Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008247.1 Hibiscus syriacus cultivar Beakdansim tig00110897_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: 310145
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
File 1 of 2
Found at i:1063 original size:18 final size:18
Alignment explanation
Indices: 1037--1081 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1027 TCCACTTCGG
*
1037 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
1055 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
1073 GAGCCATCA
1 GAGCCATCA
1082 TCTGATTGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:1615 original size:19 final size:19
Alignment explanation
Indices: 1573--1627 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
1563 TGCAACACGA
1573 AAATGACTATCGCAACGCG
1 AAATGACTATCGCAACGCG
* * *
1592 GAATGGCTATCGCAATGCG
1 AAATGACTATCGCAACGCG
**
1611 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
1628 ACAAAATCGC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (19 bp):
AAATGACTATCGCAACGCG
Found at i:1658 original size:32 final size:32
Alignment explanation
Indices: 1600--1690 Score: 155
Period size: 32 Copynumber: 2.8 Consensus size: 32
1590 CGGAATGGCT
*
1600 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1633 ATCGCAACGCGAAATGAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAATCGCAACGACAAA
1665 ATCGCAACGCGAAATGAAATTCGCAA
1 ATCGCAACGCGAAATGAAA-TCGCAA
1691 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 35 0.62
33 21 0.38
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (32 bp):
ATCGCAACGCGAAATGAAATCGCAACGACAAA
Found at i:1690 original size:19 final size:17
Alignment explanation
Indices: 1600--1695 Score: 78
Period size: 14 Copynumber: 5.6 Consensus size: 17
1590 CGGAATGGCT
1600 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATG-AA
*
1619 ATCGCAA-CGACA--AA
1 ATCGCAAGCGAAATGAA
1633 ATCGCAACGCGAAATGAA
1 ATCGCAA-GCGAAATGAA
*
1651 ATCGCAA-CGACA--AA
1 ATCGCAAGCGAAATGAA
1665 ATCGCAACGCGAAATGAA
1 ATCGCAA-GCGAAATGAA
1683 ATTCGCAATGCGA
1 A-TCGCAA-GCGA
1696 TTTGTGTTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
14 18 0.29
16 12 0.19
17 4 0.06
18 12 0.19
19 17 0.27
ACGTcount: A:0.45, C:0.23, G:0.20, T:0.12
Consensus pattern (17 bp):
ATCGCAAGCGAAATGAA
Found at i:1747 original size:19 final size:19
Alignment explanation
Indices: 1732--1787 Score: 85
Period size: 20 Copynumber: 2.9 Consensus size: 19
1722 GTTGCGATTT
1732 TCATTTCGCATTGCGATAG
1 TCATTTCGCATTGCGATAG
* *
1751 CCATTTCCGCGTTGCGATAG
1 TCATTT-CGCATTGCGATAG
1771 TCATTTCGCATTGCGAT
1 TCATTTCGCATTGCGAT
1788 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (19 bp):
TCATTTCGCATTGCGATAG
Found at i:3793 original size:14 final size:16
Alignment explanation
Indices: 3774--3846 Score: 55
Period size: 19 Copynumber: 4.4 Consensus size: 16
3764 CGAAATGGCT
3774 ATCGCAACG-A-GAAA
1 ATCGCAACGAATGAAA
3788 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG-AATGAAA
3807 ATCGCAATACGAAATGAAA
1 ATCGC-A-ACG-AATGAAA
*
3826 ATCGCAATG-A-GAAA
1 ATCGCAACGAATGAAA
3840 ATCGCAA
1 ATCGCAA
3847 TGCGATTTTC
Statistics
Matches: 51, Mismatches: 1, Indels: 14
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.35
15 1 0.02
16 2 0.04
17 2 0.04
18 2 0.04
19 24 0.47
20 1 0.02
21 1 0.02
ACGTcount: A:0.49, C:0.18, G:0.19, T:0.14
Consensus pattern (16 bp):
ATCGCAACGAATGAAA
Found at i:3806 original size:19 final size:19
Alignment explanation
Indices: 3784--3839 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
3774 ATCGCAACGA
3784 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
3803 GAAAATCGCAATACGAAAT
1 GAAAATCGCAATGCGAAAT
*
3822 GAAAATCGCAATGAGAAA
1 GAAAATCGCAATGCGAAA
3840 ATCGCAATGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.52, C:0.14, G:0.20, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:3847 original size:14 final size:14
Alignment explanation
