATTTAGCGGCATTTTTAG
* * *
605328 ACAAATGTCGGCAAAAAGTAGTAATTTAGTGGCATTTTTA
1 ACAAACGTCCGCAAAAAGTAGTAATTTAGCGGCATTTTTA
605368 TAAAAATGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 29 0.81
42 7 0.19
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (41 bp):
ACAAACGTCCGCAAAAAGTAGTAATTTAGCGGCATTTTTAG
Found at i:605375 original size:41 final size:42
Alignment explanation
Indices: 605296--605375 Score: 126
Period size: 41 Copynumber: 1.9 Consensus size: 42
605286 AACAAACGCC
*
605296 GCAAAAGAGTAGTAATTTAGCGGCATTTTTAGACAAATGTCG
1 GCAAAAGAGTAGTAATTTAGCGGCATTTTTAGAAAAATGTCG
* *
605338 GCAAAA-AGTAGTAATTTAGTGGCATTTTTATAAAAATG
1 GCAAAAGAGTAGTAATTTAGCGGCATTTTTAGAAAAATG
605376 CTGCAACAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 29 0.83
42 6 0.17
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (42 bp):
GCAAAAGAGTAGTAATTTAGCGGCATTTTTAGAAAAATGTCG
Found at i:605538 original size:83 final size:83
Alignment explanation
Indices: 605341--605571 Score: 213
Period size: 83 Copynumber: 2.8 Consensus size: 83
605331 AATGTCGGCA
* * * * *
605341 AAAAGTAGTAATTTAGTGGCATTTTTATA-AAAATGCTGCAACAGGGTTGTTTATAGTGACGGTT
1 AAAA-TAGTAATTTAGTGGCATTTTTATATAAAACGCCGCAACAGTGTTGTTTATAGTGGCGTTT
605405 TTCCAACAAACGACACTAT
65 TTCCAACAAACGACACTAT
* ** * *
605424 AAACTAGTAATTTAGCAGCGTTTATCA-ATAAAACGCCGCCAA-AGTGTTGTTTATAGTGGCGTT
1 AAAATAGTAATTTAGTGGCATTT-TTATATAAAACGCCG-CAACAGTGTTGTTTATAGTGGCGTT
* * * *
605487 TGTTGC-ACAAATGCCGCTAT
64 T-TTCCAACAAACGACACTAT
* * * *
605507 AAAATAGTAATATAGTGGCATTTTTTTAT-AAACGCCACAATA-TGGTTGTTTATAGTGGCGTTT
1 AAAATAGTAATTTAGTGGCATTTTTATATAAAACGCCGCAACAGT-GTTGTTTATAGTGGCGTTT
605570 TT
65 TT
605572 GGAAAAACGC
Statistics
Matches: 119, Mismatches: 22, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
81 6 0.05
82 45 0.38
83 62 0.52
84 6 0.05
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (83 bp):
AAAATAGTAATTTAGTGGCATTTTTATATAAAACGCCGCAACAGTGTTGTTTATAGTGGCGTTTT
TCCAACAAACGACACTAT
Found at i:612334 original size:12 final size:12
Alignment explanation
Indices: 612317--612346 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
612307 ACCAATAGAG
612317 TGATGATGAGTC
1 TGATGATGAGTC
612329 TGATGATGAGTC
1 TGATGATGAGTC
612341 TGATGA
1 TGATGA
612347 AGAGGATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.07, G:0.33, T:0.33
Consensus pattern (12 bp):
TGATGATGAGTC
Found at i:615613 original size:22 final size:23
Alignment explanation
Indices: 615587--615631 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
615577 GATAGGGTTT
*
615587 TAAATTTACC-TGA-ATTTATTTA
1 TAAATGTACCATGACATTT-TTTA
615609 TAAATGTACCATGACATTTTTTA
1 TAAATGTACCATGACATTTTTTA
615632 CTTGAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 9 0.45
23 7 0.35
24 4 0.20
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.47
Consensus pattern (23 bp):
TAAATGTACCATGACATTTTTTA
Found at i:616007 original size:21 final size:21
Alignment explanation
Indices: 615983--616033 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
615973 GCAGAAGTAG
* *
615983 AGAGAGAAGCAATGGTAGCAC
1 AGAGAGAAGCAACGGCAGCAC
*
616004 AGAGAGAAGCAGCGGCAGCAC
1 AGAGAGAAGCAACGGCAGCAC
616025 AGAGAGAAG
1 AGAGAGAAG
616034 TAGCATATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.43, C:0.16, G:0.37, T:0.04
Consensus pattern (21 bp):
AGAGAGAAGCAACGGCAGCAC
Found at i:616431 original size:44 final size:44
Alignment explanation
Indices: 616354--616508 Score: 181
Period size: 44 Copynumber: 3.6 Consensus size: 44
616344 TTTATGTGTT
* * * *
616354 CTTTAGCGGCATTTGTA-ACAAAAAACGCCGCTATATACCTTAC
1 CTTTAGCGGCGTTTGTATCCTAAAAACGCCGCTATATACCTGAC
* * * *
616397 ATTTTGCGGCGTTTGTATCCTAAAAACGCAGCTATA-AACTAGAC
1 CTTTAGCGGCGTTTGTATCCTAAAAACGCCGCTATATACCT-GAC
* *
616441 CTTTAGCGGCGTTTGTATCCTAAAAATGCCGCTATATACCAGAC
1 CTTTAGCGGCGTTTGTATCCTAAAAACGCCGCTATATACCTGAC
*
616485 CTTTAGTGGCGTTTGTATCC-AAAA
1 CTTTAGCGGCGTTTGTATCCTAAAA
616509 TGCCGCGAAA
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
43 21 0.22
44 71 0.76
45 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (44 bp):
CTTTAGCGGCGTTTGTATCCTAAAAACGCCGCTATATACCTGAC
Found at i:616541 original size:43 final size:43
Alignment explanation
Indices: 616404--616520 Score: 121
