Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007973.1 Hibiscus syriacus cultivar Beakdansim tig00110410_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: 1299094
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:4791 original size:10 final size:9
Alignment explanation
Indices: 4756--4848 Score: 78
Period size: 10 Copynumber: 9.7 Consensus size: 9
4746 GCTGCTGGAA
*
4756 ACCGGTTTA
1 ACCGGTTTG
*
4765 ACCGGTTTTCA
1 ACCGG-TTT-G
4776 ACCGGTTCTG
1 ACCGGTT-TG
4786 ACCGGTTTG
1 ACCGGTTTG
*
4795 ACCGGTTTCA
1 ACCGGTTT-G
*
4805 ACCGGTTCG
1 ACCGGTTTG
4814 AACCGGTTTG
1 -ACCGGTTTG
*
4824 ACCGGTCTG
1 ACCGGTTTG
*
4833 AATCGGTTTG
1 -ACCGGTTTG
4843 ACCGGT
1 ACCGGT
4849 CCGACCCGAC
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
9 28 0.41
10 34 0.49
11 7 0.10
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:4800 original size:19 final size:20
Alignment explanation
Indices: 4756--4848 Score: 95
Period size: 19 Copynumber: 4.8 Consensus size: 20
4746 GCTGCTGGAA
* * *
4756 ACCGGTTTAACCGGTTTTCA
1 ACCGGTTTGACCGGTTCTGA
4776 ACCGGTTCTGACCGGTT-TG-
1 ACCGGTT-TGACCGGTTCTGA
*
4795 ACCGGTTTCAACCGGTTC-GA
1 ACCGGTTT-GACCGGTTCTGA
4815 ACCGGTTTGACCGG-TCTGA
1 ACCGGTTTGACCGGTTCTGA
*
4834 ATCGGTTTGACCGGT
1 ACCGGTTTGACCGGT
4849 CCGACCCGAC
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
18 3 0.05
19 35 0.56
20 16 0.26
21 8 0.13
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (20 bp):
ACCGGTTTGACCGGTTCTGA
Found at i:4818 original size:29 final size:30
Alignment explanation
Indices: 4755--4829 Score: 118
Period size: 29 Copynumber: 2.5 Consensus size: 30
4745 GGCTGCTGGA
*
4755 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
4786 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
4814 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
4830 CTGAATCGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 1 0.02
29 28 0.67
30 13 0.31
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:4839 original size:29 final size:28
Alignment explanation
Indices: 4756--4848 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 28
4746 GCTGCTGGAA
* *
4756 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TCTCAACCGGTTC-G
*
4786 ACCGGTTTGACCGGTTTCAACCGGTTCG
1 ACCGGTTTGACCGGTCTCAACCGGTTCG
* * *
4814 AACCGGTTTGACCGGTCTGAATCGGTTTG
1 -ACCGGTTTGACCGGTCTCAACCGGTTCG
4843 ACCGGT
1 ACCGGT
4849 CCGACCCGAC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 7 0.12
29 37 0.65
30 13 0.23
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (28 bp):
ACCGGTTTGACCGGTCTCAACCGGTTCG
Found at i:4859 original size:5 final size:5
Alignment explanation
Indices: 4849--4903 Score: 56
Period size: 5 Copynumber: 10.2 Consensus size: 5
4839 TTTGACCGGT
* *
4849 CCGAC CCGAC CCGAC CGTTGAC CCGAC CCGAC CGTTGAC CCGAC CCGAC
1 CCGAC CCGAC CCGAC C--CGAC CCGAC CCGAC C--CGAC CCGAC CCGAC
4898 CCGAC C
1 CCGAC C
4904 GTTGACCGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
5 34 0.81
7 8 0.19
ACGTcount: A:0.18, C:0.53, G:0.22, T:0.07
Consensus pattern (5 bp):
CCGAC
Found at i:4875 original size:22 final size:22
Alignment explanation
Indices: 4849--4910 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
4839 TTTGACCGGT
4849 CCGACCCGACCCGACCGTT---
1 CCGACCCGACCCGACCGTTGAC
4868 --GACCCGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
4888 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
4910 C
1 C
4911 GTTGACCGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
17 17 0.45
22 21 0.55
ACGTcount: A:0.18, C:0.50, G:0.23, T:0.10
Consensus pattern (22 bp):
CCGACCCGACCCGACCGTTGAC
Found at i:4910 original size:17 final size:17
Alignment explanation
Indices: 4851--4898 Score: 96
Period size: 17 Copynumber: 2.8 Consensus size: 17
4841 TGACCGGTCC
4851 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
4868 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
4885 GACCCGACCCGACC
1 GACCCGACCCGACC
4899 CGACCGTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.19, C:0.50, G:0.23, T:0.08
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:4945 original size:7 final size:7
Alignment explanation
Indices: 4900--4944 Score: 81
Period size: 7 Copynumber: 6.4 Consensus size: 7
4890 GACCCGACCC
4900 GACCGTT
1 GACCGTT
4907 GACCGTT
1 GACCGTT
4914 GACCGTT
1 GACCGTT
4921 GACCGTT
1 GACCGTT
4928 GACCGTT
1 GACCGTT
*
4935 GACTGTT
1 GACCGTT
4942 GAC
1 GAC
4945 TTTCTTTGAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.16, C:0.27, G:0.29, T:0.29
Consensus pattern (7 bp):
GACCGTT
Found at i:8723 original size:2 final size:2
Alignment explanation
Indices: 8716--8743 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8706 TCAAATAATG
8716 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
8744 GGATAAGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10726 original size:30 final size:30
Alignment explanation
Indices: 10685--10746 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
10675 ACATAAGAAC
*
10685 AGTTGCCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
10715 AGTTACCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
10745 AG
1 AG
10747 GTTCTTCGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (30 bp):
AGTTACCGAGGATCTTTATGACCTCTGGAT
Found at i:15881 original size:135 final size:135
Alignment explanation
Indices: 15678--16016 Score: 357
Period size: 135 Copynumber: 2.5 Consensus size: 135
15668 TATCACCTTT
* * * * * *
15678 AGATGGCC-AGAACTCTTCATCACGTTTGAGTCA-TGTCATCAC-CTAACCT-GATCTCCCCATC
1 AGATGGCCAAGAACTCTTCATCACGTATGAGT-AGTGTCATCACTC-GA-CTAAATTTCCTCATT
** * * * * *
15739 ACATAGGAGTTGTGTCAACCTTTGATAACCAGTC-GTCCTCATCGCATAGGAATCGAGTTACCAT
63 ATGTAGGAGTTATGTCAACCATTGATAACCA-ACAGTCCTCATCGCATAGGAACCAAGTTACCAT
* *
15803 CCTTCTTAA
127 ACTTCTAAA
15812 AGATGGCCAAGAACTCTTCATCACGTATGAGTAGTGTCATCACTCGACTAAATTTCCTCATTATG
1 AGATGGCCAAGAACTCTTCATCACGTATGAGTAGTGTCATCACTCGACTAAATTTCCTCATTATG
* * * *
15877 TAGGAGTTATGTCAACCATTGATAACCAACAGTCTTCATCGCGTAGGAACCAAGTTATCATATTT
66 TAGGAGTTATGTCAACCATTGATAACCAACAGTCCTCATCGCATAGGAACCAAGTTACCATACTT
15942 CTAAA
131 CTAAA
** * * * * *
15947 AGATGGAAAAGAACTCTTCATCACGTATGAGCAGTTTCATCCCTTGACTATATCTT-CTCATTAT
1 AGATGGCCAAGAACTCTTCATCACGTATGAGTAGTGTCATCACTCGACTAAAT-TTCCTCATTAT
16011 GTAGGA
65 GTAGGA
16017 TTCTTGTTAC
Statistics
Matches: 173, Mismatches: 26, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
134 12 0.07
135 158 0.91
136 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (135 bp):
AGATGGCCAAGAACTCTTCATCACGTATGAGTAGTGTCATCACTCGACTAAATTTCCTCATTATG
TAGGAGTTATGTCAACCATTGATAACCAACAGTCCTCATCGCATAGGAACCAAGTTACCATACTT
CTAAA
Found at i:17028 original size:15 final size:15
Alignment explanation
Indices: 17008--17044 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
16998 CACAACAAGA
*
17008 AGCGCCGGCTATACC
1 AGCGCCGGCCATACC
17023 AGCGCCGGCCATACC
1 AGCGCCGGCCATACC
17038 AGCGCCG
1 AGCGCCG
17045 CTAATGTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.19, C:0.43, G:0.30, T:0.08
Consensus pattern (15 bp):
AGCGCCGGCCATACC
Found at i:17127 original size:43 final size:42
Alignment explanation
Indices: 17072--17337 Score: 284
Period size: 43 Copynumber: 6.2 Consensus size: 42
17062 TGTGAAATAA
* * *
17072 AAACGCCACAAAAAGTCAAGATCTATAGCAGCGTTTTTGAAAC
1 AAACGCCGCAAAAGGTC-AGATCTATAGCAGCGTTTTTGATAC
*
17115 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGTATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCAGCGTTTTTG-ATAC
*
17158 AAACGCCGCAAAAGGTCAGATCTATAGCAGCGATTTTGTATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCAGCGTTTTTG-ATAC
* * ** * *
17201 AAACGCCACGAAACTTCAGATCTGTAG-AGGCATTTTTGGATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCA-GCGTTTTT-GATAC
* * *
17244 AAATGCCGCAAAAGGTCAGATCTGTAGCGGCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCAGCGTTTTT-GATAC
* * * *
17287 AAACGTCGCAAAAGGTCAGATCTGTAGCGGCGGTTTTGGA-AC
1 AAACGCCGCAAAAGGTCAGATCTATAGCAGC-GTTTTTGATAC
*
17329 AAACACCGC
1 AAACGCCGC
17338 TAATTACCAT
Statistics
Matches: 193, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
42 30 0.16
43 157 0.81
44 6 0.03
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (42 bp):
AAACGCCGCAAAAGGTCAGATCTATAGCAGCGTTTTTGATAC
Found at i:17170 original size:86 final size:85
Alignment explanation
Indices: 17052--17337 Score: 340
Period size: 86 Copynumber: 3.3 Consensus size: 85
17042 CCGCTAATGT
* * * * * *
17052 TAGCGGCGTTTGTGAAATAAAAACGCCACAAAAAGTCAAGATCTATAGCAGCGTTTTTGAAACAA
1 TAGCGGCGTTTTTG-GATACAAACGCCGCAAAAGGTC-AGATCTATAGCAGCGTTTTTGATACAA
*
17117 ACGCCGCAAAAGGTCAGATCTA
64 ACGCCGCAAAAGGTCAGATCTG
* *
17139 TAGCGGCGTTTTTGTATACAAACGCCGCAAAAGGTCAGATCTATAGCAGCGATTTTGTATACAAA
1 TAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCAGATCTATAGCAGCGTTTTTG-ATACAAA
* * **
17204 CGCCACGAAACTTCAGATCTG
65 CGCCGCAAAAGGTCAGATCTG
* * * * *
17225 TAGAGGCATTTTTGGATACAAATGCCGCAAAAGGTCAGATCTGTAGCGGCGTTTTTGGATACAAA
1 TAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCAGATCTATAGCAGCGTTTTT-GATACAAA
*
17290 CGTCGCAAAAGGTCAGATCTG
65 CGCCGCAAAAGGTCAGATCTG
* *
17311 TAGCGGCGGTTTTGGA-ACAAACACCGC
1 TAGCGGCGTTTTTGGATACAAACGCCGC
17338 TAATTACCAT
Statistics
Matches: 168, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
85 29 0.17
86 125 0.74
87 14 0.08
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (85 bp):
TAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCAGATCTATAGCAGCGTTTTTGATACAAAC
GCCGCAAAAGGTCAGATCTG
Found at i:18278 original size:59 final size:59
Alignment explanation
Indices: 18186--18299 Score: 201
Period size: 59 Copynumber: 1.9 Consensus size: 59
18176 CTGTACAAGA
*
18186 ATAGCAGTAATGAATAAAAAGTTCGCTATAAATTTAACCAATATGGTTTTAAATGATAC
1 ATAGCAGTAATGAATAAAAAGTTCGCTATAAATTTAACCAAGATGGTTTTAAATGATAC
* *
18245 ATAGCAGTAATGAATACAAAGTTCGTTATAAATTTAACCAAGATGGTTTTAAATG
1 ATAGCAGTAATGAATAAAAAGTTCGCTATAAATTTAACCAAGATGGTTTTAAATG
18300 GTCAGTGACG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (59 bp):
ATAGCAGTAATGAATAAAAAGTTCGCTATAAATTTAACCAAGATGGTTTTAAATGATAC
Found at i:21370 original size:40 final size:42
Alignment explanation
Indices: 21280--21794 Score: 595
Period size: 43 Copynumber: 12.6 Consensus size: 42
21270 ACAACTTGCA
21280 GCGTTTG--TAAAAAACGCCACTAAAG-ACGAGTCTATAGCG
1 GCGTTTGTATAAAAAACGCCACTAAAGTACGAGTCTATAGCG
*
21319 GCGCTTG--TAAAAAACGCCACTAAAG-ACGAGTCTATA-CG
1 GCGTTTGTATAAAAAACGCCACTAAAGTACGAGTCTATAGCG
* * * * *
21357 GCATTTGTAT-AAAAACGCCACTAAAGTGCAAGCCTATTGCG
1 GCGTTTGTATAAAAAACGCCACTAAAGTACGAGTCTATAGCG
*
21398 GCGTTTGTA-AACACAAACGCCACTAAAGTACGAGTCTATAGAG
1 GCGTTTGTATAA-A-AAACGCCACTAAAGTACGAGTCTATAGCG
* *