Indices: 3822--3848 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3812 AATACGAAAT
3822 GAAAATCGCAATGA
1 GAAAATCGCAATGA
3836 GAAAATCGCAATG
1 GAAAATCGCAATG
3849 CGATTTTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (14 bp):
GAAAATCGCAATGA
Found at i:3895 original size:20 final size:20
Alignment explanation
Indices: 3870--3927 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
3860 TCGCATTGCG
*
3870 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
3890 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
3910 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
3928 TCAAATGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:5031 original size:24 final size:24
Alignment explanation
Indices: 4980--5033 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
4970 GTATTCGAAA
* *
4980 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
* *
5004 TTTGATATTGGTCAATACATGGAT
1 TTTGATATTGGTCAATACACGGAC
5028 TTTGAT
1 TTTGAT
5034 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:7564 original size:33 final size:33
Alignment explanation
Indices: 7511--7634 Score: 175
Period size: 32 Copynumber: 3.8 Consensus size: 33
7501 GGAAATTACT
7511 ATCGCAATGCG-AATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
7543 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
7575 TTTCGCAATGCGAAATG-AAATCGTAACGAG-GA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
7607 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
7635 CGAATTTAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
31 15 0.19
32 33 0.41
33 32 0.40
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:7628 original size:64 final size:65
Alignment explanation
Indices: 7512--7641 Score: 219
Period size: 64 Copynumber: 2.0 Consensus size: 65
7502 GAAATTACTA
*
7512 TCGCAATGCGAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAATT
1 TCGCAATGCGAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATT
*
7577 TCGCAATGCGAAATG-AAATCGTAACGAG-GAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCG-AATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
7640 T
65 T
7641 T
1 T
7642 AATTTCGCGT
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
64 36 0.58
65 22 0.35
66 4 0.06
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.18
Consensus pattern (65 bp):
TCGCAATGCGAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATT
Found at i:7656 original size:19 final size:20
Alignment explanation
Indices: 7634--7676 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7624 AAATCGCAAC
7634 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
7653 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
7673 GCGA
1 GCGA
7677 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:7661 original size:14 final size:14
Alignment explanation
Indices: 7662--7695 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7652 TGCGATTTTC
7662 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
7676 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
7690 ATTTTC
1 ATTTTC
7696 ATTTTGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:7833 original size:14 final size:14
Alignment explanation
Indices: 7814--7850 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
7804 CATCAATTAA
7814 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
7828 ACAAATCACCTTTT
1 ACAAATCAACTTTT
7842 ACAAATCAA
1 ACAAATCAA
7851 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:9270 original size:21 final size:21
Alignment explanation
Indices: 9204--9270 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
9194 GTGAATCGGG
*
9204 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
9224 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
9246 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
9267 CTCT
1 CTCT
9271 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:11372 original size:20 final size:19
Alignment explanation
Indices: 11327--11511 Score: 156