Period size: 44 Copynumber: 2.7 Consensus size: 43
616394 TACATTTTGC
* * * * *
616404 GGCGTTTGTATCCTAAAAACGCAGCTATAA-ACTAGACCTTTAGC
1 GGCGTTTGTATCC-AAAAATGCCGCGA-AATACCAGACCTTTAGA
* * *
616448 GGCGTTTGTATCCTAAAAATGCCGCTATATACCAGACCTTTAGT
1 GGCGTTTGTATCC-AAAAATGCCGCGAAATACCAGACCTTTAGA
616492 GGCGTTTGTATCC-AAAATGCCGCGAAATA
1 GGCGTTTGTATCCAAAAATGCCGCGAAATA
616521 TCTTAACCTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 14 0.22
43 1 0.02
44 50 0.77
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (43 bp):
GGCGTTTGTATCCAAAAATGCCGCGAAATACCAGACCTTTAGA
Found at i:616635 original size:43 final size:43
Alignment explanation
Indices: 616574--616658 Score: 98
Period size: 43 Copynumber: 2.0 Consensus size: 43
616564 ACGCATTTTA
* * *
616574 CGGCGTTTGTGTGAAAAACGCCACTAAATATCAATACCTATTG
1 CGGCGTTTGTGGGAAAAACACCACTAAATATCAACACCTATTG
* * ** *
616617 CGGCGTTTTTGGGGAAAACACTGCTAAATATTAACACCTATT
1 CGGCGTTTGTGGGAAAAACACCACTAAATATCAACACCTATT
616659 ACAACAAATG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (43 bp):
CGGCGTTTGTGGGAAAAACACCACTAAATATCAACACCTATTG
Found at i:616969 original size:14 final size:14
Alignment explanation
Indices: 616922--616971 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
616912 TTCAATAATC
* *
616922 CATTTGTTTGTGTT
1 CATTCGTTTATGTT
* *
616936 CATTCATTTTTGTT
1 CATTCGTTTATGTT
616950 CATTCGTTTATGTT
1 CATTCGTTTATGTT
*
616964 CGTTCGTT
1 CATTCGTT
616972 CGTTTTTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.10, C:0.14, G:0.16, T:0.60
Consensus pattern (14 bp):
CATTCGTTTATGTT
Found at i:617313 original size:18 final size:18
Alignment explanation
Indices: 617280--617315 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
617270 GCAATAAATT
*
617280 TTGTTCGTTTAGTTGTTC
1 TTGTTCGTTCAGTTGTTC
*
617298 TTGTTCGTTCATTTGTTC
1 TTGTTCGTTCAGTTGTTC
617316 GGTTAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.14, G:0.19, T:0.61
Consensus pattern (18 bp):
TTGTTCGTTCAGTTGTTC
Found at i:625071 original size:16 final size:17
Alignment explanation
Indices: 625050--625089 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
625040 TCGTGAGGCC
* *
625050 AAATTGA-TTAGTTTTA
1 AAATTGATTTAATGTTA
625066 AAATTGATTTAATGTTA
1 AAATTGATTTAATGTTA
625083 AAATTGA
1 AAATTGA
625090 CAATAACTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (17 bp):
AAATTGATTTAATGTTA
Found at i:627953 original size:30 final size:31
Alignment explanation
Indices: 627900--627962 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
627890 CATTGCTTTG
*
627900 TGCACTGTTCGAATCAAACTGCATTGTATTTTTC
1 TGCACTGTTCGAAT---ACTGCATAGTATTTTTC
627934 TGCACTGTTCGAAT-CTGCATAGTATTTTT
1 TGCACTGTTCGAATACTGCATAGTATTTTT
627963 GAATCTGCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 14 0.50
34 14 0.50
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (31 bp):
TGCACTGTTCGAATACTGCATAGTATTTTTC
Found at i:627984 original size:21 final size:19
Alignment explanation
Indices: 627944--627981 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
627934 TGCACTGTTC
*
627944 GAATCTGCATAGTATTTTT
1 GAATCTGCACAGTATTTTT
627963 GAATCTGCACAGTATTTTT
1 GAATCTGCACAGTATTTTT
627982 TTGCATTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (19 bp):
GAATCTGCACAGTATTTTT
Found at i:635782 original size:31 final size:31
Alignment explanation
Indices: 635744--635804 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
635734 ATTGATCATT
635744 AATATTATCAATTTATAATAAAATAGTCACA
1 AATATTATCAATTTATAATAAAATAGTCACA
* * *
635775 AATATTATCGATTTGTAATAAAATGGTCAC
1 AATATTATCAATTTATAATAAAATAGTCAC
635805 TTTAGTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (31 bp):
AATATTATCAATTTATAATAAAATAGTCACA
Found at i:638150 original size:17 final size:16
Alignment explanation
Indices: 638085--638151 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 16
638075 TCTAAAACCC
638085 TAACCTCCAAAAAATCA
1 TAACCTCC-AAAAATCA
* *
638102 GAAACT-CAAAAATCA
1 TAACCTCCAAAAATCA
638117 TAACC-CCATTGAAAATCA
1 TAACCTCCA---AAAATCA
638135 TAACCTCCACAAAATCA
1 TAACCTCCA-AAAATCA
638152 AAAACCAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
15 13 0.32
16 1 0.03
17 11 0.28
18 12 0.30
19 3 0.08
ACGTcount: A:0.51, C:0.28, G:0.03, T:0.18
Consensus pattern (16 bp):
TAACCTCCAAAAATCA
Done.