21441 GCGTTTGTATAAAAAAAAGCCACTAATGTACGAGTCTATAGCG
1 GCGTTTGTAT-AAAAAACGCCACTAAAGTACGAGTCTATAGCG
* * * *
21484 GCGTTTG--TACAAAACGCCACTAAAGTACAAGCCTATTGCG
1 GCGTTTGTATAAAAAACGCCACTAAAGTACGAGTCTATAGCG
*
21524 GCGTTTATA-AACACAAACGCCACTAAAGTACGAGTCTATAGCG
1 GCGTTTGTATAA-A-AAACGCCACTAAAGTACGAGTCTATAGCG
*
21567 GCGTTTGTAT-AAAAACGCCACTAAAGTACAAGTCTATAGCG
1 GCGTTTGTATAAAAAACGCCACTAAAGTACGAGTCTATAGCG
* * *
21608 GCG-TT-TATATAAAACGCCACTAAAGTAGGCGTCTATAGCG
1 GCGTTTGTATAAAAAACGCCACTAAAGTACGAGTCTATAGCG
* * *
21648 GCGTTTGTATAAAACAC-CGCA--AAAGTACTACTCTATAGCG
1 GCGTTTGTATAAAAAACGC-CACTAAAGTACGAGTCTATAGCG
21688 GCGTTTGTAT-AAAAACGCCACTAAAGTACGAGTCTATAGCG
1 GCGTTTGTATAAAAAACGCCACTAAAGTACGAGTCTATAGCG
* * *
21729 CCATTTTGTAT-AAAAATGCCACTAAAGTACGAGTCTATAGCG
1 GC-GTTTGTATAAAAAACGCCACTAAAGTACGAGTCTATAGCG
*
21771 GCGTTTGTAT-AAAAACGCCGCTAA
1 GCGTTTGTATAAAAAACGCCACTAA
21795 CGTTACCATT
Statistics
Matches: 405, Mismatches: 49, Indels: 42
0.82 0.10 0.08
Matches are distributed among these distances:
38 7 0.02
39 61 0.15
40 98 0.24
41 84 0.21
42 51 0.13
43 101 0.25
44 1 0.00
45 2 0.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (42 bp):
GCGTTTGTATAAAAAACGCCACTAAAGTACGAGTCTATAGCG
Found at i:21421 original size:43 final size:41
Alignment explanation
Indices: 21280--21794 Score: 605
Period size: 40 Copynumber: 12.6 Consensus size: 41
21270 ACAACTTGCA
21280 GCGTTTGT-AAAAAACGCCACTAAAG-ACGAGTCTATAGCG
1 GCGTTTGTAAAAAAACGCCACTAAAGTACGAGTCTATAGCG
*
21319 GCGCTTGT-AAAAAACGCCACTAAAG-ACGAGTCTATA-CG
1 GCGTTTGTAAAAAAACGCCACTAAAGTACGAGTCTATAGCG
* * * * * *
21357 GCATTTGTATAAAAACGCCACTAAAGTGCAAGCCTATTGCG
1 GCGTTTGTAAAAAAACGCCACTAAAGTACGAGTCTATAGCG
*
21398 GCGTTTGTAAACACAAACGCCACTAAAGTACGAGTCTATAGAG
1 GCGTTTGTAAA-A-AAACGCCACTAAAGTACGAGTCTATAGCG
* *
21441 GCGTTTGTATAAAAAAAAGCCACTAATGTACGAGTCTATAGCG
1 GCGTTTG--TAAAAAAACGCCACTAAAGTACGAGTCTATAGCG
* * * *
21484 GCGTTTGT-ACAAAACGCCACTAAAGTACAAGCCTATTGCG
1 GCGTTTGTAAAAAAACGCCACTAAAGTACGAGTCTATAGCG
*
21524 GCGTTTATAAACACAAACGCCACTAAAGTACGAGTCTATAGCG
1 GCGTTTGTAAA-A-AAACGCCACTAAAGTACGAGTCTATAGCG
* *
21567 GCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGCG
1 GCGTTTGTAAAAAAACGCCACTAAAGTACGAGTCTATAGCG
* * * *
21608 GCGTTTAT-ATAAAACGCCACTAAAGTAGGCGTCTATAGCG
1 GCGTTTGTAAAAAAACGCCACTAAAGTACGAGTCTATAGCG
* * * * * *
21648 GCGTTTGT-ATAAAACACCGCAAAAGTACTACTCTATAGCG
1 GCGTTTGTAAAAAAACGCCACTAAAGTACGAGTCTATAGCG
*
21688 GCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATAGCG
1 GCGTTTGTAAAAAAACGCCACTAAAGTACGAGTCTATAGCG
* * * *
21729 CCATTTTGTATAAAAATGCCACTAAAGTACGAGTCTATAGCG
1 GC-GTTTGTAAAAAAACGCCACTAAAGTACGAGTCTATAGCG
* *
21771 GCGTTTGTATAAAAACGCCGCTAA
1 GCGTTTGTAAAAAAACGCCACTAA
21795 CGTTACCATT
Statistics
Matches: 404, Mismatches: 60, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
38 8 0.02
39 51 0.13
40 107 0.26
41 93 0.23
42 41 0.10
43 99 0.25
44 1 0.00
45 4 0.01
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (41 bp):
GCGTTTGTAAAAAAACGCCACTAAAGTACGAGTCTATAGCG
Found at i:21498 original size:126 final size:125
Alignment explanation
Indices: 21275--21779 Score: 649
Period size: 126 Copynumber: 4.1 Consensus size: 125
21265 AAGAGACAAC
* *
21275 TTGCAGCGTTTGT-AA-A-AAACGCCACTAAAG-ACGAGTCTATAGCGGCGCTTGTA-AAAAACG
1 TTGCGGCGTTTGTAAACACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACG
* *
21335 CCACTAAAG-ACGAGTCTATA-CGGCATTTGTATAAAAACGCCACTAAAGTGCAAGCCTA
66 CCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGCCTA
*
21393 TTGCGGCGTTTGTAAACACAAACGCCACTAAAGTACGAGTCTATAGAGGCGTTTGTATAAAAAAA
1 TTGCGGCGTTTGTAAACACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTAT--AAAAA
* * *
21458 AGCCACTAATGTACGAGTCTATAGCGGCGTTTGTA-CAAAACGCCACTAAAGTACAAGCCTA
64 CGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGCCTA
*
21519 TTGCGGCGTTTATAAACACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACG
1 TTGCGGCGTTTGTAAACACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACG
* * *** *
21584 CCACTAAAGTACAAGTCTATAGCGGCGTTTATAT-AAAACGCCACTAAAGTAGGCGTCTA
66 CCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGCCTA
* * * * *
21643 TAGCGGCGTTTGTATAAAAC-ACCG-CA--AAAGTACTACTCTATAGCGGCGTTTGTATAAAAAC
1 TTGCGGCGTTTGTA-AACACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAAC
* * * * *
21704 GCCACTAAAGTACGAGTCTATAGCGCCATTTTGTATAAAAATGCCACTAAAGTACGAGTCTA
65 GCCACTAAAGTACGAGTCTATAGCGGC-GTTTGTATAAAAACGCCACTAAAGTACAAGCCTA
*
21766 TAGCGGCGTTTGTA
1 TTGCGGCGTTTGTA
21780 TAAAAACGCC
Statistics
Matches: 343, Mismatches: 31, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
118 12 0.03
119 2 0.01
120 1 0.00
121 72 0.21
122 27 0.08
123 38 0.11
124 72 0.21
125 18 0.05
126 91 0.27
127 10 0.03
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (125 bp):
TTGCGGCGTTTGTAAACACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACG
CCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGCCTA
Found at i:21508 original size:83 final size:82
Alignment explanation
Indices: 21280--21794 Score: 620
Period size: 83 Copynumber: 6.3 Consensus size: 82
21270 ACAACTTGCA
*
21280 GCGTTTG--TAAAAAACGCCACTAAAG-ACGAGTCTATAGCGGCGCTTGTAAAAAACGCCACTAA
1 GCGTTTGTATAAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTAAAAAACGCCACTAA
21342 AG-ACGAGTCTATA-CG
66 AGTACGAGTCTATAGCG
* * * * *
21357 GCATTTGTAT-AAAAACGCCACTAAAGTGCAAGCCTATTGCGGCGTTTGTAAACACAAACGCCAC
1 GCGTTTGTATAAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGT-AA-A-AAACGCCAC
*
21421 TAAAGTACGAGTCTATAGAG
63 TAAAGTACGAGTCTATAGCG
* * *
21441 GCGTTTGTATAAAAAAAAGCCACTAATGTACGAGTCTATAGCGGCGTTTGTACAAAACGCCACTA
1 GCGTTTGTAT-AAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTAAAAAACGCCACTA
* * *
21506 AAGTACAAGCCTATTGCG
65 AAGTACGAGTCTATAGCG
*
21524 GCGTTTATA-AACACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCAC
1 GCGTTTGTATAA-A-AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTA-AAAAACGCCAC
*
21588 TAAAGTACAAGTCTATAGCG
63 TAAAGTACGAGTCTATAGCG
* * * * * * *
21608 GCG-TT-TATATAAAACGCCACTAAAGTAGGCGTCTATAGCGGCGTTTGTATAAAACACCGCAAA
1 GCGTTTGTATAAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTAAAAAACGCCACTAA
* *
21671 AGTACTACTCTATAGCG
66 AGTACGAGTCTATAGCG
* * *
21688 GCGTTTGTAT-AAAAACGCCACTAAAGTACGAGTCTATAGCGCCATTTTGTATAAAAATGCCACT
1 GCGTTTGTATAAAAAACGCCACTAAAGTACGAGTCTATAGCGGC-GTTTGTA-AAAAACGCCACT
21752 AAAGTACGAGTCTATAGCG
64 AAAGTACGAGTCTATAGCG
*
21771 GCGTTTGTAT-AAAAACGCCGCTAA
1 GCGTTTGTATAAAAAACGCCACTAA
21795 CGTTACCATT
Statistics
Matches: 373, Mismatches: 47, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
77 6 0.02
78 16 0.04
79 18 0.05
80 30 0.08
81 70 0.19
82 27 0.07
83 130 0.35
84 42 0.11
85 1 0.00
86 33 0.09
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (82 bp):
GCGTTTGTATAAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTAAAAAACGCCACTAA
AGTACGAGTCTATAGCG
Found at i:21829 original size:204 final size:202
Alignment explanation
Indices: 21280--21829 Score: 639
Period size: 204 Copynumber: 2.7 Consensus size: 202
21270 ACAACTTGCA
*
21280 GCGTTTGTAAAAAACGCCACTAAAG-ACGAGTCTATAGCGGCGCTTGTAAAAAACGCCACTAAAG
1 GCGTTTGTAAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTAAAAAACGCCACTAAAG
* * *
21344 -ACGAGTCTATA-CGGCATTTGTATAAAAACGCCACTAAAGTGCAAGCC-TATTGCGGCGTTTGT
66 TACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGT--TA-CCATTTTGCGGCGTTTG-
* * *
21406 AAACACAAACGCCACTAAAGTACGAGTCTATAGAGGCGTTTGTATAAAAAAAAGCCACTAATGTA
127 AAATA-AAACGCCACTAAAGTACGAGTCTATAGAGGCGTTTGTAT-AAAAAAAGCCACAAAAGTA
*
21471 CGAGTCTATAGCG
190 CGACTCTATAGCG
* * * * *
21484 GCGTTTGTACAAAACGCCACTAAAGTACAAGCCTATTGCGGCGTTTATAAACACAAACGCCACTA
1 GCGTTTGTAAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGT-AA-A-AAACGCCACTA
* *
21549 AAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAG-TACAAGTCTATAGCGGCGTT
63 AAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTTACCA-T-T-TTGCGGCGTT
* * * * * *
21613 T-ATATAAAACGCCACTAAAGTAGGCGTCTATAGCGGCGTTTGTAT-AAAACA-CCGCAAAAGTA
125 TGAAATAAAACGCCACTAAAGTACGAGTCTATAGAGGCGTTTGTATAAAAAAAGCCACAAAAGTA
*
21675 CTACTCTATAGCG
190 CGACTCTATAGCG
* * *
21688 GCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATAGCGCCATTTTGTATAAAAATGCCACTA
1 GCGTTTGTA-AAAAACGCCACTAAAGTACGAGTCTATAGCGGC-GTTTGTA-AAAAACGCCACTA
* * *
21753 AAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCGCTAACGTTACCATTTTGTGGCGTTTGA
63 AAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTTACCATTTTGCGGCGTTTGA
*
21818 AATGTAAACGCC
128 AAT-AAAACGCC
21830 GCTATATGTT
Statistics
Matches: 293, Mismatches: 37, Indels: 32
0.81 0.10 0.09
Matches are distributed among these distances:
202 9 0.03
203 4 0.01
204 112 0.38
205 56 0.19
206 8 0.03
207 38 0.13
208 18 0.06
209 11 0.04
210 37 0.13
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (202 bp):
GCGTTTGTAAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTAAAAAACGCCACTAAAG
TACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTTACCATTTTGCGGCGTTTGAAAT
AAAACGCCACTAAAGTACGAGTCTATAGAGGCGTTTGTATAAAAAAAGCCACAAAAGTACGACTC
TATAGCG
Found at i:33569 original size:6 final size:6
Alignment explanation
Indices: 33560--33591 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
33550 GAAGAAGAAG
33560 AGAAAA AGAAAAA AGAAAA AGAAAA AGAAAA A
1 AGAAAA AG-AAAA AGAAAA AGAAAA AGAAAA A
33592 AAATAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:33574 original size:7 final size:7
Alignment explanation
Indices: 33557--33606 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 7
33547 CTTGAAGAAG
33557 AAGAGAAA
1 AAGA-AAA
33565 AAGAAAA
1 AAGAAAA
33572 AAG-AAA
1 AAGAAAA
33578 AAG-AAA
1 AAGAAAA
33584 AAGAAAA
1 AAGAAAA
*
33591 AAAATAAA
1 AAGA-AAA
33599 AAGGAAAA
1 AA-GAAAA
33607 TAAATAAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
6 12 0.32
7 12 0.32
8 12 0.32
9 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (7 bp):
AAGAAAA
Found at i:33581 original size:21 final size:22
Alignment explanation
Indices: 33551--33606 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
33541 ATTACACTTG
* *
33551 AAGAAGAAGAGAAAA-AGAAAA
1 AAGAAAAAGAGAAAAGAAAAAA
33572 AAGAAAAAGA-AAAAGAAAAAA
1 AAGAAAAAGAGAAAAGAAAAAA
*
33593 AATAAAAAG-GAAAA
1 AAGAAAAAGAGAAAA
33607 TAAATAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (22 bp):
AAGAAAAAGAGAAAAGAAAAAA
Found at i:33592 original size:27 final size:27
Alignment explanation
Indices: 33551--33606 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
33541 ATTACACTTG
* *
33551 AAGAAGAAGAGAAAAAGA-AAAAAGAAA
1 AAGAAAAAGA-AAAAAAATAAAAAGAAA
*
33578 AAGAAAAAGAAAAAAAATAAAAAGGAA
1 AAGAAAAAGAAAAAAAATAAAAAGAAA
33605 AA
1 AA