Period size: 19 Copynumber: 10.1 Consensus size: 19
11317 TCTTTTGGTT
*
11327 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
11346 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
** *
11366 GGAAATGACTATCGCAA--T
1 -GAAATGAAAATCGCAACGC
*
11384 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
11400 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
11418 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
11433 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
* *
11453 GAAATAAAAATCACAACGC
1 GAAATGAAAATCGCAACGC
11472 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
11491 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
11510 GA
1 GA
11512 TTTTTGTTTC
Statistics
Matches: 134, Mismatches: 19, Indels: 26
0.75 0.11 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 1 0.01
17 1 0.01
18 3 0.02
19 61 0.46
20 44 0.33
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:11409 original size:33 final size:33
Alignment explanation
Indices: 11352--11450 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 33
11342 ACGAGATAAT
**
11352 GAGAATCGCAACGCGGAAATGACTATCGCAATGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
11386 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
11419 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
11451 GCGAAATAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
33 44 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.25, G:0.23, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:11470 original size:39 final size:38
Alignment explanation
Indices: 11422--11511 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 38
11412 GCGACCAGAC
11422 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
* *
11461 AATCACAACGCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
11499 AATCGCAATGCGA
1 AATCGCAACGCGA
11512 TTTTTGTTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 21 0.45
39 26 0.55
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:11543 original size:19 final size:19
Alignment explanation
Indices: 11507--11587 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
11497 AAAATCGCAA
*
11507 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
11526 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
11545 TGCGA---TTA--TCTCGT
1 TGCGATTTTTATTTCGCGT
**
11559 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
11579 TGCGATTTT
1 TGCGATTTT
11588 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:12132 original size:20 final size:20
Alignment explanation
Indices: 12104--12156 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
12094 ACACTATGTA
12104 AATCACGTTGCGAAAGTCAG
1 AATCACGTTGCGAAAGTCAG
*
12124 AATCGCGTTGCGAAAGTCAG
1 AATCACGTTGCGAAAGTCAG
* *
12144 TATCTCGTTGCGA
1 AATCACGTTGCGA
12157 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (20 bp):
AATCACGTTGCGAAAGTCAG
Found at i:12193 original size:20 final size:20
Alignment explanation
Indices: 12165--12218 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
12155 GATTTTGTAT
*
12165 TATCACATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
12185 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
12205 TATCGCATTGCGAT
1 TATCGCATTGCGAT
12219 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:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:12203 original size:61 final size:61
Alignment explanation
Indices: 12105--12221 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
12095 CACTATGTAA
* * * * *
12105 ATCACGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCACATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
12166 ATCACATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCACATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
12222 CCCAATTCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (61 bp):
ATCACATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:12235 original size:61 final size:61
