Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1269
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: 29880
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Found at i:640 original size:13 final size:13
Alignment explanation
Indices: 622--647 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
612 CAATTTTTTG
622 TGTATCGATACAT
1 TGTATCGATACAT
635 TGTATCGATACAT
1 TGTATCGATACAT
648 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:712 original size:21 final size:21
Alignment explanation
Indices: 686--761 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
676 CTGCCAAGAA
*
686 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
707 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
727 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
748 ATGTATCGATACAT
1 ATGTATCGATACAT
762 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:732 original size:20 final size:20
Alignment explanation
Indices: 707--779 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
697 CATCTTTTTT
707 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
727 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
748 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
768 ATGTATCGATAC
1 ATGTATCGATAC
780 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:743 original size:41 final size:41
Alignment explanation
Indices: 686--779 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
676 CTGCCAAGAA
*
686 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
727 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
768 ATGTATCGATAC
1 ATGTATCGATAC
780 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1422 original size:16 final size:16
Alignment explanation
Indices: 1398--1433 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1388 CCCCCGTTTA
*
1398 TTAATAAATCTCCCCC
1 TTAAAAAATCTCCCCC
1414 TTAAAAAATCTCCCCC
1 TTAAAAAATCTCCCCC
1430 TTAA
1 TTAA
1434 TCAAGTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (16 bp):
TTAAAAAATCTCCCCC
Found at i:3269 original size:13 final size:13
Alignment explanation
Indices: 3251--3288 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
3241 ATAATCACCC
3251 TGTATCGATACAG
1 TGTATCGATACAG
*
3264 TGTATCGATACAT
1 TGTATCGATACAG
3277 TGTATCGATACA
1 TGTATCGATACA
3289 ACAAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:3302 original size:20 final size:20
Alignment explanation
Indices: 3277--3353 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
3267 ATCGATACAT
3277 TGTATCGATACAACAAAAAA
1 TGTATCGATACAACAAAAAA
* * *
3297 TGTATCGATACATAGAATTTCCAGA
1 TGTATCGATACA-ACAA----AAAA
3322 TGTATCGATAC-ACAAAAACA
1 TGTATCGATACAACAAAAA-A
3342 TGTATCGATACA
1 TGTATCGATACA
3354 TTTGGACATT
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
19 1 0.02
20 24 0.55
21 3 0.07
23 3 0.07
25 13 0.30
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAACAAAAAA
Found at i:5387 original size:15 final size:15
Alignment explanation
Indices: 5367--5397 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5357 ATTTCGTTTG
*
5367 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
5382 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
5397 G
1 G
5398 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:9571 original size:20 final size:20
Alignment explanation
Indices: 9546--9618 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
9536 ATCTTTTTTT
9546 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
9566 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
9587 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
9607 ATGTATCGATAC
1 ATGTATCGATAC
9619 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:9597 original size:41 final size:42
Alignment explanation
Indices: 9524--9618 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
9514 CTGCCAAGAA
*
9524 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
9566 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
9607 ATGTATCGATAC
1 ATGTATCGATAC
9619 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:10406 original size:1 final size:1
Alignment explanation
Indices: 10402--10428 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
10392 GGTTTTTCCC
10402 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
10429 GTGAAGAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:10492 original size:17 final size:17
Alignment explanation
Indices: 10470--10506 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
10460 CTCACCGAGA
*
10470 TTTTCTGTTTTGTTTTT
1 TTTTCTGTTTTCTTTTT
*
10487 TTTTCTTTTTTCTTTTT
1 TTTTCTGTTTTCTTTTT
10504 TTT
1 TTT
10507 GTGTTTGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.86
Consensus pattern (17 bp):
TTTTCTGTTTTCTTTTT
Found at i:17748 original size:52 final size:52
Alignment explanation
Indices: 17678--17798 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
17668 GAAAATTTAT
*
17678 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