33607 TAAATAAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (27 bp):
AAGAAAAAGAAAAAAAATAAAAAGAAA
Found at i:34903 original size:135 final size:133
Alignment explanation
Indices: 34675--35072 Score: 420
Period size: 135 Copynumber: 3.0 Consensus size: 133
34665 GATAACTAGC
* *
34675 CGTCCTCATTACGTAGGAACCGT-GTTATCA-C--CTT-TAGATGGCCAA-AACTCTTCATCACG
1 CGTCCTCATTGCGTAGGAACC-TAGTTATCATCTTCTTAAAGATGGCCAAGAACTCTTCATCACG
* ** * * *
34734 TATGAGTCGTGTCATCAC-CTGACCT-GATCACCTCATCACGTAGGAGTTGTGTCAACCTTTGAT
65 TATGAGTAGTGTCATCACTC-GA-CTAGATTTCCTCATTATGTAGGAGTTATGTCAACCTTTGAT
*
34797 AATCAA
128 AACCAA
34803 TCGTCCTCATTGCGTAGGAACCTAGTTATCATCATTCTTAAAGATGGCCAAGAACTCTTCATCAC
1 -CGTCCTCATTGCGTAGGAACCTAGTTATCATC-TTCTTAAAGATGGCCAAGAACTCTTCATCAC
* * *
34868 GTGTGAGTAGTGTCATCACTCGACTAAATTTCCTCATTATGTAGGAGTTATGTCAATCTTTGATA
64 GTATGAGTAGTGTCATCACTCGACTAGATTTCCTCATTATGTAGGAGTTATGTCAACCTTTGATA
34933 ACCAA
129 ACCAA
* * * * * *
34938 CAGTCTTCATGGGGTAGGAACCAAGTTATCATCTTTCCTAAAGATGGCCAAGAAATCTTCATCAC
1 C-GTCCTCATTGCGTAGGAACCTAGTTATCATC-TTCTTAAAGATGGCCAAGAACTCTTCATCAC
* * * * * *
35003 GTATGAGCAATGTCATCCCTTGACTAGATCTT-CTCATTATGTAGGAGTCT-TGTCACCCTTAGA
64 GTATGAGTAGTGTCATCACTCGACTAGAT-TTCCTCATTATGTAGGAGT-TATGTCAACCTTTGA
*
35066 TGACCAA
127 TAACCAA
35073 AACTCTTCAA
Statistics
Matches: 228, Mismatches: 29, Indels: 18
0.83 0.11 0.07
Matches are distributed among these distances:
128 1 0.00
129 27 0.12
130 1 0.00
133 3 0.01
134 13 0.06
135 179 0.79
136 4 0.02
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (133 bp):
CGTCCTCATTGCGTAGGAACCTAGTTATCATCTTCTTAAAGATGGCCAAGAACTCTTCATCACGT
ATGAGTAGTGTCATCACTCGACTAGATTTCCTCATTATGTAGGAGTTATGTCAACCTTTGATAAC
CAA
Found at i:38432 original size:42 final size:41
Alignment explanation
Indices: 38362--38543 Score: 151
Period size: 42 Copynumber: 4.4 Consensus size: 41
38352 TTTGTTGTAA
* * *
38362 AAACGCTGCAATAGA-GTTGACATATAGCGGCGTTTTTACAAC
1 AAACGCTGCAATAGATGGT-AAAT-TAGCGGCGTTTTTACCAC
* * *
38404 AAACGCTACAATAGAGTGGTAAATTAGCGACGTTTATACCAC
1 AAACGCTGCAATAGA-TGGTAAATTAGCGGCGTTTTTACCAC
*
38446 AAACG-TCGCAATAGAT--TAACATATAGTGGCG-TTTTAGCCA-
1 AAACGCT-GCAATAGATGGTAA-AT-TAGCGGCGTTTTTA-CCAC
* * *
38486 AAACGCCGCAATAGATCGGTAAATTAGCGGCATTTATACCAC
1 AAACGCTGCAATAGAT-GGTAAATTAGCGGCGTTTTTACCAC
*
38528 AAACGCCGCAATAGAT
1 AAACGCTGCAATAGAT
38544 TACACATATA
Statistics
Matches: 114, Mismatches: 14, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
39 3 0.03
40 20 0.18
41 20 0.18
42 63 0.55
43 6 0.05
44 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (41 bp):
AAACGCTGCAATAGATGGTAAATTAGCGGCGTTTTTACCAC
Found at i:38508 original size:82 final size:83
Alignment explanation
Indices: 38362--38558 Score: 256
Period size: 82 Copynumber: 2.4 Consensus size: 83
38352 TTTGTTGTAA
* * * *
38362 AAACGCTGCAATAGAGTTGACATATAGCGGCGTTTTTACAACAAACGCTACAATAGAGTGGTAAA
1 AAACGCCGCAATAGA-TTAACATATAGTGGCGTTTTTACAACAAACGCCACAATAGAGTGGTAAA
*
38427 TTAGCGACGTTTATACCAC
65 TTAGCGACATTTATACCAC
* * *
38446 AAACGTCGCAATAGATTAACATATAGTGGCG-TTTTAGCCA-AAACGCCGCAATAGA-TCGGTAA
1 AAACGCCGCAATAGATTAACATATAGTGGCGTTTTTA-CAACAAACGCCACAATAGAGT-GGTAA
*
38508 ATTAGCGGCATTTATACCAC
64 ATTAGCGACATTTATACCAC
38528 AAACGCCGCAATAGATTACACATATAGTGGC
1 AAACGCCGCAATAGATTA-ACATATAGTGGC
38559 ATTTATTCTT
Statistics
Matches: 100, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
81 1 0.01
82 58 0.58
83 28 0.28
84 13 0.13
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (83 bp):
AAACGCCGCAATAGATTAACATATAGTGGCGTTTTTACAACAAACGCCACAATAGAGTGGTAAAT
TAGCGACATTTATACCAC
Found at i:38560 original size:42 final size:40
Alignment explanation
Indices: 38436--38583 Score: 158
Period size: 42 Copynumber: 3.6 Consensus size: 40
38426 ATTAGCGACG
* *
38436 TTTATACCACAAACGTCGCAATAGATTAACATATAGTGGCG
1 TTTATACCA-AAACGCCGCAATAGATTAACATATAGTGGCA
*
38477 TTT-TAGCCAAAACGCCGCAATAGATCGGTAA-AT-TAGCGGCA
1 TTTATA-CCAAAACGCCGCAATAGAT---TAACATATAGTGGCA
38518 TTTATACCACAAACGCCGCAATAGATTACACATATAGTGGCA
1 TTTATACCA-AAACGCCGCAATAGATTA-ACATATAGTGGCA
* *
38560 TTTATTCTTAAAACGCCGCAATAG
1 TTTATAC-CAAAACGCCGCAATAG
38584 TTATAATAAA
Statistics
Matches: 91, Mismatches: 6, Indels: 19
0.78 0.05 0.16
Matches are distributed among these distances:
39 2 0.02
40 18 0.20
41 20 0.22
42 47 0.52
43 4 0.04
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.26
Consensus pattern (40 bp):
TTTATACCAAAACGCCGCAATAGATTAACATATAGTGGCA
Found at i:38647 original size:41 final size:40
Alignment explanation
Indices: 38526--38649 Score: 128
Period size: 42 Copynumber: 3.0 Consensus size: 40
38516 CATTTATACC
38526 ACAAACGCCGCAATAGATTACA-CATATAGTGGCATTTATTCTT
1 ACAAACGCCGCAATAGATTA-ATCA-ATAGTGGCATTT-TT-TT
* * *
38569 A-AAACGCCGCAATAGTTATAATAAATAGTGGCGTTTTTTT
1 ACAAACGCCGCAATAGAT-TAATCAATAGTGGCATTTTTTT
*
38609 AACAAACGCCACAATA-ATGTAATCAATAGTGGCATTTTTTT
1 -ACAAACGCCGCAATAGAT-TAATCAATAGTGGCATTTTTTT
38650 GTATAAACGC
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
40 2 0.03
41 24 0.35
42 39 0.57
43 4 0.06
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (40 bp):
ACAAACGCCGCAATAGATTAATCAATAGTGGCATTTTTTT
Found at i:38669 original size:41 final size:41
Alignment explanation
Indices: 38551--38649 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 41
38541 GATTACACAT
* * *
38551 ATAGTGGCATTTATTCTT-A-AAACGCCGCAATAGTTATAATAA
1 ATAGTGGCATTT-TT-TTAACAAACGCCACAATA-ATGTAATAA
* *
38593 ATAGTGGCGTTTTTTTAACAAACGCCACAATAATGTAATCA
1 ATAGTGGCATTTTTTTAACAAACGCCACAATAATGTAATAA
38634 ATAGTGGCATTTTTTT
1 ATAGTGGCATTTTTTT
38650 GTATAAACGC
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
40 2 0.04
41 24 0.49
42 23 0.47
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.36
Consensus pattern (41 bp):
ATAGTGGCATTTTTTTAACAAACGCCACAATAATGTAATAA
Found at i:38681 original size:84 final size:84
Alignment explanation
Indices: 38526--38681 Score: 187
Period size: 84 Copynumber: 1.9 Consensus size: 84
38516 CATTTATACC
* *
38526 ACAAACGCCGCAATAGATTACACATATAGTGGCATTTATTCTTAAAACGCCGCAATAGTTATAAT
1 ACAAACGCCACAATAGATTACACATATAGTGGCATTTATTCTTAAAACGCCGCAAAAGTTATAAT
38591 AAATAGTGGCGTTTTTTTA
66 AAATAGTGGCGTTTTTTTA
* *
38610 ACAAACGCCACAATA-ATGTA-ATCA-ATAGTGGCATTT-TTTTGTATAAACGCCGTAAAATGTT
1 ACAAACGCCACAATAGAT-TACA-CATATAGTGGCATTTATTCT-TA-AAACGCCGCAAAA-GTT
*
38671 A-AATATATAGT
61 ATAATAAATAGT
38682 CCTCCTTTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
82 3 0.05
83 17 0.27
84 38 0.61
85 4 0.06
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (84 bp):
ACAAACGCCACAATAGATTACACATATAGTGGCATTTATTCTTAAAACGCCGCAAAAGTTATAAT
AAATAGTGGCGTTTTTTTA
Found at i:39605 original size:20 final size:20
Alignment explanation
Indices: 39580--39620 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
39570 AAAGCGCACA
*
39580 TGTAGTAAAGCCGGTTTGTT
1 TGTAGTAAAGACGGTTTGTT
39600 TGTAGTAAAGACGGTTTGTT
1 TGTAGTAAAGACGGTTTGTT
39620 T
1 T
39621 CCATTAAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.07, G:0.29, T:0.41
Consensus pattern (20 bp):
TGTAGTAAAGACGGTTTGTT
Found at i:41146 original size:21 final size:21
Alignment explanation
Indices: 41120--41188 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
41110 CAGCCAGAGC
* *
41120 AGCAGCGGAAGTAGAGAAAGA
1 AGCAGCGGAAGCACAGAAAGA
* *
41141 AGCAGCGGCAGCACAGAGAGA
1 AGCAGCGGAAGCACAGAAAGA
* *
41162 AGCAGC-GACATCACAGAGAGA
1 AGCAGCGGA-AGCACAGAAAGA
41183 AGCAGC
1 AGCAGC
41189 ATATCAGAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 1 0.02
21 40 0.98
ACGTcount: A:0.42, C:0.20, G:0.35, T:0.03
Consensus pattern (21 bp):
AGCAGCGGAAGCACAGAAAGA
Found at i:41200 original size:21 final size:21
Alignment explanation
Indices: 41138--41201 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
41128 AAGTAGAGAA
* * *
41138 AGAAGCAGCGGCAGCACAGAG
1 AGAAGCAGCGACATCAAAGAG
*
41159 AGAAGCAGCGACATCACAGAG
1 AGAAGCAGCGACATCAAAGAG
*
41180 AGAAGCAGC-ATATCAGAAGAG
1 AGAAGCAGCGACATCA-AAGAG
41201 A
1 A
41202 TGTGAAGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.13
21 33 0.87
ACGTcount: A:0.44, C:0.20, G:0.31, T:0.05
Consensus pattern (21 bp):
AGAAGCAGCGACATCAAAGAG
Found at i:41632 original size:43 final size:42
Alignment explanation
Indices: 41585--41936 Score: 334
Period size: 43 Copynumber: 8.2 Consensus size: 42
41575 AGACCTGTAC
* * * * * *
41585 CGGCGTTTTTAGCAGAAACACCGCAAAACATCAATACCTACTG
1 CGGCGTTTTTAG-AAAAACGCCGCTAAATATCAACACCTATTG
* * * * * *
41628 CGGCGTTTGTGAAAAAAATGTCGC-AAGACATCAACACCTACTG
1 CGGCGTTT-TTAGAAAAACGCCGCTAA-ATATCAACACCTATTG
* *
41671 CGGTG-TTTTAGCGAAAAACGCCGCTAAACATCATA-ACCTATTG
1 CGGCGTTTTTA--GAAAAACGCCGCTAAATATCA-ACACCTATTG
* * * *
41714 CGGCGTTTGTTTGAAAAACACTGCTAAATATTAACACCTATTG
1 CGGCGTTT-TTAGAAAAACGCCGCTAAATATCAACACCTATTG
* *
41757 CGACGTTTTTATGACAAACGCCGCTAAATATCAACACCTATTG
1 CGGCGTTTTTA-GAAAAACGCCGCTAAATATCAACACCTATTG
* *
41800 CAGCGTTTGTCT-GAAAAACGCTGCTAAATATCAACACCTATTG
1 CGGCGTTT-T-TAGAAAAACGCCGCTAAATATCAACACCTATTG
* * *
41843 CGGCGTTTTTATAACAAATGCCGCTAAATATCAATACCTATTG
1 CGGCGTTTTTAGAA-AAACGCCGCTAAATATCAACACCTATTG
*
41886 CGGCGTTTTTATGACAAACGCCGCTAAATATCAACACCTATTG
1 CGGCGTTTTTA-GAAAAACGCCGCTAAATATCAACACCTATTG
41929 CGGCGTTT
1 CGGCGTTT
41937 GTGTAATATC
Statistics
Matches: 256, Mismatches: 38, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.01
42 10 0.04
43 231 0.90
44 9 0.04
45 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (42 bp):
CGGCGTTTTTAGAAAAACGCCGCTAAATATCAACACCTATTG
Found at i:41937 original size:129 final size:129
Alignment explanation
Indices: 41657--41938 Score: 385
Period size: 129 Copynumber: 2.2 Consensus size: 129
41647 GTCGCAAGAC
* *
41657 ATCAACACCTACTGCGGTGTTT-TAGCGAAAAACGCCGCTAAACATCATAACCTATTGCGGCGTT
1 ATCAACACCTATTGCGGCGTTTGTA-CGAAAAACGCCGCTAAACATCATAACCTATTGCGGCGTT
* *
41721 TGTTTGAAAAACACTGCTAAATATTAACACCTATTGCGACGTTTTTATGACAAACGCCGCTAAAT
65 TGTTTGAAAAACACCGCTAAATATCAACACCTATTGCGACGTTTTTATGACAAACGCCGCTAAAT
* * *
41786 ATCAACACCTATTGCAGCGTTTGT-CTGAAAAACGCTGCTAAATATCA-ACACCTATTGCGGCGT
1 ATCAACACCTATTGCGGCGTTTGTAC-GAAAAACGCCGCTAAACATCATA-ACCTATTGCGGCGT
** * *
41849 TT-TTAT-AACAAATGCCGCTAAATATCAATACCTATTGCGGCGTTTTTATGACAAACGCCGCTA
64 TTGTT-TGAA-AAACACCGCTAAATATCAACACCTATTGCGACGTTTTTATGACAAACGCCGCTA
41912 AAT
127 AAT
41915 ATCAACACCTATTGCGGCGTTTGT
1 ATCAACACCTATTGCGGCGTTTGT
41939 GTAATATCAA
Statistics
Matches: 136, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
128 6 0.04
129 129 0.95
130 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.29
Consensus pattern (129 bp):
ATCAACACCTATTGCGGCGTTTGTACGAAAAACGCCGCTAAACATCATAACCTATTGCGGCGTTT
GTTTGAAAAACACCGCTAAATATCAACACCTATTGCGACGTTTTTATGACAAACGCCGCTAAAT
Found at i:48689 original size:20 final size:20