Alignment explanation
Indices: 12105--12239 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
12095 CACTATGTAA
* * * * * * ** *
12105 ATCACGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCACATTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* *
12166 ATCACATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCACATTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
*
12228 -TCGCATTGCGAT
1 ATCACATTGCGAT
12240 TTACTTATTC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
61 59 0.97
62 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (61 bp):
ATCACATTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:12251 original size:20 final size:21
Alignment explanation
Indices: 12207--12258 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
12197 ATAGTCAGTA
*
12207 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTACCAAT
**
12228 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACCAAT
12248 TCGCATTGCGA
1 TCGCATTGCGA
12259 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACCAAT
Found at i:12889 original size:25 final size:26
Alignment explanation
Indices: 12845--12899 Score: 94
Period size: 25 Copynumber: 2.1 Consensus size: 26
12835 TAAAACTTTT
12845 ATTAAAACATATATAACTTATAAAATG
1 ATTAAAACA-ATATAACTTATAAAATG
12872 ATTAAAAC-ATATAACTTATAAAATG
1 ATTAAAACAATATAACTTATAAAATG
12897 ATT
1 ATT
12900 TATCAGTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 20 0.71
27 8 0.29
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.35
Consensus pattern (26 bp):
ATTAAAACAATATAACTTATAAAATG
Found at i:13145 original size:15 final size:15
Alignment explanation
Indices: 13125--13172 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
13115 ACATTACCCA
13125 CCCCGCATCCGCCCG
1 CCCCGCATCCGCCCG
13140 CCCCGCATCCGCCCG
1 CCCCGCATCCGCCCG
** *
13155 CCCTACATCTGCCCG
1 CCCCGCATCCGCCCG
13170 CCC
1 CCC
13173 AGCTAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.08, C:0.65, G:0.17, T:0.10
Consensus pattern (15 bp):
CCCCGCATCCGCCCG
Found at i:14245 original size:2 final size:2
Alignment explanation
Indices: 14238--14268 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14228 TTTAAAACAC
14238 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 A
14269 CTCACATCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17090 original size:18 final size:18
Alignment explanation
Indices: 17067--17118 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 18
17057 TGGTCAACGA
17067 TCAACGGGTCGGGTCAAC
1 TCAACGGGTCGGGTCAAC
17085 TCAACGGGTCGAGTCGGGTCAAC
1 TCAAC--G--G-GTCGGGTCAAC
17108 TCAACGGGTCG
1 TCAACGGGTCG
17119 AGTCGGGTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
18 9 0.31
19 1 0.03
20 1 0.03
21 1 0.03
22 1 0.03
23 16 0.55
ACGTcount: A:0.21, C:0.27, G:0.35, T:0.17
Consensus pattern (18 bp):
TCAACGGGTCGGGTCAAC
Found at i:17103 original size:23 final size:23
Alignment explanation
Indices: 17074--17131 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
17064 CGATCAACGG
17074 GTCGGGTCAACTCAACGGGTCGA
1 GTCGGGTCAACTCAACGGGTCGA
17097 GTCGGGTCAACTCAACGGGTCGA
1 GTCGGGTCAACTCAACGGGTCGA
17120 GTCGGGTCAACT
1 GTCGGGTCAACT
17132 TTGAAATCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.21, C:0.26, G:0.34, T:0.19
Consensus pattern (23 bp):
GTCGGGTCAACTCAACGGGTCGA
Found at i:18561 original size:24 final size:24
Alignment explanation
Indices: 18534--18621 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 24
18524 GATATTAGAA
*
18534 ATCAAAACATAATTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * *
18558 ATCAAAACAGAATCCAGGTTAGGA-
1 ATCAAAACAGAATTCAGATCA-GAT
*
18582 ATCAAAACAGATTTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* *
18606 GTCAAAAAAGAATTCA
1 ATCAAAACAGAATTCA
18622 AATAAAAAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
23 2 0.04
24 47 0.92
25 2 0.04
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.22
