Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004523.1 Hibiscus syriacus cultivar Beakdansim tig00009979_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: 64640
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.31
Found at i:86 original size:21 final size:22
Alignment explanation
Indices: 44--87 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
34 TAAATCAATT
*
44 TCATATAACTCCTATAATCTTC
1 TCATATAACTCCTATAACCTTC
*
66 TCATATAACTTC-ATAACCTTC
1 TCATATAACTCCTATAACCTTC
87 T
1 T
88 TATGTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (22 bp):
TCATATAACTCCTATAACCTTC
Found at i:571 original size:20 final size:21
Alignment explanation
Indices: 528--568 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
518 TATTATTCTT
*
528 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
549 TTGAATGGGTATCGATTCCC
1 TTGAAGGGGTATCGATTCCC
569 TTGCCCAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:4368 original size:196 final size:201
Alignment explanation
Indices: 3963--4634 Score: 645
Period size: 195 Copynumber: 3.4 Consensus size: 201
3953 TTTTCAAAAA
* ** ** * * *
3963 GTATCGA-CCCCAAAACATCGAAACAAATAATTATAATGTAATATTTAAATTAACAATGTAATCA
1 GTATCGATCCCAAAAACATCGAAACTGA-AATTATAATGTAATAGGTAAATTTACAATGTAACCG
* * * * * * * * * *
4027 GTATACATATACCGG-TTAATTATAAAACATGTC-ACATAAAGCATCGACA-CTTTTTAAGTTTG
65 GTATAAATATACCGGTTTTATGAGAAAATAAGTCTAAATAAAGTATCGACACCTTTAT-AG-ATG
* * * * * *
4089 TGTCGATACTTTT-TCCAAAAGAA--AGCA---CAAAC-AGGTTCACGCATAAAGTGTCGATACA
128 TGTCGATACTTTTGTCCAAATGAATTAGAATGCCCAACGAGGTGCAAGAATAAAGTGTCGATACA
4147 TTTAAAATT
193 TTTAAAATT
* * * *
4156 TTATCGATCACAAAAACATCGAAACTGATAATTATAATATAATAGGTCAATTTACAATGTAACCG
1 GTATCGATCCCAAAAACATCGAAACTGA-AATTATAATGTAATAGGTAAATTTACAATGTAACCG
* * * *
4221 GTTTAAATTTACCGGTTTTATGAGAAAATAGGTC-AGAATAAAGTATCGACA-CTTGTGTA-AT-
65 GTATAAATATACCGGTTTTATGAGAAAATAAGTCTA-AATAAAGTATCGACACCTT-TATAGATG
* *
4282 TGTCGATACATTTTGT-C-TAT-AA-T-GAATGCCCAACGAGGTGCAAGAATAACGTGTCGATAC
128 TGTCGATAC-TTTTGTCCAAATGAATTAGAATGCCCAACGAGGTGCAAGAATAAAGTGTCGATAC
4342 ATTTAAAATT
192 ATTTAAAATT
* * *
4352 GTATCGATCCCAAAAACATCGAAAC-GAAAATTACAATGTTATAGGTAAATTTACAATGTACCCG
1 GTATCGATCCCAAAAACATCGAAACTG-AAATTATAATGTAATAGGTAAATTTACAATGTAACCG
* * *
4416 ATATAAATATACCGGTTTTATGAGAAAATAAGTCTAAATAATGTATCGACACCTTTATAGTTTGT
65 GTATAAATATACCGGTTTTATGAGAAAATAAGTCTAAATAAAGTATCGACACCTTTATAG-ATGT
* * *
4481 GTCGATACTTTTTTCCAGAATGAATTAGGAATGCCCAGCGAGGTGCAAGCATAAAGTGTCGATAC
129 GTCGATACTTTTGTCCA-AATGAATTA-GAATGCCCAACGAGGTGCAAGAATAAAGTGTCGATAC
4546 ATTTAAAATT
192 ATTTAAAATT
* * * *
4556 GTATCGAT-CCAAAAACAACGAAACT-AAATTATAATGCAATAGGTAAATTTGCAATACT-ACCG
1 GTATCGATCCCAAAAACATCGAAACTGAAATTATAATGTAATAGGTAAATTTACAAT-GTAACCG
4618 GTATAAATATACCGGTT
65 GTATAAATATACCGGTT
4635 AAATGCCTAT
Statistics
Matches: 394, Mismatches: 59, Indels: 43
0.79 0.12 0.09
Matches are distributed among these distances:
192 4 0.01
193 16 0.04
194 64 0.16
195 98 0.25
196 76 0.19
197 8 0.02
198 10 0.03
200 2 0.01
201 2 0.01
202 46 0.12
203 16 0.04
204 52 0.13
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (201 bp):
GTATCGATCCCAAAAACATCGAAACTGAAATTATAATGTAATAGGTAAATTTACAATGTAACCGG
TATAAATATACCGGTTTTATGAGAAAATAAGTCTAAATAAAGTATCGACACCTTTATAGATGTGT
CGATACTTTTGTCCAAATGAATTAGAATGCCCAACGAGGTGCAAGAATAAAGTGTCGATACATTT
AAAATT
Found at i:5932 original size:17 final size:17
Alignment explanation
Indices: 5902--5963 Score: 90
Period size: 17 Copynumber: 3.5 Consensus size: 17
5892 ATAAGTTTAA
5902 ATTATAAATGATATTAAT-T
1 ATTATAAA--ATA-TAATAT
5921 ATTATAAAATATAATAT
1 ATTATAAAATATAATAT
5938 ATTATAAAATATAATAT
1 ATTATAAAATATAATAT
5955 ATTATAAAA
1 ATTATAAAA
5964 CCTTAACATA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
16 4 0.10
17 30 0.71
19 8 0.19
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
ATTATAAAATATAATAT
Found at i:7057 original size:20 final size:21
Alignment explanation
Indices: 7032--7124 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
7022 TTTTCCCAAT
*
7032 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
7052 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
7073 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
7093 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
7114 TCGCAATGCGA
1 TCGCAATGCGA
7125 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:7138 original size:20 final size:20
Alignment explanation
Indices: 7113--7227 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
7103 AATTGGGAAA
*
7113 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
7133 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
7154 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
7174 TTCG-AACCGCGATACTGATT
1 ATCGCAA-CGCGATACTGACT
* *
7194 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
7214 TTCGCAACGCGATA
1 ATCGCAACGCGATA
7228 ATACATAATC
Statistics