Alignment explanation
Indices: 48664--48706 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
48654 TCTAAAAGCT
*
48664 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
48684 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
48704 CAT
1 CAT
48707 GTGGTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:51355 original size:30 final size:31
Alignment explanation
Indices: 51298--51355 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
51288 GTGATACGTG
* * *
51298 ATATGTGAAAGTGAATTACATGTTAATGTGA
1 ATATGTGAAAGTGAAATAAATGATAATGTGA
*
51329 ATATTTGAAA-TGAAATAAATGATAATG
1 ATATGTGAAAGTGAAATAAATGATAATG
51356 CCCATGTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 14 0.61
31 9 0.39
ACGTcount: A:0.45, C:0.02, G:0.19, T:0.34
Consensus pattern (31 bp):
ATATGTGAAAGTGAAATAAATGATAATGTGA
Found at i:51837 original size:151 final size:149
Alignment explanation
Indices: 51412--51865 Score: 784
Period size: 151 Copynumber: 3.0 Consensus size: 149
51402 GAGTCGAGGG
* * * * * * *
51412 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATTTATGAGGTCTT-TGAGGCACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTATGAAGTCTTGTAAGACACAT
*
51476 ACTTGGTCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
51541 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
51560 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTATGAAGTCTTGTAAGACACAT
51625 ACTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
51690 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
51709 TCTACGCGGTCCTTCGGGATGTATATATATATTCTGTGGAACATGTATGAAGTCTTGTAAGACAC
1 TCTACGCGGTCCTTCGGGA--TATATATATATTCTGTGGAACATGTATGAAGTCTTGTAAGACAC
51774 ATACTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTAT
64 ATACTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTAT
* *
51839 TATATGGCAATACGGTGTAAT
129 TATATGGCACTACGGTGCAAT
51860 TCTACG
1 TCTACG
51866 TGCACTTCGG
Statistics
Matches: 291, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
148 48 0.16
149 110 0.38
151 133 0.46
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.37
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTATGAAGTCTTGTAAGACACAT
ACTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:52090 original size:21 final size:22
Alignment explanation
Indices: 52065--52128 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 22
52055 CAAGATCATG
52065 TGATAAATAAT-T-TGATGATAA
1 TGATAAATAATATAT-ATGATAA
52086 TGAT-AATAATATATATGATAA
1 TGATAAATAATATATATGATAA
* * *
52107 TGCTAAAAAATAGATGATGATA
1 TGATAAATAATATAT-ATGATA
52129 TATGTACATG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.17
21 15 0.42
22 9 0.25
23 6 0.17
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.34
Consensus pattern (22 bp):
TGATAAATAATATATATGATAA
Found at i:56045 original size:149 final size:149
Alignment explanation
Indices: 55776--56227 Score: 798
Period size: 149 Copynumber: 3.0 Consensus size: 149
55766 GAGTCGAGGG
* * * * * * * *
55776 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATTTATGAGGTCTT-TGAGGCACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
*
55840 ACTTGGTCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
*
55905 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGTAAT
55924 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
55989 ACTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
56054 TATGGCACTACGGTGTAAT
131 TATGGCACTACGGTGTAAT
56073 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
*
56138 ACTTGATCCTTAGTATATGTATATAATTTTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
56203 TATGGCACTACGGTGTAAT
131 TATGGCACTACGGTGTAAT
56222 TCTACG
1 TCTACG
56228 TGCACTTCGG
Statistics
Matches: 292, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
148 48 0.16
149 244 0.84
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
ACTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGTAAT
Found at i:59537 original size:30 final size:31
Alignment explanation
Indices: 59480--59537 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
59470 GTGATACGTG
* * *
59480 ATATGTGAAAGTGAATTACATGTTAATGTGA
1 ATATGTGAAAGTGAAATAAATGATAATGTGA
*
59511 ATATTTGAAA-TGAAATAAATGATAATG
1 ATATGTGAAAGTGAAATAAATGATAATG
59538 CCCATGTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 14 0.61
31 9 0.39
ACGTcount: A:0.45, C:0.02, G:0.19, T:0.34
Consensus pattern (31 bp):
ATATGTGAAAGTGAAATAAATGATAATGTGA
Found at i:59863 original size:146 final size:148
Alignment explanation
Indices: 59594--60042 Score: 735
Period size: 146 Copynumber: 3.0 Consensus size: 148
59584 GAGTCGAGGG
* * * * * * *
59594 TCTACGCGGTCCTTCGGGACATATGTATATTCTT-TGGAACATTTATGAGGTCTT-TGAGGCACA
1 TCTACGCGGTCCTTCGGGATATATATATATT-TTGTGGAACATGTGTGAAGTCTTGTAAGACACA
* * *
59657 TACTTGGTCCTTAGTATATGTATATAATTCTTAAAGAATGATATGTGGTCCGTATGGACATTATT
65 TACTTGATCCTTAGTATATG-ATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATT
59722 ATATGGCACTACGGTGCAAT
129 ATATGGCACTACGGTGCAAT
59742 TCTACGCGGTCCTTCGGGATATATATATATTTTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTTTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
59807 ACTTGATCCTTAGTATATG-TAT-ATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
66 ACTTGATCCTTAGTATATGATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
59870 ATGGCACTACGGTGCAAT
131 ATGGCACTACGGTGCAAT
*
59888 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTTTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
59953 ACTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCTTAGTATATG-ATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
*
60018 TATGGCACTACGGTGTAAT
130 TATGGCACTACGGTGCAAT
60037 TCTACG
1 TCTACG
60043 TGCACTTCGG
Statistics
Matches: 284, Mismatches: 12, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
146 140 0.49
147 5 0.02
148 49 0.17
149 90 0.32
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGGATATATATATATTTTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
ACTTGATCCTTAGTATATGATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
ATGGCACTACGGTGCAAT
Found at i:60301 original size:21 final size:21
Alignment explanation
Indices: 60255--60302 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
60245 TAAATAATTT
* *
60255 GATGATAATGATAATAATATA
1 GATGATAATGATAAGAAAATA
* *
60276 TATGATAATGCTAAGAAAATA
1 GATGATAATGATAAGAAAATA
60297 GATGAT
1 GATGAT
60303 GATATATGTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.17, T:0.31
Consensus pattern (21 bp):
GATGATAATGATAAGAAAATA
Found at i:82891 original size:22 final size:22
Alignment explanation
Indices: 82866--82908 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
82856 ACGAGCGAGA
*
82866 TAACAGCTAGAAGCAGAAACAG
1 TAACAGCTAAAAGCAGAAACAG
* *
82888 TAACAGTTAAAAGCAGTAACA
1 TAACAGCTAAAAGCAGAAACA
82909 ATTAGGATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.16, G:0.19, T:0.14
Consensus pattern (22 bp):
TAACAGCTAAAAGCAGAAACAG
Found at i:84565 original size:12 final size:13
Alignment explanation
Indices: 84548--84576 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
84538 AATTTAGATT
84548 TTTTTAAAT-ATA
1 TTTTTAAATAATA
84560 TTTTTAAATAATA
1 TTTTTAAATAATA
84573 TTTT
1 TTTT
84577 GTTTTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTTAAATAATA
Found at i:86592 original size:2 final size:2
Alignment explanation
Indices: 86587--86612 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
86577 AGGTTTACAG
86587 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
86613 GTGAGGTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:129584 original size:20 final size:20
Alignment explanation
Indices: 129561--129612 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
129551 AACGCGATCC
129561 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
129581 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
129601 CCAAAATCGCAA
1 CCAGAATCGCAA
129613 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:129629 original size:21 final size:20
Alignment explanation
Indices: 129602--129700 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
129592 AATCAGTTTC
129602 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
129623 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
129644 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
129664 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
129685 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
129701 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:129729 original size:20 final size:20
Alignment explanation
Indices: 129667--129860 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
129657 CGATTTTCCA
* ** *
129667 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
129687 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
129707 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
129727 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
129747 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
129767 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
129787 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
129807 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
129827 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
129848 AAATCGCAACGCG
1 AAATCGCAACGCG
129861 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:129751 original size:60 final size:60
Alignment explanation
Indices: 129667--129860 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
129657 CGATTTTCCA
* ** * *
129667 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
129727 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
129787 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
129848 AAATCGCAACGCG
1 AAATCGCAACGCG
129861 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:130031 original size:21 final size:21
Alignment explanation
Indices: 130005--130057 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
129995 CTCTCTACGG
130005 CGAAGAAAT-CGTCCCCATCTC
1 CGAAGAAATCCGT-CCCATCTC
**
130026 CGAAGATTTCCGTCCCATCTC
1 CGAAGAAATCCGTCCCATCTC
**
130047 CGGCGAAATCC
1 CGAAGAAATCC
130058 CTCACAACCA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.25, C:0.38, G:0.17, T:0.21
Consensus pattern (21 bp):
CGAAGAAATCCGTCCCATCTC
Found at i:130273 original size:33 final size:33
Alignment explanation
Indices: 130234--130341 Score: 171
Period size: 33 Copynumber: 3.3 Consensus size: 33
130224 TTCACTTAGA
* *
130234 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
*
130267 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
* *
130300 TGTCATCTCGCGTTGCGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