17730 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
17782 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
17799 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:17811 original size:52 final size:51
Alignment explanation
Indices: 17678--17818 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
17668 GAAAATTTAT
17678 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
17730 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
17782 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
17819 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:17825 original size:13 final size:13
Alignment explanation
Indices: 17807--17831 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17797 CAAAGATCAG
17807 TGTATCGATACAA
1 TGTATCGATACAA
17820 TGTATCGATACA
1 TGTATCGATACA
17832 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:17918 original size:13 final size:13
Alignment explanation
Indices: 17900--17924 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17890 AAAAAAAATA
17900 TGTATCGATACAT
1 TGTATCGATACAT
17913 TGTATCGATACA
1 TGTATCGATACA
17925 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:18924 original size:49 final size:49
Alignment explanation
Indices: 18871--19578 Score: 927
Period size: 49 Copynumber: 14.6 Consensus size: 49
18861 GATGTCAACG
* *
18871 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* *
18920 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTT--AAA-GATGAAGATGCCAATA
* * * *
18972 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* * *
19021 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* * * *
19070 TGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* * *
19119 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* * * *
19168 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* * *
19217 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* * * *
19266 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* * *
19315 TGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* * *
19364 TGCTGATTCAATGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
*
19407 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* * *
19456 TGCTGATTCAGGGCCAGCTATATTGGGCTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* *
19499 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAGA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
*
19548 TGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTA
19579 GAAGGGTTGC
Statistics
Matches: 566, Mismatches: 78, Indels: 30
0.84 0.12 0.04
Matches are distributed among these distances:
43 68 0.12
44 6 0.01
45 2 0.00
46 4 0.01
47 2 0.00
48 6 0.01
49 427 0.75
50 3 0.01
51 3 0.01
52 45 0.08
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
Found at i:19106 original size:98 final size:98
Alignment explanation
Indices: 18871--19583 Score: 1099
Period size: 98 Copynumber: 7.4 Consensus size: 98
18861 GATGTCAACG
* * * * * * *
18871 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
* *
18936 GCGATATTGGACTTAAAAATGATGATGATGCCAATA
66 GCTACATTGGACTT--AAA-GATGATGATGCCAATA
18972 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
19037 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
*
19070 TGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
19135 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
19168 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
19233 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
*
19266 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGTTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
*
19331 GCTACATTGGACTTAAAGATGAAGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
* *
19364 TGCTGATTCAATGCCAGCGATATTGGACTT--A----AAGGTGCCAATGTGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
*
19423 GCTACATTGGACTTAAAGATGAAGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
* * * *
19456 TGCTGATTCAGGGCCAGCTATATTGGGCTT--A----AAGGTGCCAATGTGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
* *
19515 GCTACATTGGACTTAAAGATGAAGATGCCAAGA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
* *
19548 TGCTGATTCAAGGCCAGCTATATTGGGCTTAGAAGG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGG
19584 GTTGCCATCG
Statistics
Matches: 585, Mismatches: 22, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
92 175 0.30
95 1 0.00
96 1 0.00
98 335 0.57
99 3 0.01
101 70 0.12
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (98 bp):
TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
GCTACATTGGACTTAAAGATGATGATGCCAATA
Found at i:19663 original size:67 final size:68
Alignment explanation
Indices: 19578--19852 Score: 461
Period size: 67 Copynumber: 4.1 Consensus size: 68
19568 TATTGGGCTT
*
19578 AGAAGGG-TTGCCATCGACTTGTGTGGGCTTTAGAGAATGG-TTGCCACCAACTTGTGTGGGCTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTTGCCACCAACTTGTGTGGGCTT
*
19641 TGG
66 TAG
* *