Matches: 75, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
19 2 0.03
20 57 0.76
21 16 0.21
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:7139 original size:41 final size:41
Alignment explanation
Indices: 7032--7124 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
7022 TTTTCCCAAT
7032 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
7073 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
7114 TCGCAATGCGA
1 TCGCAATGCGA
7125 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:7155 original size:41 final size:41
Alignment explanation
Indices: 7110--7247 Score: 127
Period size: 41 Copynumber: 3.4 Consensus size: 41
7100 GCGAATTGGG
* * *
7110 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
* * * *
7151 AAAATCGCAACGAGATACTTACTTTCG-AACCGCGATACT-G
1 AAAATCGCAACGCGATACTGACTTTCGCAA-CGCGATAATAA
*** * *
7191 ATTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
* *
7232 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
7248 TTTCAAAGCG
Statistics
Matches: 76, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
40 31 0.41
41 45 0.59
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
Found at i:7442 original size:22 final size:22
Alignment explanation
Indices: 7414--7457 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
7404 CACTCTCTCA
7414 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
7436 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
7458 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:9080 original size:18 final size:18
Alignment explanation
Indices: 9059--9103 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
9049 TCCACTTCGG
*
9059 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
9077 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
9095 GAGCCATCA
1 GAGCCATCA
9104 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:9633 original size:19 final size:20
Alignment explanation
Indices: 9590--9634 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
9580 CGCAACACGA
9590 AAATGACTATCCCAACGCGG
1 AAATGACTATCCCAACGCGG
* * *
9610 AAATGGCTATCGCAATGC-G
1 AAATGACTATCCCAACGCGG
9629 AAATGA
1 AAATGA
9635 AAATCGCAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (20 bp):
AAATGACTATCCCAACGCGG
Found at i:9653 original size:14 final size:14
Alignment explanation
Indices: 9634--9691 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
9624 ATGCGAAATG
9634 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
9648 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
9664 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
9680 AAAATCGCAACG
1 AAAATCGCAACG
9692 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:9676 original size:32 final size:33
Alignment explanation
Indices: 9618--9708 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
9608 GGAAATGGCT
9618 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
9651 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
9683 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
9709 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:9759 original size:32 final size:33
Alignment explanation
Indices: 9720--9797 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
9710 GCGATTTGTG
9720 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
9752 TTTCGCGTTGCGA-TTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
9784 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
9798 AGCCATTTCC
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
31 13 0.30
32 30 0.70
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.46
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:9794 original size:19 final size:19
Alignment explanation
Indices: 9770--9836 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
9760 TGCGATTTGT
**
9770 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
9789 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
9809 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
9828 CGTTGCGAT
1 CGTTGCGAT
9837 TTTAAGTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:9816 original size:20 final size:19
Alignment explanation
Indices: 9782--9836 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
9772 TTGCGATTTT
*
9782 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
9801 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
9821 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
9837 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:11890 original size:14 final size:14
Alignment explanation
Indices: 11844--11897 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
11834 CGAAATGGCT
11844 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
*
11858 ATCACAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
11877 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
11891 ATCGCAA
1 ATCGCAA