130333 TTTCATTTC
1 TTTCATTTC
130342 AACCAAAAGA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 67 1.00
ACGTcount: A:0.10, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
Found at i:130282 original size:19 final size:18
Alignment explanation
Indices: 130258--130339 Score: 54
Period size: 14 Copynumber: 4.9 Consensus size: 18
130248 ACGATTCTGT
130258 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCA-TTCG
* *
130277 CGTTGC--TATTC--TCT
1 CGTTGCGATTTTCATTCG
*
130291 CGTTGCGATTGTCATCTCG
1 CGTTGCGATTTTCAT-TCG
*
130310 CGTTGCGA--TTC--TCT
1 CGTTGCGATTTTCATTCG
130324 CGTTGCGATTTTCATT
1 CGTTGCGATTTTCATT
130340 TCAACCAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 19
0.64 0.10 0.26
Matches are distributed among these distances:
14 18 0.38
16 6 0.13
17 6 0.13
18 1 0.02
19 16 0.34
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (18 bp):
CGTTGCGATTTTCATTCG
Found at i:130296 original size:14 final size:14
Alignment explanation
Indices: 130277--130333 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
130267 TTTCATTTCG
*
130277 CGTTGCTATTCTCT
1 CGTTGCGATTCTCT
130291 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
130308 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
130324 CGTTGCGATT
1 CGTTGCGATT
130334 TTCATTTCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 17 0.46
15 1 0.03
16 5 0.14
17 5 0.14
18 1 0.03
19 8 0.22
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:132350 original size:184 final size:185
Alignment explanation
Indices: 132035--132411 Score: 729
Period size: 184 Copynumber: 2.0 Consensus size: 185
132025 TTGCTTAGTA
132035 AATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
1 AATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
132100 TCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGT
66 TCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGT
132165 ATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGT
131 ATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGT
*
132219 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
1 AATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
132284 TCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGT
66 TCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGT
132349 ATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGT
131 ATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGT
132404 AAATTTAT
1 -AATTTAT
132412 CCATTCAAGT
Statistics
Matches: 189, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 150 0.79
185 33 0.17
186 6 0.03
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.47
Consensus pattern (185 bp):
AATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
TCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGT
ATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGT
Found at i:132367 original size:93 final size:93
Alignment explanation
Indices: 132031--132409 Score: 735
Period size: 93 Copynumber: 4.1 Consensus size: 93
132021 TAGATTGCTT
*
132031 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
132096 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
132124 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
132188 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
132216 AGT-AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
132280 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
132308 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
132373 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
132401 AGTAAATTT
1 AGTAAATTT
132410 ATCCATTCAA
Statistics
Matches: 283, Mismatches: 1, Indels: 4
0.98 0.00 0.01
Matches are distributed among these distances:
91 58 0.20
92 66 0.23
93 159 0.56
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:132493 original size:19 final size:19
Alignment explanation
Indices: 132453--132581 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
132443 TAGTTTACTT
* *
132453 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
132473 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
132492 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
132511 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
132525 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
132544 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
132558 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
132577 TCGCA
1 TCGCA
132582 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:132532 original size:33 final size:32
Alignment explanation
Indices: 132489--132581 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
132479 CGCGAAACCA
**
132489 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
132521 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
132554 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
132582 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:132579 original size:52 final size:52
Alignment explanation
Indices: 132453--132581 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
132443 TAGTTTACTT
**
132453 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
132505 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
132558 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
132582 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:132599 original size:19 final size:19
Alignment explanation
Indices: 132577--132711 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
132567 GAAACCAAAA
*
132577 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
132596 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
132612 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
132629 TCGCGTTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
132645 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
132662 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
132681 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
132701 TCGTGTTGCGA
1 TCGCGTTGCGA
132712 AAGTAAACTA
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:132618 original size:14 final size:14
Alignment explanation
Indices: 132599--132655 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
132589 TTTCATTTCG
132599 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
132613 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
132630 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTTT
132646 CGTTGCGATT
1 CGTTGCGATT
132656 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.09, C:0.21, G:0.25, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:132624 original size:33 final size:33
Alignment explanation
Indices: 132582--132674 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
132572 CAAAATCGCA
*
132582 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
132615 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
132648 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
132675 TTGGTTTCGC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:134607 original size:37 final size:36
Alignment explanation
Indices: 134529--134620 Score: 105
Period size: 37 Copynumber: 2.5 Consensus size: 36
134519 TGATTGTTTT
* **
134529 TTGATTGTTTAATTGATTTGTAAAAGTTGATTCAATT
1 TTGATTGTTTAATTGATTTGTAAAAGTTGA-TAAAAG
134566 TTGATTGTTTAATTGATTTGTAAAAGATTTG-TAAAAG
1 TTGATTGTTTAATTGATTTGTAAAAG--TTGATAAAAG
*
134603 TTGATTTGTGTAATTGAT
1 TTGA-TTGTTTAATTGAT
134621 GCGAACATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
37 33 0.69
38 12 0.25
39 3 0.06
ACGTcount: A:0.30, C:0.01, G:0.18, T:0.50
Consensus pattern (36 bp):
TTGATTGTTTAATTGATTTGTAAAAGTTGATAAAAG
Found at i:134734 original size:19 final size:19
Alignment explanation
Indices: 134718--134819 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
134708 AAAAATGACT
134718 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
134737 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
134756 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
134770 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
134789 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
134809 ATCGCAATGCG
1 ATCGCAATGCG
134820 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:134872 original size:19 final size:19
Alignment explanation
Indices: 134848--135332 Score: 603
Period size: 19 Copynumber: 27.4 Consensus size: 19
134838 GATTATCTCG
134848 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
134867 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
134886 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
134900 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
134919 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
134938 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
134957 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
134976 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
134995 TTGCGA--TTC---TCGCG
1 TTGCGATTTTCATTTCGCA
135009 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
135028 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
135047 -TGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
135060 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
135079 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
135098 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
135117 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
135136 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
135154 TTGCGA--TTC---TCGCG
1 TTGCGATTTTCATTTCGCA
135168 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
135187 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
135206 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
135220 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
135239 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
135258 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
135272 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
135292 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
135306 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
135325 TTGCGATT
1 TTGCGATT
135333 GTATTTTCCG
Statistics
Matches: 409, Mismatches: 20, Indels: 74
0.81 0.04 0.15
Matches are distributed among these distances:
14 54 0.13
15 4 0.01
16 36 0.09
17 31 0.08
18 25 0.06
19 247 0.60
20 12 0.03
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:134888 original size:52 final size:52
Alignment explanation
Indices: 134826--135304 Score: 773
Period size: 52 Copynumber: 9.0 Consensus size: 52
134816 TGCGTTTATA
*
134826 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
134878 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