Consensus pattern (24 bp):
ATCAAAACAGAATTCAGATCAGAT
Found at i:18633 original size:48 final size:48
Alignment explanation
Indices: 18532--18633 Score: 114
Period size: 48 Copynumber: 2.1 Consensus size: 48
18522 GTGATATTAG
* * ** * *
18532 AAATCAAAACATAATTCAGATCAGATATCAAAACAGAATCCAGGTTAG
1 AAATCAAAACAGAATTCAGATCAGATATCAAAAAAGAATCCAAATAAA
* * * *
18580 GAATCAAAACAGATTTCAGATCAGATGTCAAAAAAGAATTCAAATAAA
1 AAATCAAAACAGAATTCAGATCAGATATCAAAAAAGAATCCAAATAAA
18628 AAATCA
1 AAATCA
18634 GATAAAATAT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (48 bp):
AAATCAAAACAGAATTCAGATCAGATATCAAAAAAGAATCCAAATAAA
Found at i:21178 original size:18 final size:18
Alignment explanation
Indices: 21155--21191 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
21145 AGTGGTCAAC
21155 AGTCAACGGGTCGGGTCA
1 AGTCAACGGGTCGGGTCA
21173 AGTCAACGGGTCGGGTCA
1 AGTCAACGGGTCGGGTCA
21191 A
1 A
21192 CTTTGAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.22, G:0.38, T:0.16
Consensus pattern (18 bp):
AGTCAACGGGTCGGGTCA
Found at i:26092 original size:6 final size:6
Alignment explanation
Indices: 26081--26163 Score: 64
Period size: 6 Copynumber: 12.8 Consensus size: 6
26071 TAAATTCCAG
26081 AAAAAT AAAAAT AAAATAT AAAAATGTT AAAAGA- AAAAATT AAAAAT
1 AAAAAT AAAAAT AAAA-AT AAAAA---T AAAA-AT AAAAA-T AAAAAT
26128 -AAAAT AAAAAGT AGGAAAAT AAAAAT -AAAAT AAAAA
1 AAAAAT AAAAA-T A--AAAAT AAAAAT AAAAAT AAAAA
26164 ATTTGGGTAT
Statistics
Matches: 65, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
5 11 0.17
6 29 0.45
7 13 0.20
8 2 0.03
9 9 0.14
10 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:26152 original size:34 final size:34
Alignment explanation
Indices: 26081--26162 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 34
26071 TAAATTCCAG
*
26081 AAAAATAAAAATAAAATATAAAAATGTTAAAAGA
1 AAAAATAAAAATAAAATATAAAAATGTGAAAAGA
* *
26115 AAAAATTAAAAATAAAATA-AAAAGTAG-GAAAA-T
1 AAAAA-TAAAAATAAAATATAAAAAT-GTGAAAAGA
26148 AAAAAT-AAAATAAAA
1 AAAAATAAAAATAAAA
26163 AATTTGGGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
31 9 0.21
32 1 0.02
33 5 0.12
34 14 0.33
35 14 0.33
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (34 bp):
AAAAATAAAAATAAAATATAAAAATGTGAAAAGA
Found at i:26165 original size:33 final size:33
Alignment explanation
Indices: 26031--26165 Score: 84
Period size: 33 Copynumber: 4.0 Consensus size: 33
26021 TGTTATATAT
* * *
26031 AAAATGTTATAAGAAAAAATAAAATAAATGAA-G
1 AAAATGTTAAAAGAAAAAATAAAATAAA-AAATA
* *
26064 AAAATATTAAATTCCAG-AAAAATAAAAATAAAATATA
1 AAAATGTTAAA----AGAAAAAAT-AAAATAAAAAATA
*
26101 AAAATGTTAAAAGAAAAAATTAAAA-ATAAAATA
1 AAAATGTTAAAAGAAAAAA-TAAAATAAAAAATA
26134 AAAA-G-TAGGAAA-ATAAAAATAAAATAAAAAAT
1 AAAATGTTA--AAAGA-AAAAATAAAATAAAAAAT
26166 TTGGGTATTT
Statistics
Matches: 81, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
31 2 0.02
32 7 0.09
33 35 0.43
34 9 0.11
35 1 0.01
36 7 0.09
37 20 0.25
ACGTcount: A:0.70, C:0.01, G:0.07, T:0.21
Consensus pattern (33 bp):
AAAATGTTAAAAGAAAAAATAAAATAAAAAATA
Found at i:26273 original size:5 final size:5
Alignment explanation
Indices: 26263--26307 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
26253 GAAAAGGTAT
* *
26263 AATAA AATAA AATAA AA-ATA AATAA AAGAA AATAT AATAA AATAA
1 AATAA AATAA AATAA AATA-A AATAA AATAA AATAA AATAA AATAA
26308 TAAATAATAG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
4 1 0.03
5 32 0.94
6 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:26315 original size:15 final size:14
Alignment explanation
Indices: 26268--26316 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 14
26258 GGTATAATAA
26268 AATAAAATAAAAAT
1 AATAAAATAAAAAT
*
26282 AAATAAAAGAAAATAT
1 -AATAAAATAAAA-AT
26298 AATAAAATAATAAAT
1 AATAAAATAA-AAAT
26313 AATA
1 AATA
26317 GTAGTAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 26 0.87
16 4 0.13
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (14 bp):
AATAAAATAAAAAT