11898 TGCGATTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.50, C:0.20, G:0.19, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:11946 original size:20 final size:20
Alignment explanation
Indices: 11921--11998 Score: 138
Period size: 20 Copynumber: 3.9 Consensus size: 20
11911 TCGCATTGCG
*
11921 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
11941 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
11961 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
11981 ATTTTTGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
11999 TCAAATGAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:13079 original size:24 final size:24
Alignment explanation
Indices: 13052--13105 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
13042 GTATTCGAAA
* *
13052 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
13076 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
13100 TTTGAT
1 TTTGAT
13106 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:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:13297 original size:12 final size:12
Alignment explanation
Indices: 13280--13304 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13270 ATATAATCCT
13280 GAAGAAGAAAAA
1 GAAGAAGAAAAA
13292 GAAGAAGAAAAA
1 GAAGAAGAAAAA
13304 G
1 G
13305 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:15640 original size:33 final size:33
Alignment explanation
Indices: 15598--15724 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
15588 GGAAATTACT
15598 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
15631 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
15663 TTTCGCAATGCGAAATGAAAATTGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
15697 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
15725 CGAATTTAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
32 1 0.01
33 81 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:15705 original size:66 final size:66
Alignment explanation
Indices: 15599--15731 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
15589 GAAATTACTA
*
15599 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
15664 T
66 T
* *
15665 TCGCAATGCGAAATGAAAATTGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
15730 T
66 T
15731 T
1 T
15732 AATTTCGTGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:15746 original size:19 final size:20
Alignment explanation
Indices: 15724--15766 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
15714 AAATCGCAAC
*
15724 GCGAATTT-AATTTCGTGTT
1 GCGAATTTCAATTTCGCGTT
* *
15743 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
15763 GCGA
1 GCGA
15767 TTCTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.44
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:15926 original size:14 final size:14
Alignment explanation
Indices: 15907--15943 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
15897 CATCAATTAA
15907 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
15921 ACAAATCACCTTTT
1 ACAAATCAACTTTT
15935 ACAAATCAA
1 ACAAATCAA
15944 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:16530 original size:20 final size:19
Alignment explanation
Indices: 16499--16678 Score: 103
Period size: 19 Copynumber: 9.8 Consensus size: 19
16489 TCTTTTGGTT
16499 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
16518 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
16539 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
16558 G----G-GAATCGCAACGC
1 GAAATGAAAATCGCAACGA
**
16572 GAAATGACTATCG---CGA
1 GAAATGAAAATCGCAACGA
** * *
16588 -CCA-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
16605 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGA
* *
16625 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
16644 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
16663 GAAAT-AAAATTCGCAA
1 GAAATGAAAA-TCGCAA
16679 TGCGATTTTT
Statistics
Matches: 127, Mismatches: 20, Indels: 28
0.73 0.11 0.16
Matches are distributed among these distances:
14 17 0.13
15 2 0.02
16 2 0.02
17 2 0.02
18 6 0.05
19 49 0.39
20 47 0.37
21 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:16581 original size:33 final size:33
Alignment explanation
Indices: 16524--16622 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 33
16514 ACGAGATAAT
*
16524 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
* *
16558 GGGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
16591 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
16623 GCGAAATAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 44 0.77
34 13 0.23
ACGTcount: A:0.38, C:0.26, G:0.24, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:16616 original size:19 final size:19
Alignment explanation
Indices: 16594--16683 Score: 137
Period size: 19 Copynumber: 4.7 Consensus size: 19
16584 GCGACCAGAC
16594 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