19644 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGCTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTTGCCACCAACTTGTGTGGGCTT
19709 TAG
66 TAG
19712 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAATGG-TTGCCACCAACTTGTGTGGGCTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTTGCCACCAACTTGTGTGGGCTT
*
19776 TGG
66 TAG
*
19779 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAA-GGTTTGCCACCGACTTGTGTGGGCTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTTGCCACCAACTTGTGTGGGCTT
19843 TAG
66 TAG
19846 A-AAGGGT
1 AGAAGGGT
19853 GAAAGATGCC
Statistics
Matches: 197, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
66 15 0.08
67 118 0.60
68 64 0.32
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.29
Consensus pattern (68 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTTGCCACCAACTTGTGTGGGCTT
TAG
Found at i:19665 original size:34 final size:34
Alignment explanation
Indices: 19578--19852 Score: 452
Period size: 34 Copynumber: 8.2 Consensus size: 34
19568 TATTGGGCTT
*
19578 AGAAGGG-TTGCCATCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
* * *
19611 AGAATGG-TTGCCACCAACTTGTGTGGGCTTTGG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
19644 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
19678 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
19712 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
* * *
19746 AGAATGG-TTGCCACCAACTTGTGTGGGCTTTGG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
19779 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
19813 AGAA-GGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
19846 A-AAGGGT
1 AGAAGGGT
19853 GAAAGATGCC
Statistics
Matches: 226, Mismatches: 13, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
32 2 0.01
33 98 0.43
34 126 0.56
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.29
Consensus pattern (34 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:20043 original size:34 final size:34
Alignment explanation
Indices: 19854--20324 Score: 533
Period size: 34 Copynumber: 13.8 Consensus size: 34
19844 AGAAAGGGTG
* * *
19854 AAAGATGCCACGAAGTTGTGGAC-TTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
19887 CAAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
19920 CAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAA-AG-AA
**
19956 AAGAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAA
1 AA-AG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* * *
19992 AAAGTGTGCCACAGAGTTGTGGGCTTTAAGATGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
20027 AAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
20061 GAAGGTGCCACGGAGTTGTGGGCTTT--AAAGGA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
20093 AAAGGTGCCACGAAGTTGTGGAC-TTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
20126 CAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAA-AG-AA
**
20162 AAGAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAA
1 AA-AG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* * *
20198 AAAGTGTGCCACAGAGTTGTGGGCTTTAAGATGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
20233 AAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
20267 GAAGGTGCCACGGAGTTGTGGGCTTT--AAAGGA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
*
20299 AAAGGTGCCACGAAGTTGTGGGCTTT
1 AAAGGTGCCACGGAGTTGTGGGCTTT
20325 GAAGAAAAAA
Statistics
Matches: 379, Mismatches: 47, Indels: 25
0.84 0.10 0.06
Matches are distributed among these distances:
31 2 0.01
32 54 0.14
33 77 0.20
34 112 0.30
35 66 0.17
36 14 0.04
37 6 0.02
38 48 0.13
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (34 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
Found at i:20119 original size:206 final size:206
Alignment explanation
Indices: 19859--20319 Score: 868
Period size: 206 Copynumber: 2.2 Consensus size: 206
19849 GGGTGAAAGA
* * * * *
19859 TGCCACGAAGTTGTGGACTTAAAAAGAACAAGGTGCCACGGAGTTGTGGACTTAAAAAGAACAAG
1 TGCCACGGAGTTGTGGGCTTTAAAGGAA-AAGGTGCCACGAAGTTGTGGACTTAAAAAGAACAAG
19924 GTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGAGTGCCACAAAGTTGTGGGCTTTAAAAA
65 GTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGAGTGCCACAAAGTTGTGGGCTTTAAAAA
19989 GAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTG
130 GAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTG
20054 AAAAGAAGAAGG
195 AAAAGAAGAAGG
20066 TGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGAAGTTGTGGACTTAAAAAGAACAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGAAGTTGTGGACTTAAAAAGAACAAGG
20131 TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGAGTGCCACAAAGTTGTGGGCTTTAAAAAG
66 TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGAGTGCCACAAAGTTGTGGGCTTTAAAAAG
20196 AAAAAGTGTGCCACAGAGTTGTGGGCTTTAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTGA
131 AAAAAGTGTGCCACAGAGTTGTGGGCTTTAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTGA
20261 AAAGAAGAAGG
196 AAAGAAGAAGG