134930 ATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
*
134987 ATTTCGCATTGCGATTCTCGCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
135039 ATTTCGCA-TGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
135090 ATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGA-TTTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
*
135146 ATTTCGCATTGCGATTCTCGCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
135198 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
135250 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
135303 AT
1 AT
135305 GTTGGGATTT
Statistics
Matches: 401, Mismatches: 13, Indels: 25
0.91 0.03 0.06
Matches are distributed among these distances:
51 74 0.18
52 198 0.49
53 20 0.05
54 12 0.03
55 12 0.03
56 18 0.04
57 67 0.17
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:135104 original size:160 final size:161
Alignment explanation
Indices: 134826--135304 Score: 855
Period size: 160 Copynumber: 3.0 Consensus size: 161
134816 TGCGTTTATA
* *
134826 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTCGCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
*
134891 ATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGT
66 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGT
134956 ATTGCGATTTTAATTTCGCATTGCGATTTTC
131 ATTGCGATTTTAATTTCGCATTGCGATTTTC
134987 ATTTCGCATTGCGATTCTCGCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA-TGCG
1 ATTTCGCATTGCGATTCTCGCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
135051 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGT
66 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGT
135116 ATTGCGATTTTAATTTCGCATTGCGA-TTTC
131 ATTGCGATTTTAATTTCGCATTGCGATTTTC
135146 ATTTCGCATTGCGATTCTCGCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTCGCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
*
135211 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG-
66 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGT
*
135272 -TTGCGATTTTCATTTCCGCATTGCGATTTTC
131 ATTGCGATTTTAATTT-CGCATTGCGATTTTC
135303 AT
1 AT
135305 GTTGGGATTT
Statistics
Matches: 310, Mismatches: 5, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
155 14 0.05
156 10 0.03
157 10 0.03
158 3 0.01
159 64 0.21
160 151 0.49
161 58 0.19
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (161 bp):
ATTTCGCATTGCGATTCTCGCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGT
ATTGCGATTTTAATTTCGCATTGCGATTTTC
Found at i:137861 original size:24 final size:24
Alignment explanation
Indices: 137827--137873 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
137817 TCTGAACATC
137827 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
137851 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
137874 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:138574 original size:20 final size:20
Alignment explanation
Indices: 138546--138914 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
138536 AAATTTCAGT
* * * *
138546 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
138566 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
138586 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
138606 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
138626 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
138646 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
138666 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
138686 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
138706 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
138726 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
138746 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
138766 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
138786 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
138806 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
138826 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
138846 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
138866 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
138886 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
138906 GTTGCGATT
1 GTTGCGATT
138915 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:139889 original size:16 final size:16
Alignment explanation
Indices: 139868--139900 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
139858 TAATAAATAA
139868 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
139884 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
139900 A
1 A
139901 AAATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.21, G:0.12, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:140300 original size:24 final size:26
Alignment explanation
Indices: 140271--140322 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 26
140261 GCCATCTGTT
*
140271 CGAACATAAATGAACATA-AAT-GAA
1 CGAACATAAACGAACATATAATCGAA
140295 CGAACATAAACGAACATATAATCGAA
1 CGAACATAAACGAACATATAATCGAA
140321 CG
1 CG
140323 TTCACGAACG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 17 0.68
25 3 0.12
26 5 0.20
ACGTcount: A:0.54, C:0.17, G:0.13, T:0.15
Consensus pattern (26 bp):
CGAACATAAACGAACATATAATCGAA
Found at i:140713 original size:32 final size:30
Alignment explanation
Indices: 140677--140746 Score: 79
Period size: 32 Copynumber: 2.3 Consensus size: 30
140667 TAATTATTTT
*
140677 TAAAATAATA-ATATATAAATTATATTAAAAAA
1 TAAAATAATAGA-AAATAAATTATA-T-AAAAA
* *
140709 TAAAATTATAGAAAATAATTTATATAAAAA
1 TAAAATAATAGAAAATAAATTATATAAAAA
140739 TAAAATAA
1 TAAAATAA
140747 ATTTAATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 12 0.36
31 1 0.03
32 19 0.58
33 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (30 bp):
TAAAATAATAGAAAATAAATTATATAAAAA
Found at i:142143 original size:16 final size:16
Alignment explanation
Indices: 142122--142192 Score: 124
Period size: 16 Copynumber: 4.4 Consensus size: 16
142112 CATTTAATAA
142122 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
142138 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
142154 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
**
142170 ATAAATAAACACGAAC
1 ATAAACGAACACGAAC
142186 ATAAACG
1 ATAAACG
142193 TTGGAAACCC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.58, C:0.23, G:0.11, T:0.08
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:147475 original size:2 final size:2
Alignment explanation
Indices: 147468--147518 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
147458 ATGTGAGTTG
147468 AT AT AT AT AT 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 AT AT AT AT AT
147510 AT AT AT AT A
1 AT AT AT AT A
147519 AACGAGAGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:148629 original size:26 final size:24
Alignment explanation
Indices: 148600--148680 Score: 80
Period size: 26 Copynumber: 3.3 Consensus size: 24
148590 TATTTAAAAT
148600 ATATTTATTAATATTTATATAATATA
1 ATATTTATT-ATATTTA-ATAATATA
*
148626 ATATTATATTTTAGTTTAATAATATA
1 ATATT-TATTATA-TTTAATAATATA
148652 ATCA---ATTATA-TTAATAATATA
1 AT-ATTTATTATATTTAATAATATA
148673 ATATTTAT
1 ATATTTAT
148681 ATTTTGTATT
Statistics
Matches: 47, Mismatches: 2, Indels: 15
0.73 0.03 0.23
Matches are distributed among these distances:
20 1 0.02
21 13 0.28
23 7 0.15
26 17 0.36
27 9 0.19
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (24 bp):
ATATTTATTATATTTAATAATATA
Found at i:148634 original size:21 final size:20
Alignment explanation
Indices: 148623--148684 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
148613 TTTATATAAT
* *
148623 ATAATATTATATTTTAGTTTA
1 ATAATATAATATTATA-TTTA
148644 ATAATATAATCAATTATA-TTA
1 ATAATATAAT--ATTATATTTA
148665 ATAATATAATATTTATATTT
1 ATAATATAATA-TTATATTT
148685 TGTATTTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
19 1 0.03
20 5 0.14
21 24 0.69
23 5 0.14
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
ATAATATAATATTATATTTA
Found at i:148726 original size:30 final size:28
Alignment explanation
Indices: 148658--148759 Score: 93
Period size: 29 Copynumber: 3.5 Consensus size: 28
148648 TATAATCAAT
* * *
148658 TATA-TTAATAATATAATATTTATATTTTG
1 TATATTTAATAATAT-ATA-ATATTTTTTA
148687 TAT-TTTAATAATATATAATAAATTTTTTA
1 TATATTTAATAATATATAAT--ATTTTTTA
*
148716 TATATTTAATAATGA-ATAATATTATTTA
1 TATATTTAATAAT-ATATAATATTTTTTA
148744 TATATTTAAATAATAT
1 TATATTT-AATAATAT
148760 TTTTTTAGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 14
0.77 0.05 0.17
Matches are distributed among these distances:
27 1 0.02
28 18 0.29
29 28 0.45
30 14 0.23
31 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
TATATTTAATAATATATAATATTTTTTA
Found at i:148752 original size:28 final size:26
Alignment explanation
Indices: 148695--148758 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 26
148685 TGTATTTTAA
*
148695 TAATATATAATAAATTTTTTATATATT
1 TAATA-ATAATAAATTATTTATATATT
148722 TAATAATGAATAATATTATTTATATATT
1 TAATAAT-AATAA-ATTATTTATATATT
148750 TAAATAATA
1 T-AATAATA
148759 TTTTTTTAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
26 2 0.06
27 10 0.30
28 15 0.45
29 6 0.18
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
TAATAATAATAAATTATTTATATATT
Found at i:148926 original size:17 final size:18
Alignment explanation
Indices: 148904--148938 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
148894 TAATAAAATT
148904 ATAAAAAATA-TTTAATA
1 ATAAAAAATATTTTAATA
*
148921 ATAAAAATTATTTTAATA
1 ATAAAAAATATTTTAATA
148939 TTTTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAAAAATATTTTAATA
Found at i:149145 original size:20 final size:20
Alignment explanation
Indices: 149086--149136 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
149076 TTTTCCAGAT
149086 ATTTTCCAGAAATGTAATTC
1 ATTTTCCAGAAATGTAATTC
*
149106 ATTTTTCAGAAATGTAATTC
1 ATTTTCCAGAAATGTAATTC
149126 ATTTTCCAGAA
1 ATTTTCCAGAA
149137 TTCAAATTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (20 bp):
ATTTTCCAGAAATGTAATTC
Found at i:149152 original size:29 final size:30
Alignment explanation
Indices: 149119--149191 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
149109 TTTCAGAAAT
149119 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
149148 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
149178 GTAATTCATTTTCC
1 GTAATTCATTTTCC
149192 GAAAAACCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 16 0.37
30 27 0.63
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.41
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:149191 original size:15 final size:15
Alignment explanation
Indices: 149119--149191 Score: 103
Period size: 15 Copynumber: 4.9 Consensus size: 15
149109 TTTCAGAAAT
149119 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