16613 AATCGCAACCGCGAAATAAA
1 AATCGCAA-CGCGAAATGAA
16633 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
16652 AATCGCAACGCGAAAT-AA
1 AATCGCAACGCGAAATGAA
*
16670 AATTCGCAATGCGA
1 AA-TCGCAACGCGA
16684 TTTTTGTTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
18 4 0.06
19 44 0.67
20 18 0.27
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:16637 original size:39 final size:38
Alignment explanation
Indices: 16594--16683 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
16584 GCGACCAGAC
16594 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
16633 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
* *
16671 ATTCGCAATGCGA
1 AATCGCAACGCGA
16684 TTTTTGTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 22 0.45
39 27 0.55
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:16694 original size:19 final size:19
Alignment explanation
Indices: 16672--16714 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
16662 CGAAATAAAA
*
16672 TTCGCAATGCGATTTTTGT
1 TTCGCAATGCGATTTTTAT
** *
16691 TTCGCGTTGCGTTTTTTAT
1 TTCGCAATGCGATTTTTAT
16710 TTCGC
1 TTCGC
16715 GTTGCGATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.09, C:0.19, G:0.21, T:0.51
Consensus pattern (19 bp):
TTCGCAATGCGATTTTTAT
Found at i:16715 original size:19 final size:19
Alignment explanation
Indices: 16679--16759 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
16669 AAATTCGCAA
*
16679 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
16698 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
16717 TGCGA---TTA--TCTCGT
1 TGCGATTTTTATTTCGCGT
**
16731 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
16751 TGCGATTTT
1 TGCGATTTT
16760 CATTCTCGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
14 10 0.20
16 3 0.06
17 3 0.06
19 22 0.45
20 11 0.22
ACGTcount: A:0.10, C:0.17, G:0.23, T:0.49
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:17279 original size:20 final size:20
Alignment explanation
Indices: 17254--17306 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
17244 GCGCTAAGTA
17254 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
17274 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
17294 TATCTCGTTGCGA
1 AATCGCGTTGCGA
17307 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:17340 original size:20 final size:20
Alignment explanation
Indices: 17315--17368 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
17305 GATTTTGTAT
17315 TATTGCATTGCGATAGTAAG
1 TATTGCATTGCGATAGTAAG
*
17335 TATTGCATTGCGATAGTCAG
1 TATTGCATTGCGATAGTAAG
*
17355 TATCGCATTGCGAT
1 TATTGCATTGCGAT
17369 TTTCCCAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (20 bp):
TATTGCATTGCGATAGTAAG
Found at i:17387 original size:61 final size:61
Alignment explanation
Indices: 17256--17389 Score: 137
Period size: 61 Copynumber: 2.2 Consensus size: 61
17246 GCTAAGTAAA
* * * * * **
17256 TCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATTAT
1 TCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCA-TAT
* * * *
17318 T-GCATTGCGATAGTAAGTATTGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCA-AT
1 TCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCATAT
17378 TCGCGTTGCGAT
1 TCGCGTTGCGAT
17390 TTACTTATTC
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
60 3 0.05
61 53 0.91
62 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (61 bp):
TCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCATAT
Found at i:17479 original size:21 final size:21
Alignment explanation
Indices: 17439--17479 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17429 ATTGTATACC
**
17439 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
17460 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
17480 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:17713 original size:2 final size:2
Alignment explanation
Indices: 17706--17743 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
17696 TAAATGTTGC
17706 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
17744 CAAAATTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20091 original size:3 final size:3
Alignment explanation
Indices: 20085--20161 Score: 109
Period size: 3 Copynumber: 25.7 Consensus size: 3
20075 TTTTTATCCA
* ** *
20085 TAT TAT TAT TAT TAA TAT TAT TAT TAT CCT TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
20133 TAT CAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
20162 ATTTATATTA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:20103 original size:12 final size:12
Alignment explanation
Indices: 20088--20172 Score: 93
Period size: 12 Copynumber: 7.0 Consensus size: 12
20078 TTATCCATAT
20088 TATTATTATTAA
1 TATTATTATTAA
*
20100 TATTATTATTATCCT
1 TATTATTATTA---A
20115 TATTATTATTAA
1 TATTATTATTAA
* *
20127 TATTATTATCAT
1 TATTATTATTAA
*
20139 TATTATTATTAT
1 TATTATTATTAA
20151 TATTATTATTAA
1 TATTATTATTAA