Found at i:26378 original size:18 final size:18
Alignment explanation
Indices: 26357--26399 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
26347 GTTGTTTTTA
26357 AAATAAAA-AATAAGAATT
1 AAATAAAAGAA-AAGAATT
*
26375 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
26393 AAATAAA
1 AAATAAA
26400 TAATCTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:28063 original size:123 final size:123
Alignment explanation
Indices: 27833--28071 Score: 309
Period size: 123 Copynumber: 1.9 Consensus size: 123
27823 TATTCTTTGT
* * * * *
27833 TGTGAAGTCGAAATTGTAGGTGGCTCATTCGTTGTAAAGTTGAGCATTAAATTGGATATTATTCT
1 TGTGAAGTCGAAATTGTAGATCGCTCATTCGCTGTAAAGTTGAGCATTAAATTGGATATCATTCG
** * *
27898 TTGTGAAGTTGAAATCCAATCTTGTAAATTGAATCGCTTTGAGATTAATATATTTCGC
66 TTGTGAAGTTGAAATCCAATCTTAAAAATTAAATAGCTTTGAGATTAATATATTTCGC
* * * * * * *
27956 TGTGAAGTTGAAATTGTTGATCGCTCCTTCGCTGTGAAGTTGAGCTTTGAATTGGATGTCATTCG
1 TGTGAAGTCGAAATTGTAGATCGCTCATTCGCTGTAAAGTTGAGCATTAAATTGGATATCATTCG
*
28021 TTGTGAAGTTGAAATCCAATCTTAAAAATTAAATTAGC-TTGAGTTTAATAT
66 TTGTGAAGTTGAAATCCAATCTTAAAAATTAAA-TAGCTTTGAGATTAATAT
28072 CCTTCGTCAT
Statistics
Matches: 98, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
123 95 0.97
124 3 0.03
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (123 bp):
TGTGAAGTCGAAATTGTAGATCGCTCATTCGCTGTAAAGTTGAGCATTAAATTGGATATCATTCG
TTGTGAAGTTGAAATCCAATCTTAAAAATTAAATAGCTTTGAGATTAATATATTTCGC
Found at i:32481 original size:16 final size:16
Alignment explanation
Indices: 32460--32490 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
32450 AATATCTTTA
32460 AATTATTTATTTATTT
1 AATTATTTATTTATTT
32476 AATTATTTATTTATT
1 AATTATTTATTTATT
32491 ATCTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
AATTATTTATTTATTT
Found at i:32560 original size:15 final size:13
Alignment explanation
Indices: 32549--32598 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
32539 GTATTATTTA
32549 TTATTTTATTATT
1 TTATTTTATTATT
* *
32562 TTCTCTT-TTA-T
1 TTATTTTATTATT
32573 TTATTATTATATATT
1 TTATT-TTAT-TATT
32588 TTATTTTATTA
1 TTATTTTATTA
32599 AATCTTTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
11 4 0.14
12 5 0.17
13 8 0.28
14 6 0.21
15 6 0.21
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTTTATTATT
Found at i:32606 original size:17 final size:19
Alignment explanation
Indices: 32565--32606 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
32555 TATTATTTTC
*
32565 TCTTTTATTTATTATTATA
1 TCTTTTATTTATTATTAAA
*
32584 TATTTTA-TT-TTATTAAA
1 TCTTTTATTTATTATTAAA
32601 TCTTTT
1 TCTTTT
32607 CAACTTTACC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 12 0.60
18 2 0.10
19 6 0.30
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (19 bp):
TCTTTTATTTATTATTAAA
Found at i:40111 original size:44 final size:43
Alignment explanation
Indices: 40062--40186 Score: 112
Period size: 44 Copynumber: 3.1 Consensus size: 43
40052 TTAAACATTA
40062 TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAG
1 TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATA-GTTTTAG
**
40106 TATTTTAAT-TAAGTTTTAGG-A---TA--TT--AT--TTTTA-
1 TATTTT-ATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAG
*
40138 TATTTTATCTTTGTTTTAGGTATTTTAGTTTAACTAAGTTTTAG
1 TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAAT-AGTTTTAG
40182 TATTT
1 TATTT
40187 AATTAGGATT
Statistics
Matches: 62, Mismatches: 5, Indels: 28
0.65 0.05 0.29
Matches are distributed among these distances:
31 2 0.03
32 15 0.24
33 6 0.10
36 4 0.06
38 4 0.06
40 3 0.05
43 6 0.10
44 20 0.32
45 2 0.03
ACGTcount: A:0.25, C:0.02, G:0.13, T:0.60
Consensus pattern (43 bp):
TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAG
Found at i:40166 original size:76 final size:74
Alignment explanation
Indices: 40059--40269 Score: 270
Period size: 76 Copynumber: 2.9 Consensus size: 74
40049 ATTTTAAACA
*
40059 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTTTA
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATA-GTTTTAGTATTTTAATTAAGATTTA
*
40124 GGATATTATTT
65 GAATATTA-TT
* *
40135 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAACTAAGTTTTAGTA-TTTAATTAGGATTTA
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAAT-AGTTTTAGTATTTTAATTAAGATTTA
40199 GAATATTATT
65 GAATATTATT
* * * * *
40209 TTAAATATTA---TT-TTTTAGGTATTTTAGTTTAAATAATTTTAAGTGTTTTAATTAGGATTTA
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTT-AGTATTTTAATTAAGATTTA
40270 ACATGTTTTA
Statistics
Matches: 123, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
69 5 0.04
70 24 0.20
71 17 0.14
74 10 0.08
75 20 0.16
76 46 0.37
77 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.12, T:0.57
Consensus pattern (74 bp):
TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAGTATTTTAATTAAGATTTAG
AATATTATT
Found at i:46545 original size:16 final size:17
Alignment explanation
Indices: 46519--46550 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
46509 ATCGCCAATA
46519 AAAATTTTACTATTCAC
1 AAAATTTTACTATTCAC
46536 AAAA-TTTACTATTCA
1 AAAATTTTACTATTCA
46551 TGTGAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATTTTACTATTCAC
Found at i:47606 original size:24 final size:25
Alignment explanation
Indices: 47563--47611 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
47553 TTTATTTTAA
*
47563 TAATTTAGAATACATTAACTTCATT
1 TAATTTAGAATACATCAACTTCATT
*
47588 TAATTTA-TATACATCAACTTCATT
1 TAATTTAGAATACATCAACTTCATT
47612 CTAACTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (25 bp):
TAATTTAGAATACATCAACTTCATT
Found at i:47620 original size:24 final size:24
Alignment explanation
Indices: 47572--47620 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
47562 ATAATTTAGA
* *
47572 ATACATTAACTTCATTTAATTTAT
1 ATACATCAACTTCATTTAATCTAT
47596 ATACATCAACTTCATTCTAA-CTAT
1 ATACATCAACTTCATT-TAATCTAT
47620 A
1 A
47621 AAATATTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (24 bp):
ATACATCAACTTCATTTAATCTAT
Found at i:51764 original size:16 final size:15
Alignment explanation
Indices: 51738--51777 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
51728 AATAGTTTTG
51738 AAATATATTTTTTATAA
1 AAAT-TATTTTTTA-AA
51755 AAATTATTTTTTAAA
1 AAATTATTTTTTAAA
51770 ATAATTAT
1 A-AATTAT
51778 AATTAAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.14
16 15 0.68
17 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AAATTATTTTTTAAA
Found at i:53790 original size:22 final size:21
Alignment explanation
Indices: 53760--53820 Score: 54
Period size: 23 Copynumber: 2.8 Consensus size: 21
53750 ATTTTTCCTT
53760 TTTTCATGTAATATTTTTTTAC
1 TTTT-ATGTAATATTTTTTTAC
* *
53782 ATTTTATGTATTTTCTTTTTTAC
1 -TTTTATGTAATAT-TTTTTTAC
53805 -TTTA-GTATATATTTTT
1 TTTTATGTA-ATATTTTT
53821 ATTTTTTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
20 7 0.22
21 6 0.19
22 7 0.22
23 12 0.38
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTTATGTAATATTTTTTTAC
Found at i:53817 original size:24 final size:23
Alignment explanation
Indices: 53774--53819 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
53764 CATGTAATAT
*
53774 TTTTTTACATTTTATGTATTTTC
1 TTTTTTACATTTTATATATTTTC
53797 TTTTTTAC-TTTAGTATATATTTT
1 TTTTTTACATTT--TATATATTTT
53820 TATTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 8 0.40
24 9 0.45
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTTTTACATTTTATATATTTTC
Found at i:53838 original size:2 final size:2
Alignment explanation
Indices: 53833--53871 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
53823 TTTTTTAGAT
53833 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
53872 TATTTTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:53928 original size:7 final size:8
Alignment explanation
Indices: 53906--54041 Score: 62
Period size: 9 Copynumber: 15.6 Consensus size: 8
53896 TATATATATA
53906 TATTATTTT
1 TATT-TTTT
53915 TATTTTTT
1 TATTTTTT
*
53923 TATTTTATA
1 TATTTT-TT
* * *