20272 TGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGAAGTTGTGG
1 TGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGAAGTTGTGG
20320 GCTTTGAAGA
Statistics
Matches: 249, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
206 225 0.90
207 24 0.10
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.21
Consensus pattern (206 bp):
TGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGAAGTTGTGGACTTAAAAAGAACAAGG
TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGAGTGCCACAAAGTTGTGGGCTTTAAAAAG
AAAAAGTGTGCCACAGAGTTGTGGGCTTTAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTGA
AAAGAAGAAGG
Found at i:21310 original size:1 final size:1
Alignment explanation
Indices: 21306--21331 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
21296 GGTTTTTCCC
21306 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
21332 GTGAAGAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:21395 original size:17 final size:17
Alignment explanation
Indices: 21373--21409 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
21363 CTCACCGAGA
*
21373 TTTTCTGTTTTGTTTTT
1 TTTTCTGTTTTCTTTTT
*
21390 TTTTCTTTTTTCTTTTT
1 TTTTCTGTTTTCTTTTT
21407 TTT
1 TTT
21410 GTGTTTGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.86
Consensus pattern (17 bp):
TTTTCTGTTTTCTTTTT
Found at i:22440 original size:55 final size:55
Alignment explanation
Indices: 22374--22546 Score: 265
Period size: 55 Copynumber: 3.1 Consensus size: 55
22364 GTTGGTGGCA
22374 TCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
1 TCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* *
22429 TCCTCAAAGAGCAGGACACCTCTTAACGCCCACACAAGTTGGTGGCACCTTTCAG
1 TCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* * * * * * *
22484 TCCTCAAAAACCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAG
1 TCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
22539 TCCTCAAA
1 TCCTCAAA
22547 AAGTAGAATA
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 107 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (55 bp):
TCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
Found at i:22708 original size:42 final size:43
Alignment explanation
Indices: 22644--22735 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 43
22634 TGGGACGTAC
* * *
22644 TCTTCT-TTCACTTTGTCCTCAAGAAGCAGGA-CACTTTCCTTT
1 TCTTCTCTTCACTTGGTCCTCAAGAAGCAAGACCA-TTTCATTT
* *
22686 TCTTCTCTTC-CTTGGTCTTCAAGGAGCAAGACCTATTTCATTT
1 TCTTCTCTTCACTTGGTCCTCAAGAAGCAAGACC-ATTTCATTT
22729 TCTTCTC
1 TCTTCTC
22736 CTTTGTCCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
42 23 0.55
43 18 0.43
44 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.12, T:0.42
Consensus pattern (43 bp):
TCTTCTCTTCACTTGGTCCTCAAGAAGCAAGACCATTTCATTT
Found at i:23326 original size:21 final size:21
Alignment explanation
Indices: 23300--23397 Score: 187
Period size: 21 Copynumber: 4.7 Consensus size: 21
23290 AAAAATTCCA
23300 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
23321 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
23342 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
23363 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
23384 AATGTATCGATACA
1 AATGTATCGATACA
23398 GGGTCCTAAC
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 75 1.00
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:23464 original size:13 final size:13
Alignment explanation
Indices: 23448--23472 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23438 ACATAAGTTT
23448 TGTATCGATACAA
1 TGTATCGATACAA
23461 TGTATCGATACA
1 TGTATCGATACA
23473 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:23552 original size:13 final size:13
Alignment explanation
Indices: 23534--23559 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23524 CATTTTTCTG
23534 TGTATCGATACAT
1 TGTATCGATACAT
23547 TGTATCGATACAT
1 TGTATCGATACAT
23560 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:23556 original size:33 final size:33
Alignment explanation
Indices: 23514--23580 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
23504 GCCAAGGAAA
***
23514 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
23547 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
23580 T
1 T
23581 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:24197 original size:11 final size:11
Alignment explanation
Indices: 24171--24199 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24161 ACCACCACCA
24171 AAAAAC-CTCC
1 AAAAACTCTCC
24181 AAAAACTCTCC
1 AAAAACTCTCC
24192 AAAAACTC
1 AAAAACTC
24200 CATATTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.52, C:0.34, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAACTCTCC
Found at i:26110 original size:28 final size:27
Alignment explanation
Indices: 26040--26115 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
26030 AAATTTCACA
*
26040 ATCGAGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
*
26067 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