20163 T-TTA-TATTAA
1 TATTATTATTAA
20173 ATATATTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
10 6 0.09
11 3 0.05
12 44 0.69
15 11 0.17
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:20431 original size:22 final size:22
Alignment explanation
Indices: 20403--20455 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
20393 ATACCCTAGG
20403 GCCACGCGGCGCCGCCCCAGCA
1 GCCACGCGGCGCCGCCCCAGCA
20425 GCCACGCGGCGCCGCCCCAGCA
1 GCCACGCGGCGCCGCCCCAGCA
20447 GCCACGCGG
1 GCCACGCGG
20456 TTGCCGACAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.13, C:0.53, G:0.34, T:0.00
Consensus pattern (22 bp):
GCCACGCGGCGCCGCCCCAGCA
Found at i:32997 original size:14 final size:14
Alignment explanation
Indices: 32978--33015 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
32968 GCTTGAAGAG
32978 AATAGAGAAAAAAA
1 AATAGAGAAAAAAA
32992 AATAGA-AAAAAAA
1 AATAGAGAAAAAAA
*
33005 AAGA-AGAAAAA
1 AATAGAGAAAAA
33016 GAAAGGGGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 1 0.05
13 15 0.68
14 6 0.27
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (14 bp):
AATAGAGAAAAAAA
Found at i:34224 original size:83 final size:83
Alignment explanation
Indices: 34123--34856 Score: 1355
Period size: 83 Copynumber: 8.9 Consensus size: 83
34113 ATATCCCAGT
*
34123 TCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATC
1 TCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
34188 TGATCTGATTGGACAGAA
66 TGATCTGATTGGACAGAA
34206 TCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 TCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
34271 TGATCTGATTGGACAGAA
66 TGATCTGATTGGACAGAA
*
34289 TCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATC
1 TCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
34354 TGATCTGATTGGACAGAA
66 TGATCTGATTGGACAGAA
*
34372 TCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATC
1 TCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
34437 TGATCTGATTGGACAGAA
66 TGATCTGATTGGACAGAA
34455 TCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 TCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
34520 TGATCTGATTGGACAGAA
66 TGATCTGATTGGACAGAA
*
34538 TCAAGCATTGAA-TTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATC
1 TCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
34602 TGATCTGATTGGACAGAA
66 TGATCTGATTGGACAGAA
34620 TCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 TCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
34685 TGATCTGATTGGACAGAA
66 TGATCTGATTGGACAGAA
*
34703 TCAAGCATTGAATTTGGAAGATGAATTTGCCAATATCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 TCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
* *
34768 TGATTTGGTTGGACA-AA
66 TGATCTGATTGGACAGAA
* *
34785 ACAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 TCAAGCATTGAATTTGGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
*
34850 TTGATCT
65 CTGATCT
34857 AAAGAAGTGC
Statistics
Matches: 636, Mismatches: 13, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
82 111 0.17
83 525 0.83
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (83 bp):
TCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
TGATCTGATTGGACAGAA
Found at i:35621 original size:113 final size:113
Alignment explanation
Indices: 35440--36854 Score: 2516
Period size: 113 Copynumber: 12.5 Consensus size: 113
35430 ATTACCAGAT
35440 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
35505 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
66 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
35553 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
35618 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
66 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
35666 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
35731 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
66 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
35779 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
35844 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
66 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
*
35892 AAGTTCATAATGAGAAAAACTCATCTGAAG-AAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
35956 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
66 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
36004 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
36069 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAG-
66 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
*
36116 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAATAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
36181 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
66 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
36229 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
36294 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
66 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