**
149134 G-AATTCAAATTCCA
1 GTAATTCATTTTCCA
149148 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
**
149163 GTAATTCAAATTCCA
1 GTAATTCATTTTCCA
149178 GTAATTCATTTTCC
1 GTAATTCATTTTCC
149192 GAAAAACCAA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
14 12 0.24
15 37 0.76
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.41
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:150813 original size:24 final size:24
Alignment explanation
Indices: 150779--150824 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
150769 GAATACATAC
* *
150779 AAAGAGTTGCTTGTCAACCAAAGA
1 AAAGAGGTGCTTGCCAACCAAAGA
150803 AAAGAGGTGCTTGCCAACCAAA
1 AAAGAGGTGCTTGCCAACCAAA
150825 CAAGCACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (24 bp):
AAAGAGGTGCTTGCCAACCAAAGA
Found at i:151828 original size:25 final size:24
Alignment explanation
Indices: 151769--151833 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
151759 AGTGCAATTT
* *
151769 TGCATTCCTGAATTAGTACATTTG
1 TGCACTCCTGAATTAGTACATTCG
* *
151793 TGCACTTCTGATTATAGTACATTCG
1 TGCACTCCTGAAT-TAGTACATTCG
*
151818 TGTACTCCTGACATTA
1 TGCACTCCTGA-ATTA
151834 TGTGTGAAGT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
24 10 0.31
25 21 0.66
26 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (24 bp):
TGCACTCCTGAATTAGTACATTCG
Found at i:151952 original size:17 final size:17
Alignment explanation
Indices: 151930--151968 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
151920 AAAAATGAAT
*
151930 TAAAAGAAATAGTAAAG
1 TAAAAGAAATAATAAAG
* *
151947 TAAAAGTAATAATATAG
1 TAAAAGAAATAATAAAG
151964 TAAAA
1 TAAAA
151969 AGATACAGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.23
Consensus pattern (17 bp):
TAAAAGAAATAATAAAG
Found at i:152141 original size:18 final size:17
Alignment explanation
Indices: 152112--152157 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
152102 ACATTGAAAG
*
152112 AAACATTACAAGAAATAA
1 AAACAGTACAAGAAA-AA
* *
152130 AAATAGTACAAGAAAAG
1 AAACAGTACAAGAAAAA
152147 AAACAGTACAA
1 AAACAGTACAA
152158 AAAGAAACGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.65, C:0.11, G:0.11, T:0.13
Consensus pattern (17 bp):
AAACAGTACAAGAAAAA
Found at i:156876 original size:31 final size:31
Alignment explanation
Indices: 156830--156909 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
156820 TTCGATAATA
* *
156830 TAATAATTATTTTATAGT-ATTTAGATAAATT
1 TAATAATAATTTTATAATCATTTA-ATAAATT
* *
156861 TATTAATAATTTTATAATCTTTTAATAAATT
1 TAATAATAATTTTATAATCATTTAATAAATT
**
156892 TAATAAGCATTTTATAAT
1 TAATAATAATTTTATAAT
156910 TTTTTAAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 37 0.90
32 4 0.10
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (31 bp):
TAATAATAATTTTATAATCATTTAATAAATT
Found at i:156887 original size:19 final size:20
Alignment explanation
Indices: 156863--156912 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
156853 GATAAATTTA
*
156863 TTAATAATTTTATAATC-TT
1 TTAATAATTTTATAAGCATT
*
156882 TTAATAAATTTAATAAGCATT
1 TTAAT-AATTTTATAAGCATT
156903 TT-ATAATTTT
1 TTAATAATTTT
156913 TTAAATTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 12 0.46
21 4 0.15
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (20 bp):
TTAATAATTTTATAAGCATT
Found at i:156915 original size:31 final size:31
Alignment explanation
Indices: 156849--156916 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
156839 TTTTATAGTA
* *
156849 TTTAGATAAATTTATTAATAATTTTATAATCT
1 TTTA-ATAAATTTAATAAGAATTTTATAATCT
* *
156881 TTTAATAAATTTAATAAGCATTTTATAATTT
1 TTTAATAAATTTAATAAGAATTTTATAATCT
156912 TTTAA
1 TTTAA
156917 ATTTCATTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 28 0.88
32 4 0.12
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (31 bp):
TTTAATAAATTTAATAAGAATTTTATAATCT
Found at i:157673 original size:31 final size:30
Alignment explanation
Indices: 157638--157724 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
157628 TCAATAAAGT
157638 TTAAAAAATTATAAAATACTTATTAAATTTA
1 TTAAAAAATTATAAAATA-TTATTAAATTTA
* *
157669 TTAAAAGATTATAAAATTATTAATAAATTTA
1 TTAAAAAATTATAAAA-TATTATTAAATTTA
* *
157700 TCT-AAATACTATAAAATAATTATTA
1 T-TAAAAAATTATAAAAT-ATTATTA
157725 TATTATCGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
30 1 0.02
31 44 0.92
32 3 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (30 bp):
TTAAAAAATTATAAAATATTATTAAATTTA
Found at i:157700 original size:20 final size:20
Alignment explanation
Indices: 157633--157700 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 20
157623 TTTCGTCAAT
*
157633 AAAG-TTTAAAAAATTA-TA
1 AAAGATTTATAAAATTATTA
* * *
157651 AAATACTTATTAAATTTATTA
1 AAAGATTTA-TAAAATTATTA
157672 AAAGA-TTATAAAATTATTA
1 AAAGATTTATAAAATTATTA
157691 ATAA-ATTTAT
1 A-AAGATTTAT
157701 CTAAATACTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 3 0.08
19 15 0.38
20 15 0.38
21 6 0.15
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (20 bp):
AAAGATTTATAAAATTATTA
Found at i:158548 original size:3 final size:3
Alignment explanation
Indices: 158540--158581 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
158530 ACCACACCAG
158540 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
158582 AACAATGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:160839 original size:16 final size:16
Alignment explanation
Indices: 160818--160861 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
160808 TTCGGTATTC
160818 TGATTTACTGTTGTAT
1 TGATTTACTGTTGTAT
160834 TGATTTACTGTTGTAT
1 TGATTTACTGTTGTAT
160850 TGATTTACTGTT
1 TGATTTACTGTT
160862 TATGAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.18, C:0.07, G:0.18, T:0.57
Consensus pattern (16 bp):
TGATTTACTGTTGTAT
Found at i:173870 original size:2 final size:2
Alignment explanation
Indices: 173858--173900 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
173848 AGTAGATGGT
*
173858 TA TA CA 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
173900 T
1 T
173901 GAGTCATGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:174393 original size:18 final size:18
Alignment explanation
Indices: 174370--174421 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
174360 TTTGTTCTAT
174370 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
* *
174388 GTGGTCCTTCAGAACATA
1 GTGGTCCTTCGGGACATA
*
174406 GTGGTCATTCGGGACA
1 GTGGTCCTTCGGGACA
174422 AATTCTACAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:181316 original size:120 final size:121
Alignment explanation
Indices: 181165--181395 Score: 315
Period size: 120 Copynumber: 1.9 Consensus size: 121
181155 CCGACGAGGG
* * *
181165 GAAATAAGTTCATAATAAGAAGAACTTGTTCAAATCTCGGCTTATAC-ATTACATAAGGAGTTGG
1 GAAATAAGTTCATAATAAGAAGAACTTGTTCAAATCTCGGCTCAT-CTATCACATAAGGAGTTGA
* * *
181229 GTCAGCGTC-ACCTGTGCTTGATTCCATCATAGAAGGAGGTGGATCAAAATTTGCAGA
65 ATCAGCATCAACCT-TGCTCGATTCCATCATAGAAGGAGGTGGATCAAAATTTGCAGA
** *
181286 GAAA-AAGTTCATAATGTGAAGAACTTGTTCAAATCTTGGCTCATCTATCACATAAGGAGTTGAA
1 GAAATAAGTTCATAATAAGAAGAACTTGTTCAAATCTCGGCTCATCTATCACATAAGGAGTTGAA
* * *
181350 TCAGCATCAATCTTGCTCGATTCTATCATAGAAGGAGGTTGATCAA
66 TCAGCATCAACCTTGCTCGATTCCATCATAGAAGGAGGTGGATCAA
181396 CATTCCTGAA
Statistics
Matches: 96, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
119 1 0.01
120 88 0.92
121 7 0.07
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (121 bp):
GAAATAAGTTCATAATAAGAAGAACTTGTTCAAATCTCGGCTCATCTATCACATAAGGAGTTGAA
TCAGCATCAACCTTGCTCGATTCCATCATAGAAGGAGGTGGATCAAAATTTGCAGA
Found at i:182982 original size:28 final size:28
Alignment explanation
Indices: 182939--182992 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
182929 TCAGTTTAGT
*
182939 CCTTAAATTAATTTTTTTGTTAAATTAA
1 CCTTAAATTAATTTTTGTGTTAAATTAA
182967 CCTTAATATTAA-TTTTGTGTTAAATT
1 CCTTAA-ATTAATTTTTGTGTTAAATT
182993 TATTTGGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (28 bp):
CCTTAAATTAATTTTTGTGTTAAATTAA
Found at i:184380 original size:25 final size:25
Alignment explanation
Indices: 184331--184383 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
184321 ATTTTCAAAG
*
184331 TGTTGCGTAGATGATTTACAATATT
1 TGTTGCGTAGATGACTTACAATATT
184356 TGTTGCGTAGATGACTTACAATATT
1 TGTTGCGTAGATGACTTACAATATT
184381 TGT
1 TGT
184384 GTAAGAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.43
Consensus pattern (25 bp):
TGTTGCGTAGATGACTTACAATATT
Found at i:185822 original size:185 final size:185
Alignment explanation
Indices: 185506--185895 Score: 624
Period size: 185 Copynumber: 2.1 Consensus size: 185
185496 TTTTCTAATT
* * *
185506 TATATAA-AAATTAAATATTTTATAATTAAAAAAGCAGTTTATAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTATAATTAAAAAAACAGTTTATAATTAATTTAAATAATATATAA
185570 TTATAAAATAAAAAATTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
66 TTATAAAATAAAAAATTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
185635 TGGATCTTAAATTATTAATTGAGTTTTAAATAGTTTGGGCTGAGCCCATATGTTA
131 TGGATCTTAAATTATTAATTGAGTTTTAAATAGTTTGGGCTGAGCCCATATGTTA
*
185690 TATATAATATATTTAATATTTT-TAATTCAAAAAAATAGTTT-TCAATTAATTTAAATAATATAT
1 TATATAATATATTTAATATTTTATAATT-AAAAAAACAGTTTAT-AATTAATTTAAATAATATAT
* * *
185753 AATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAATTT
64 AATTATAAAATAAAAAATTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTT
* * **
185818 ATTGGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGTTGAGCTTATATGTTA
129 ATTGGATCTTAAATTATTAATTGAGTTTTAAATAGTTTGGGCTGAGCCCATATGTTA
* *
185875 TATAAAATATATTTAAAATTT
1 TATATAATATATTTAATATTT
185896 AAAATTTTAT
Statistics
Matches: 190, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
184 13 0.07
185 177 0.93
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (185 bp):
TATATAATATATTTAATATTTTATAATTAAAAAAACAGTTTATAATTAATTTAAATAATATATAA
TTATAAAATAAAAAATTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
TGGATCTTAAATTATTAATTGAGTTTTAAATAGTTTGGGCTGAGCCCATATGTTA
Found at i:187417 original size:12 final size:12
Alignment explanation
Indices: 187400--187426 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
187390 GATAAACGTG
187400 ACGTGACCGAAA
1 ACGTGACCGAAA
187412 ACGTGACCGAAA
1 ACGTGACCGAAA
187424 ACG
1 ACG
187427 CTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.26, G:0.26, T:0.07
Consensus pattern (12 bp):
ACGTGACCGAAA
Found at i:187759 original size:13 final size:13
Alignment explanation
Indices: 187737--187777 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
187727 ATAAAAACAG
187737 TTAATCAAATCAA
1 TTAATCAAATCAA
** *
187750 TTTCTCAAATCAG
1 TTAATCAAATCAA
187763 TTAATCAAATCAA
1 TTAATCAAATCAA
187776 TT
1 TT
187778 GGTAAAACTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.37