26093 TTCGAGGGGATACTCCAACCCCG
1 ATC--GGGGATACTCCAACCCCG
26116 ACTTTATTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.09
27 22 0.50
28 18 0.41
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:26252 original size:52 final size:52
Alignment explanation
Indices: 25936--26319 Score: 245
Period size: 51 Copynumber: 7.4 Consensus size: 52
25926 AATTCTCCAC
* * * * *
25936 AATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-TTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTC-CT
* * **
25987 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAAACCAAAATTTCAC-
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTC-CT
* * * *** * * *
26039 AATCGAGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGTTATTTTC-
1 AATCGGGGATACTCCAACCCCGATTTTAT-TTC-CAAAAACACCAA-----TT-TTTCCT
* * * ** *
26096 GA--GGGGATACTCCAACCCCGACTTTATTTCC-AAAATATTAATTTTTCAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCCT
* * * * *
26145 AATCGGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTTCGT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAA-TTTTTCCT
* *
26197 AATC-GGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTTCCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCC--T
* *
26249 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCAC-
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTC-CT
*
26301 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
26320 TCGTTATCTC
Statistics
Matches: 261, Mismatches: 49, Indels: 45
0.74 0.14 0.13
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 13 0.05
51 95 0.36
52 70 0.27
53 29 0.11
54 19 0.07
55 18 0.07
56 2 0.01
57 6 0.02
58 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCCT
Found at i:26305 original size:104 final size:102
Alignment explanation
Indices: 26099--26319 Score: 264
Period size: 104 Copynumber: 2.1 Consensus size: 102
26089 TATTTTCGAG
* **
26099 GGGATACTCCAACCCCGACTTTATTTCCAAAATATTAATTTTTCATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTTCATAATCGGGGATACTCCAACC
* * * * **
26164 CCGGTTTTATTGCTAAAACACTAATTTTTTCGTAATC
66 CCGATTTTATTCCAAAAACACCAATTTTTTCACAATC
** * *
26201 GGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATCGGGGATACTCCAA
1 GGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTT-C-ATAATCGGGGATACTCCAA
* *
26266 CTCCGATTTTATTTCCAAAAATACCAA-TTTTTCACAATC
64 CCCCGATTTTA-TTCCAAAAACACCAATTTTTTCACAATC
26305 GAGGATACTCCAACC
1 G-GGATACTCCAACC
26320 TCGTTATCTC
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
102 37 0.37
103 1 0.01
104 38 0.38
105 24 0.24
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.33
Consensus pattern (102 bp):
GGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTTCATAATCGGGGATACTCCAACC
CCGATTTTATTCCAAAAACACCAATTTTTTCACAATC
Found at i:26338 original size:28 final size:28
Alignment explanation
Indices: 26302--26378 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
26292 ATTTTTCACA
* *
26302 ATCGAGGATACTCCAACCTCGTTA-TCTC
1 ATCGGGGATACTCCAACCCCGTTACT-TC
26330 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
26358 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
26379 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 42 0.98
29 1 0.02
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:28171 original size:22 final size:21
Alignment explanation
Indices: 28119--28174 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
28109 TTTCAATATC
*
28119 AATAAATGTTTTAGAGTTATG
1 AATAAATGTTTTAGAGTTATA
*
28140 AATAAATGTTTTCGAGCTT-TA
1 AATAAATGTTTTAGAG-TTATA
28161 AATCAAATGTTTTA
1 AAT-AAATGTTTTA
28175 AGTAAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (21 bp):
AATAAATGTTTTAGAGTTATA
Found at i:28335 original size:20 final size:19
Alignment explanation
Indices: 28293--28346 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
28283 GTATTGATAA
28293 TGTATCGATACATGATCAT
1 TGTATCGATACATGATCAT
28312 TGTATCGATACATGCA-CAAT
1 TGTATCGATACATG-ATC-AT
28332 TGTATCGATACATGA
1 TGTATCGATACATGA
28347 AACTAGCAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (19 bp):
TGTATCGATACATGATCAT
Found at i:28412 original size:13 final size:13
Alignment explanation
Indices: 28394--28418 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28384 CATGGCATAT
28394 TGTATCGATACAA
1 TGTATCGATACAA
28407 TGTATCGATACA
1 TGTATCGATACA
28419 TGAATAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:28418 original size:33 final size:33
Alignment explanation
Indices: 28374--28438 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
28364 CTACCACTTT
* *
28374 TGTATCTATACATGGCAT-ATTGTATCGATACAA
1 TGTATCGATACAT-GAATAATTGTATCGATACAA
*
28407 TGTATCGATACATGAATAATTGTATTGATACA
1 TGTATCGATACATGAATAATTGTATCGATACA
28439 TTGTCCCAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 3 0.11
33 25 0.89
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.37
Consensus pattern (33 bp):
TGTATCGATACATGAATAATTGTATCGATACAA
Done.