36342 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
36407 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
66 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
*
36455 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * *
36520 CAATTTTTTGTTTAAATTCATCATTTGATGGATCAACATTTCCAGAGA
66 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
* * * *
36568 AGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* *** * *
36633 CAACCTTTTACCTGAATCCATCATTTGGTGAATCATCTTTTCCAGAGA
66 CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
* *
36681 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * * * *
36746 CAACCTTTTGCTTGAATTCATCATTTGATGGATCAAT-ATTGCCAG-GTA
66 CAACTTTTTGTTTAAATTCATCATTTGGTGAATC-ATCTTTTCCAGAG-A
*
36794 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGAAAGTTCATAATGAGAAGAACT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAG-AAGTTCATAATGAGAAGAACT
36855 CATCAAGAGC
Statistics
Matches: 1263, Mismatches: 34, Indels: 10
0.97 0.03 0.01
Matches are distributed among these distances:
112 225 0.18
113 1036 0.82
114 2 0.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.31
Consensus pattern (113 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACTTTTTGTTTAAATTCATCATTTGGTGAATCATCTTTTCCAGAGA
Found at i:37111 original size:3 final size:3
Alignment explanation
Indices: 37105--37193 Score: 133
Period size: 3 Copynumber: 29.7 Consensus size: 3
37095 TTTTTATCCA
* ** *
37105 TAT TAT TAT TAT TAA TAT TAT TAT TAT CCT TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
37153 TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
37194 ATTTATATTA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:37123 original size:12 final size:12
Alignment explanation
Indices: 37108--37204 Score: 108
Period size: 12 Copynumber: 8.0 Consensus size: 12
37098 TTATCCATAT
37108 TATTATTATTAA
1 TATTATTATTAA
*
37120 TATTATTATTATCCT
1 TATTATTATTA---A
37135 TATTATTATTAA
1 TATTATTATTAA
* *
37147 TATTATTATCAT
1 TATTATTATTAA
*
37159 TATTATTATTAT
1 TATTATTATTAA
*
37171 TATTATTATTAT
1 TATTATTATTAA
37183 TATTATTATTAA
1 TATTATTATTAA
37195 T-TTA-TATTAA
1 TATTATTATTAA
37205 ATATATTAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
10 6 0.08
11 3 0.04
12 56 0.74
15 11 0.14
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:50406 original size:7 final size:7
Alignment explanation
Indices: 50384--50519 Score: 57
Period size: 7 Copynumber: 19.1 Consensus size: 7
50374 GCCTGAAAAG
50384 AAATGAAA
1 AAAT-AAA
50392 AAAT-AA
1 AAATAAA
50398 AAATAAA
1 AAATAAA
*
50405 AAAAAAGA
1 AAATAA-A
50413 TAAATAAA
1 -AAATAAA
50421 AAATAAA
1 AAATAAA
*
50428 AAA-AGGA
1 AAATA-AA
*
50435 AAA-AGA
1 AAATAAA
50441 AAA-AAA
1 AAATAAA
**
50447 AAGGAAA
1 AAATAAA
**
50454 AAGGAAA
1 AAATAAA
50461 AAGGA-AAA
1 AA--ATAAA
*
50469 AAATGAA
1 AAATAAA
*
50476 AAATGAA
1 AAATAAA
*
50483 AAATGAA
1 AAATAAA
*
50490 AAATGAA
1 AAATAAA
*
50497 AAATGAA
1 AAATAAA
*
50504 AAATGAA
1 AAATAAA
50511 AAATGAAA
1 AAAT-AAA
50519 A
1 A
50520 TGGAAAATGG
Statistics
Matches: 111, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
6 17 0.15
7 75 0.68
8 14 0.13
9 5 0.05
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (7 bp):
AAATAAA
Found at i:50410 original size:16 final size:16
Alignment explanation
Indices: 50389--50485 Score: 56
Period size: 16 Copynumber: 6.1 Consensus size: 16
50379 AAAAGAAATG
*
50389 AAAAAATAAAAATAAA
1 AAAAAAGAAAAATAAA
*
50405 AAAAAAGATAAATAAA
1 AAAAAAGAAAAATAAA
**
50421 AAATAAA-AAAAGGAAA
1 AAA-AAAGAAAAATAAA
* **
50437 AAGAAA-AAAAA-AGG
1 AAAAAAGAAAAATAAA
* **
50451 AAAAAGGAAAAAGGAA
1 AAAAAAGAAAAATAAA
*
50467 AAAAATGAAAAATGAAA
1 AAAAAAGAAAAAT-AAA
50484 AA
1 AA
50486 TGAAAAATGA
Statistics
Matches: 60, Mismatches: 17, Indels: 7
0.71 0.20 0.08
Matches are distributed among these distances:
14 5 0.08
15 12 0.20
16 36 0.60
17 7 0.12
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (16 bp):
AAAAAAGAAAAATAAA
Found at i:50443 original size:21 final size:21
Alignment explanation
Indices: 50390--50564 Score: 83
Period size: 23 Copynumber: 7.8 Consensus size: 21
50380 AAAGAAATGA
* *
50390 AAAAATAAAAATAAAAAAAAAG
1 AAAAAGAAAAAT-AAAAAAAGG
50412 ATAAATA-AAAAATAAAAAAAGG
1 A-AAA-AGAAAAATAAAAAAAGG
*
50434 AAAAAGAAAAAAAAAGGAAAAAGG
1 AAAAAG-AAAAATAA--AAAAAGG
*
50458 AAAAAGGAAAAA-AATGAAAAATG
1 AAAAA-GAAAAATAA--AAAAAGG
* *
50481 AAAAATGAAAAAT-GAAAAATG
1 AAAAA-GAAAAATAAAAAAAGG
50502 AAAAATGAAAAATGAAAATGGAAAATGG
1 AAAAA-GAAAAAT--AAA---AAAA-GG
*
50530 AAAAAGAAAAA-AGAAAAA--
1 AAAAAGAAAAATAAAAAAAGG
50548 AAAAAGAAGAAATAAAA
1 AAAAAGAA-AAATAAAA
50565 GGAGGGTTCA
Statistics
Matches: 126, Mismatches: 10, Indels: 36
0.73 0.06 0.21
Matches are distributed among these distances:
18 8 0.06
19 3 0.02
20 4 0.03
21 27 0.21
22 17 0.13
23 29 0.23
24 21 0.17
25 1 0.01
27 10 0.08
28 6 0.05