Consensus pattern (13 bp):
TTAATCAAATCAA
Found at i:189052 original size:44 final size:44
Alignment explanation
Indices: 188985--189112 Score: 134
Period size: 44 Copynumber: 2.9 Consensus size: 44
188975 GATCACTTAA
* * *
188985 CTATATACAAGTCC-TTTAGCGGCGTTTATATCCGACAAACACTC-
1 CTATATACAAGACCTTTTA-CGGCGTTTGTATCCGAAAAACAC-CG
* * *
189029 CTATATACGAGACCTTTTACGGCGTTTGTATCCAAAAAACGCCG
1 CTATATACAAGACCTTTTACGGCGTTTGTATCCGAAAAACACCG
* * * *
189073 CTATATACCACACCTATTGCGGCGTTTGTATCCGAAAAAC
1 CTATATACAAGACCTTTTACGGCGTTTGTATCCGAAAAAC
189113 GTCGCTAAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
43 1 0.01
44 66 0.93
45 4 0.06
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (44 bp):
CTATATACAAGACCTTTTACGGCGTTTGTATCCGAAAAACACCG
Found at i:189113 original size:44 final size:44
Alignment explanation
Indices: 189003--189119 Score: 137
Period size: 44 Copynumber: 2.7 Consensus size: 44
188993 AAGTCCTTTA
* * * * * *
189003 GCGGCGTTTATATCCGACAAACACTC-CTATATACGAGACCTTTT
1 GCGGCGTTTGTATCCGAAAAACGC-CGCTATATACCACACCTATT
* *
189047 ACGGCGTTTGTATCCAAAAAACGCCGCTATATACCACACCTATT
1 GCGGCGTTTGTATCCGAAAAACGCCGCTATATACCACACCTATT
*
189091 GCGGCGTTTGTATCCGAAAAACGTCGCTA
1 GCGGCGTTTGTATCCGAAAAACGCCGCTA
189120 AATATCTTAA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 1 0.02
44 60 0.98
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (44 bp):
GCGGCGTTTGTATCCGAAAAACGCCGCTATATACCACACCTATT
Found at i:189844 original size:17 final size:19
Alignment explanation
Indices: 189814--189850 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
189804 GATTGGCTAA
189814 TAAAATCTATTGATTAAAT
1 TAAAATCTATTGATTAAAT
189833 TAAAAT-TA-TGATTAAAT
1 TAAAATCTATTGATTAAAT
189850 T
1 T
189851 GATTTAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 2 0.11
19 6 0.33
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (19 bp):
TAAAATCTATTGATTAAAT
Found at i:192780 original size:2 final size:2
Alignment explanation
Indices: 192768--192807 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
192758 CCAAAACATC
192768 AT AT GAT AT AT AT 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 AT A
192808 CGAGTGTGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:192951 original size:2 final size:2
Alignment explanation
Indices: 192944--192969 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
192934 AGTGAAATCT
192944 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
192970 CTATTGCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:195709 original size:12 final size:12
Alignment explanation
Indices: 195692--195724 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
195682 TTTTCAGAAC
195692 CGGACCGGTTAG
1 CGGACCGGTTAG
195704 CGGACCGGTTAG
1 CGGACCGGTTAG
*
195716 CGAACCGGT
1 CGGACCGGT
195725 CATGCTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.27, G:0.39, T:0.15
Consensus pattern (12 bp):
CGGACCGGTTAG
Found at i:195836 original size:22 final size:21
Alignment explanation
Indices: 195802--195842 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
195792 ATAATTATTT
195802 AAAAAATTAAATAAAAATACA
1 AAAAAATTAAATAAAAATACA
*
195823 AAAAATATTTAATAAAAATA
1 AAAAA-ATTAAATAAAAATA
195843 ATTTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATACA
Found at i:196324 original size:16 final size:16
Alignment explanation
Indices: 196299--196329 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
196289 CTTCTAATTT
*
196299 TTTTTTGAGTTCAAGC
1 TTTTTCGAGTTCAAGC
196315 TTTTTCGAGTTCAAG
1 TTTTTCGAGTTCAAG
196330 TTTCAATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.48
Consensus pattern (16 bp):
TTTTTCGAGTTCAAGC
Found at i:197874 original size:20 final size:20
Alignment explanation
Indices: 197851--198021 Score: 159
Period size: 20 Copynumber: 8.4 Consensus size: 20
197841 GTTTCCAGAT
*
197851 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTCTGACTA
* * * *
197871 TCGCAATGCGAATATGTA-AA
1 TCGCAACGCGATTCTG-ACTA
197891 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
**
197911 TCGCAACGCGATAAT-ACATAA
1 TCGCAACGCGATTCTGAC-T-A
197932 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
* **
197952 TCGCAACGTGATAAT-ACATAA
1 TCGCAACGCGATTCTGAC-T-A
* *
197973 TCGTAACGCGATTCTGACTG
1 TCGCAACGCGATTCTGACTA
*
197993 TCGCAACGCGATTCTGACTG
1 TCGCAACGCGATTCTGACTA
198013 TCGCAACGC
1 TCGCAACGC
198022 TGAATTTCAA
Statistics
Matches: 122, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
19 5 0.04
20 84 0.69
21 29 0.24
22 4 0.03
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTA
Found at i:197943 original size:41 final size:41
Alignment explanation
Indices: 197851--198004 Score: 222
Period size: 41 Copynumber: 3.8 Consensus size: 41
197841 GTTTCCAGAT
* * **
197851 TCGCAACGCGATTTTGACTATCGCAATGCG--AATATGTAAA
1 TCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT-AA
197891 TCGCAACGCGATTCTGACTATCGCAACGCGATAATACATAA
1 TCGCAACGCGATTCTGACTATCGCAACGCGATAATACATAA
*
197932 TCGCAACGCGATTCTGACTATCGCAACGTGATAATACATAA
1 TCGCAACGCGATTCTGACTATCGCAACGCGATAATACATAA
* *
197973 TCGTAACGCGATTCTGACTGTCGCAACGCGAT
1 TCGCAACGCGATTCTGACTATCGCAACGCGAT
198005 TCTGACTGTC
Statistics
Matches: 104, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
40 28 0.27
41 71 0.68
42 5 0.05
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (41 bp):
TCGCAACGCGATTCTGACTATCGCAACGCGATAATACATAA
Found at i:197956 original size:61 final size:61
Alignment explanation
Indices: 197851--198021 Score: 152
Period size: 61 Copynumber: 2.8 Consensus size: 61
197841 GTTTCCAGAT
** * * * * **
197851 TCGCAACGCGATTTTGACTATCGCAATGCGAATATGTA-AATCGCAACGCGATTCTGAC-T-A
1 TCGCAACGCGATAATGACTATCGCAACGCGATTCTG-ACTATCGCAACGCGATAAT-ACATAA
*
197911 TCGCAACGCGATAAT-ACATAATCGCAACGCGATTCTGACTATCGCAACGTGATAATACATAA
1 TCGCAACGCGATAATGAC-T-ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACATAA
* ** * *
197973 TCGTAACGCGATTCTGACTGTCGCAACGCGATTCTGACTGTCGCAACGC
1 TCGCAACGCGATAATGACTATCGCAACGCGATTCTGACTATCGCAACGC
198022 TGAATTTCAA
Statistics
Matches: 90, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
59 2 0.02
60 17 0.19
61 55 0.61
62 14 0.16
63 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (61 bp):
TCGCAACGCGATAATGACTATCGCAACGCGATTCTGACTATCGCAACGCGATAATACATAA
Found at i:198891 original size:24 final size:24
Alignment explanation
Indices: 198840--198893 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
198830 GTATTCAAAA
*
198840 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
198864 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
198888 TTTGAT
1 TTTGAT
198894 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:201468 original size:140 final size:140
Alignment explanation
Indices: 201216--201498 Score: 539
Period size: 140 Copynumber: 2.0 Consensus size: 140
201206 GCAAACGTTG
201216 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
201281 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
201346 CGAATTTGAC
131 CGAATTTGAC
*
201356 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
* *
201421 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAGCG
66 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
201486 CGAATTTGAC
131 CGAATTTGAC
201496 TAT
1 TAT
201499 CGCAACTCAA
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
CGAATTTGAC
Found at i:201540 original size:20 final size:20
Alignment explanation
Indices: 201515--201579 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
201505 TCAAAAATTA
201515 CAACGCGAATTTGACTATCG
1 CAACGCGAATTTGACTATCG
201535 CAACGCGAATTTGACTATCG
1 CAACGCGAATTTGACTATCG
* *
201555 CAACTCAAATTTGACTATCG
1 CAACGCGAATTTGACTATCG
201575 CAACG
1 CAACG
201580 AGAAAATCGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (20 bp):
CAACGCGAATTTGACTATCG
Found at i:201589 original size:54 final size:54
Alignment explanation
Indices: 201477--201611 Score: 139
Period size: 54 Copynumber: 2.5 Consensus size: 54
201467 TCATTTGAAT
* *** **
201477 ATCGCAGCGCGAATTTGACTATCGCAACTCAAAAATTACAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACTATCGCAACTCAAAAATTACAACGCGAACGAGAAA
* *
201531 ATCGCAACGCGAATTTGACTATCGCAACTC-AAATTTGACTATCGC-AACGAGAAA
1 ATCGCAACGCGAATTTGACTATCGCAACTCAAAAATT-AC-AACGCGAACGAGAAA
* * *
201585 ATCGCAAAGCGTATTAGACTATCGCAA
1 ATCGCAACGCGAATTTGACTATCGCAA
201612 TGCGAATTGA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
53 5 0.07
54 59 0.87
55 4 0.06
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (54 bp):
ATCGCAACGCGAATTTGACTATCGCAACTCAAAAATTACAACGCGAACGAGAAA
Found at i:201605 original size:74 final size:74
Alignment explanation
Indices: 201469--201628 Score: 189
Period size: 74 Copynumber: 2.2 Consensus size: 74
201459 TTACACATTC
* * * * * *
201469 ATTTGAATATCGCAGCGCGAATTTGACTATCGCAACTCAAAAATTACAACGCGAATTTGACTATC
1 ATTTGACTATCGCAACGCAAATTTGACTATCGCAACTCAAAAATCACAAAGCGAATTAGACTATC
201534 GCAACGCGA
66 GCAACGCGA
* * * *
201543 ATTTGACTATCGCAACTCAAATTTGACTATCGCAAC-GAGAAAATCGCAAAGCGTATTAGACTAT
1 ATTTGACTATCGCAACGCAAATTTGACTATCGCAACTCA-AAAATCACAAAGCGAATTAGACTAT
*
201607 CGCAATGCGA
65 CGCAACGCGA
*
201617 A-TTGACTTTCGC
1 ATTTGACTATCGC
201629 GTTGCGATTT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
73 11 0.15
74 62 0.85
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (74 bp):
ATTTGACTATCGCAACGCAAATTTGACTATCGCAACTCAAAAATCACAAAGCGAATTAGACTATC
GCAACGCGA
Found at i:201628 original size:19 final size:20
Alignment explanation
Indices: 201519--201628 Score: 65
Period size: 20 Copynumber: 5.8 Consensus size: 20
201509 AAATTACAAC
* *
201519 GCGAATTTGACTATCGCAAC
1 GCGAATTAGACTATCGCAAA
* *
201539 GCGAATTTGACTATCGCAAC
1 GCGAATTAGACTATCGCAAA
* * *
201559 TCAAATTTGACTATCGC-AA
1 GCGAATTAGACTATCGCAAA
201578 -CGAGA--A-A--ATCGCAAA
1 GCGA-ATTAGACTATCGCAAA
* *
201593 GCGTATTAGACTATCGCAAT
1 GCGAATTAGACTATCGCAAA
*
201613 GCGAATT-GACTTTCGC
1 GCGAATTAGACTATCGC
201629 GTTGCGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
14 5 0.07
15 3 0.04
16 3 0.04
17 1 0.01
18 3 0.04
19 10 0.14
20 48 0.66
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (20 bp):
GCGAATTAGACTATCGCAAA
Found at i:201653 original size:20 final size:20
Alignment explanation
Indices: 201618--201681 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
201608 GCAATGCGAA
* *
201618 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCACATTGCGATT
* *
201638 TTGGCTTTTACATTGCGATT
1 TTGACTTTCACATTGCGATT
201658 TTGACTTTCACATTGCGATT
1 TTGACTTTCACATTGCGATT
201678 TTGA
1 TTGA
201682 GTTTAGCGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.16, C:0.17, G:0.20, T:0.47
Consensus pattern (20 bp):
TTGACTTTCACATTGCGATT
Done.