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (21 bp):
AAAAAGAAAAATAAAAAAAGG
Found at i:50449 original size:17 final size:18
Alignment explanation
Indices: 50425--50462 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
50415 AATAAAAAAT
50425 AAAAAAAGGAAAAA-GAA
1 AAAAAAAGGAAAAAGGAA
50442 AAAAAAAGGAAAAAGGAA
1 AAAAAAAGGAAAAAGGAA
50460 AAA
1 AAA
50463 GGAAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAAAAAGGAAAAAGGAA
Found at i:50478 original size:17 final size:16
Alignment explanation
Indices: 50418--50485 Score: 59
Period size: 16 Copynumber: 4.3 Consensus size: 16
50408 AAAGATAAAT
*
50418 AAAAAATAAAAAAAGG
1 AAAAAAAAAAAAAAGG
50434 AAAAAGAAAAAAAAAGG
1 AAAAA-AAAAAAAAAGG
**
50451 --AAAAAGGAAAAAGG
1 AAAAAAAAAAAAAAGG
** *
50465 AAAAAAATGAAAAATG
1 AAAAAAAAAAAAAAGG
50481 AAAAA
1 AAAAA
50486 TGAAAAATGA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
14 9 0.20
15 3 0.07
16 22 0.50
17 10 0.23
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.04
Consensus pattern (16 bp):
AAAAAAAAAAAAAAGG
Found at i:50525 original size:7 final size:7
Alignment explanation
Indices: 50444--50547 Score: 122
Period size: 7 Copynumber: 14.7 Consensus size: 7
50434 AAAAAGAAAA
*
50444 AAAAAGG
1 AAAAATG
*
50451 AAAAAGG
1 AAAAATG
*
50458 AAAAAGG
1 AAAAATG
50465 AAAAAAATG
1 --AAAAATG
50474 AAAAATG
1 AAAAATG
50481 AAAAATG
1 AAAAATG
50488 AAAAATG
1 AAAAATG
50495 AAAAATG
1 AAAAATG
50502 AAAAATG
1 AAAAATG
50509 AAAAATG
1 AAAAATG
50516 -AAAATG
1 AAAAATG
*
50522 GAAAATGG
1 AAAAAT-G
50530 AAAAA-G
1 AAAAATG
*
50536 AAAAAAG
1 AAAAATG
50543 AAAAA
1 AAAAA
50548 AAAAAGAAGA
Statistics
Matches: 90, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
6 12 0.13
7 67 0.74
8 5 0.06
9 6 0.07
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (7 bp):
AAAAATG
Found at i:50549 original size:8 final size:7
Alignment explanation
Indices: 50405--50559 Score: 81
Period size: 7 Copynumber: 22.4 Consensus size: 7
50395 TAAAAATAAA
50405 AAAAAAG
1 AAAAAAG
50412 ATAAATAA-
1 A-AAA-AAG
*
50420 AAAATA-
1 AAAAAAG
50426 AAAAAAG
1 AAAAAAG
*
50433 GAAAAAG
1 AAAAAAG
50440 --AAAA-
1 AAAAAAG
*
50444 AAAAAGG
1 AAAAAAG
*
50451 AAAAAGG
1 AAAAAAG
*
50458 AAAAAGG
1 AAAAAAG
50465 AAAAAAATG
1 -AAAAAA-G
*
50474 AAAAATG
1 AAAAAAG
*
50481 AAAAATG
1 AAAAAAG
*
50488 AAAAATG
1 AAAAAAG
*
50495 AAAAATG
1 AAAAAAG
*
50502 AAAAATG
1 AAAAAAG
*
50509 AAAAATG
1 AAAAAAG
*
50516 -AAAATG
1 AAAAAAG
* *
50522 GAAAATG
1 AAAAAAG
*
50529 GAAAAAG
1 AAAAAAG
50536 AAAAAAG
1 AAAAAAG
50543 AAAAAA-
1 AAAAAAG
50549 AAAAGAAG
1 AAAA-AAG
50557 AAA
1 AAA
50560 TAAAAGGAGG
Statistics
Matches: 129, Mismatches: 8, Indels: 21
0.82 0.05 0.13
Matches are distributed among these distances:
5 4 0.03
6 19 0.15
7 86 0.67
8 17 0.13
9 3 0.02
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (7 bp):
AAAAAAG
Found at i:50564 original size:14 final size:13
Alignment explanation
Indices: 50379--50564 Score: 59
Period size: 14 Copynumber: 12.9 Consensus size: 13
50369 ATTTCGCCTG
50379 AAAAGAAATGAAAAA
1 AAAAGAAA--AAAAA
*
50394 ATAAA-AATAAAAA
1 A-AAAGAAAAAAAA
* *
50407 AAAAGATAAATAA
1 AAAAGAAAAAAAA
*
50420 AAAATAAAAAAAGGA
1 AAAAGAAAAAAA--A
50435 AAAAGAAAAAAAAAGGA
1 AAAAG--AAAAAAA--A
50452 AAAAGGAAAAAGGAAA
1 AAAA-GAAAAA--AAA
*
50468 AAAATGAAAAATGAA
1 AAAA-GAAAAA-AAA
* *
50483 AAATGAAAAATGAA
1 AAAAGAAAAA-AAA
* *
50497 AAATGAAAAATGAA
1 AAAAGAAAAA-AAA
* **
50511 AAATGAAAATGGAA
1 AAAAGAAAA-AAAA
** *
50525 AATGGAAAAAGAA
1 AAAAGAAAAAAAA
50538 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
50551 AAGAAGAAATAAAA
1 AA-AAGAAA-AAAA
50565 GGAGGGTTCA
Statistics
Matches: 140, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
12 3 0.02
13 35 0.25
14 49 0.35
15 17 0.12
16 19 0.14
17 14 0.10
18 3 0.02
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.09
Consensus pattern (13 bp):
AAAAGAAAAAAAA
Found at i:51891 original size:37 final size:36
Alignment explanation
Indices: 51837--51908 Score: 117
Period size: 37 Copynumber: 2.0 Consensus size: 36
51827 AAACAGGTCA
51837 ATCTTAAGCCTTCACGGAAGAGTAGTAAAGCAAACC
1 ATCTTAAGCCTTCACGGAAGAGTAGTAAAGCAAACC
* *
51873 ATCTGTAAGCCTTCACGGAAGATTAGTGAAGCAAAC
1 ATCT-TAAGCCTTCACGGAAGAGTAGTAAAGCAAAC
51909 TCATTTTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
36 4 0.12
37 29 0.88
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (36 bp):
ATCTTAAGCCTTCACGGAAGAGTAGTAAAGCAAACC
Found at i:52109 original size:55 final size:54
Alignment explanation
Indices: 51923--52227 Score: 292
Period size: 51 Copynumber: 5.6 Consensus size: 54
51913 TTTATGAAAA
* *
51923 TCGAGTCATATATACTCTATGAAGGAATAGGGAGCGGACACAT-TTTA-TGAAGA---
1 TCGAGTC-T-TATACTCTCTGAAGGAATAGGGAGCAGAC-C-TGTTTATTGAAGATTT
* ** * *
51976 TCGAGTCTTATACTCTCTAAAGGAATAGGGAGCAGACAAGTTTGTTAAAGA--T
1 TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACCTGTTTATTGAAGATTT
*
52028 T-GAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACCTGTTTATTGAAGATTT
1 TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACCTGTTTATTGAAGATTT
* *
52081 TCCGAGT-TCTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTTATTGAAGATTGT
1 T-CGAGTCT-TATACTCTCTGAAGGAATAGGGAGCAGACCTG-TTTATTGAAGATT-T
* * * *
52138 TCAAGTCTTATACTCTCTGAATGAATAGAGAGCATACACAT-TTTA-TGAAGATTGT
1 TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGAC-C-TGTTTATTGAAGATT-T
52193 TCGAGTCTTATACT-TCCTGAAGGAATAGGGAGCAG
1 TCGAGTCTTATACTCT-CTGAAGGAATAGGGAGCAG
52228 GCTCGTCATT
Statistics
Matches: 214, Mismatches: 24, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
50 3 0.01
51 74 0.35
52 2 0.01
53 9 0.04
54 2 0.01
55 72 0.34
56 48 0.22
57 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (54 bp):
TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACCTGTTTATTGAAGATTT
Found at i:52190 original size:111 final size:109
Alignment explanation
Indices: 51933--52255 Score: 362
Period size: 111 Copynumber: 3.0 Consensus size: 109
51923 TCGAGTCATA
* *
51933 TATACTCTATGAAGGAATAGGGAGCGGACACATTTTATGAAGA---TCGAGTCTTATACTCTCTA
1 TATACTCTCTGAAGGAATAGGGAGCGGACACATTTTATGAAGATTTTCGAGTCTTATACTCTCTG
* * *
51995 AAGGAATAGGGAGCAGACAAGTTTGTTAAAGATTG----AGTCT
66 AAGGAATAGGGAGCAGACACGTTTTTTGAAGATTGTTCAAGTCT
52035 TATACTCTCTGAAGGAATAGGGAGCGGAC-C-TGTTTATTGAAGATTTTCCGAGT-TCTATACTC
1 TATACTCTCTGAAGGAATAGGGAGCGGACACAT-TTTA-TGAAGATTTT-CGAGTCT-TATACTC
* *
52097 TCTGAAGGAATAGAGAGCAGACCCGTTTTATTGAAGATTGTTCAAGTCT
62 TCTGAAGGAATAGGGAGCAGACACGTTTT-TTGAAGATTGTTCAAGTCT
* * **
52146 TATACTCTCTGAATGAATAGAGAGCATACACATTTTATGAAGATTGTTCGAGTCTTATACT-TCC
1 TATACTCTCTGAAGGAATAGGGAGCGGACACATTTTATGAAGATT-TTCGAGTCTTATACTCT-C
* * ** *
52210 TGAAGGAATAGGGAGCAGGCTCGTCATTTGAAGATTTTTCAAGTCT
64 TGAAGGAATAGGGAGCAGACACGTTTTTTGAAGATTGTTCAAGTCT
52256 CATTTATCCC
Statistics
Matches: 187, Mismatches: 17, Indels: 26
0.81 0.07 0.11
Matches are distributed among these distances:
100 1 0.01
101 5 0.03
102 34 0.18
105 2 0.01
106 36 0.19
107 9 0.05
110 19 0.10
111 72 0.39
112 8 0.04
113 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.32
Consensus pattern (109 bp):
TATACTCTCTGAAGGAATAGGGAGCGGACACATTTTATGAAGATTTTCGAGTCTTATACTCTCTG
AAGGAATAGGGAGCAGACACGTTTTTTGAAGATTGTTCAAGTCT
Found at i:52245 original size:55 final size:54
Alignment explanation
Indices: 51976--52227 Score: 259
Period size: 55 Copynumber: 4.6 Consensus size: 54
51966 TTTATGAAGA
* * * * *
51976 TCGAGTCTTATACTCTCTAAAGGAATAGGGAGCAGACAAGTTTGTTAAAGA---T
1 TCGAGTCTTATACTCTCTGAAGGAATAGAGAGCAGAC-CGTTTATTGAAGATTGT
* *
52028 T-GAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACCTGTTTATTGAAGATT-T
1 TCGAGTCTTATACTCTCTGAAGGAATAGAGAGCAGACC-GTTTATTGAAGATTGT
52081 TCCGAGT-TCTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTTATTGAAGATTGT
1 T-CGAGTCT-TATACTCTCTGAAGGAATAGAGAGCAGA-CCG-TTTATTGAAGATTGT
* * * *
52138 TCAAGTCTTATACTCTCTGAATGAATAGAGAGCATACACATTT-TATGAAGATTGT
1 TCGAGTCTTATACTCTCTGAAGGAATAGAGAGCAGAC-CGTTTAT-TGAAGATTGT
*
52193 TCGAGTCTTATACT-TCCTGAAGGAATAGGGAGCAG
1 TCGAGTCTTATACTCT-CTGAAGGAATAGAGAGCAG
52228 GCTCGTCATT
Statistics
Matches: 172, Mismatches: 15, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
51 43 0.25
52 1 0.01
53 2 0.01
54 3 0.02
55 74 0.43
56 46 0.27
57 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (54 bp):
TCGAGTCTTATACTCTCTGAAGGAATAGAGAGCAGACCGTTTATTGAAGATTGT
Found at i:52255 original size:55 final size:54
Alignment explanation
Indices: 51979--52255 Score: 248
Period size: 55 Copynumber: 5.1 Consensus size: 54
51969 ATGAAGATCG
* * * * *
51979 AGTCTTATACTCTCTAAAGGAATAGGGAGCAGACAAGTTTGTTAAAGATTG----
1 AGTCTTATACTCTCTGAAGGAATAGAGAGCAGAC-CGTTTATTGAAGATTGTTCA
* * *
52030 AGTCTTATACTCTCTGAAGGAATAGGGAGCGGACCTGTTTATTGAAGATT-TTCCG
1 AGTCTTATACTCTCTGAAGGAATAGAGAGCAGACC-GTTTATTGAAGATTGTT-CA
52085 AGT-TCTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTTATTGAAGATTGTTCA
1 AGTCT-TATACTCTCTGAAGGAATAGAGAGCAGA-CCG-TTTATTGAAGATTGTTCA
* * * *
52141 AGTCTTATACTCTCTGAATGAATAGAGAGCATACACATTT-TATGAAGATTGTTCG
1 AGTCTTATACTCTCTGAAGGAATAGAGAGCAGAC-CGTTTAT-TGAAGATTGTTCA
* * * *
52196 AGTCTTATACT-TCCTGAAGGAATAGGGAGCAGGCTCG-TCATTTGAAGATTTTTCA
1 AGTCTTATACTCT-CTGAAGGAATAGAGAGCAGAC-CGTTTA-TTGAAGATTGTTCA
52251 AGTCT
1 AGTCT
52256 CATTTATCCC
Statistics
Matches: 189, Mismatches: 21, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
51 44 0.23
54 4 0.02
55 91 0.48
56 47 0.25
57 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (54 bp):
AGTCTTATACTCTCTGAAGGAATAGAGAGCAGACCGTTTATTGAAGATTGTTCA
Found at i:57723 original size:13 final size:13
Alignment explanation
Indices: 57705--57730 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57695 CTTAATTACC
57705 TTTTCCTTTACTT
1 TTTTCCTTTACTT
57718 TTTTCCTTTACTT
1 TTTTCCTTTACTT
57731 AATTTTCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTCCTTTACTT
Done.