53932 TATATATA
1 TATTTTTT
53940 TATTATTTT
1 TATT-TTTT
53949 TACCTTTTTAT
1 TA--TTTTT-T
*
53960 TATTATTT
1 TATTTTTT
53968 TATTTGTTT
1 TATTT-TTT
53977 TATTTATATAT
1 TATTT-T-T-T
53988 T-TTTTTCT
1 TATTTTT-T
*
53996 TCTTTTCCTT
1 TATTTT--TT
54006 TATTTTTT
1 TATTTTTT
54014 TA-TTTTT
1 TATTTTTT
*
54021 T-TTTTTA
1 TATTTTTT
54028 TATTTATTT
1 TATTT-TTT
54037 TATTT
1 TATTT
54042 ACTATTTTAT
Statistics
Matches: 100, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
7 11 0.11
8 30 0.30
9 38 0.38
10 13 0.13
11 8 0.08
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (8 bp):
TATTTTTT
Found at i:53932 original size:28 final size:28
Alignment explanation
Indices: 53900--53987 Score: 87
Period size: 28 Copynumber: 3.2 Consensus size: 28
53890 AATTTATATA
53900 TATATATATTATTTTTATTTTTTTATTT
1 TATATATATTATTTTTATTTTTTTATTT
* ***
53928 TATATATA-TATATATTATTTTTACCTTT
1 TATATATATTAT-TTTTATTTTTTTATTT
53956 T-TAT-TATTA-TTTTATTTGTTTTA-TT
1 TATATATATTATTTTTATTT-TTTTATTT
53981 TATATAT
1 TATATAT
53988 TTTTTTCTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
25 10 0.21
26 7 0.15
27 9 0.19
28 21 0.45
ACGTcount: A:0.27, C:0.02, G:0.01, T:0.69
Consensus pattern (28 bp):
TATATATATTATTTTTATTTTTTTATTT
Found at i:53935 original size:34 final size:34
Alignment explanation
Indices: 53857--53965 Score: 146
Period size: 34 Copynumber: 3.1 Consensus size: 34
53847 TATATATATA
* *
53857 TATATATATATATATTATTTTATTAGTTTTATTAATT
1 TATATATATATATATTA-TTT-TTA-TTTTTTTATTT
53894 TATATATATATATATTATTTTTATTTTTTTATTT
1 TATATATATATATATTATTTTTATTTTTTTATTT
**
53928 TATATATATATATATTATTTTTACCTTTTTATTAT
1 TATATATATATATATTATTTTTATTTTTTTATT-T
53963 TAT
1 TAT
53966 TTTATTTGTT
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
34 40 0.60
35 7 0.10
36 3 0.04
37 17 0.25
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (34 bp):
TATATATATATATATTATTTTTATTTTTTTATTT
Found at i:54032 original size:51 final size:50
Alignment explanation
Indices: 53906--54034 Score: 133
Period size: 51 Copynumber: 2.6 Consensus size: 50
53896 TATATATATA
53906 TATTATTTTTATTTTTTTATTTTATA--TATATATATATTATTTTTACCTT
1 TATTATTTTTATTTTTTT-TTTTATATTTATATATATATTATTTTTACCTT
* * * * * *
53955 T-TTATTATTATTTTATTTGTTT-TATTTATATATTTTTTTCTTCTTTTCCTT
1 TATTATTTTTATTTT-TTTTTTTATATTTATATA-TATATTATT-TTTACCTT
54006 TATT-TTTTTATTTTTTTTTTTATATTTAT
1 TATTATTTTTATTTTTTTTTTTATATTTAT
54035 TTTATTTACT
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
47 2 0.03
48 15 0.23
49 10 0.15
50 12 0.18
51 24 0.37
52 2 0.03
ACGTcount: A:0.20, C:0.05, G:0.01, T:0.74
Consensus pattern (50 bp):
TATTATTTTTATTTTTTTTTTTATATTTATATATATATTATTTTTACCTT
Found at i:54049 original size:23 final size:23
Alignment explanation
Indices: 54006--54065 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 23
53996 TCTTTTCCTT
** *
54006 TATTT-TTTTATTTTTTTTTTTA
1 TATTTATTTTATTTACTATTTTA
54028 TATTTATTTTATTTACTATTTTA
1 TATTTATTTTATTTACTATTTTA
* * *
54051 TCTTTACTTTCTTTA
1 TATTTATTTTATTTA
54066 TCTTATCTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
22 5 0.16
23 26 0.84
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (23 bp):
TATTTATTTTATTTACTATTTTA
Found at i:57205 original size:14 final size:13
Alignment explanation
Indices: 57186--57235 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 13
57176 AAAAAGAGAA
57186 AAAGAGAACAAAAC
1 AAAGAGAA-AAAAC
57200 AAAGAGAAAATAA-
1 AAAGAGAAAA-AAC
57213 AAAGAGGAAAAAAC
1 AAAGA-GAAAAAAC
57227 AAAG-GAAAA
1 AAAGAGAAAA
57236 TTGAAGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.15
13 9 0.27
14 19 0.58
ACGTcount: A:0.74, C:0.06, G:0.18, T:0.02
Consensus pattern (13 bp):
AAAGAGAAAAAAC
Found at i:57214 original size:27 final size:26
Alignment explanation
Indices: 57184--57236 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
57174 GCAAAAAGAG
57184 AAAAAGA-GAACAAAACAAAGAGAAAAT
1 AAAAAGAGGAA-AAAACAAAG-GAAAAT
57211 AAAAAGAGGAAAAAACAAAGGAAAAT
1 AAAAAGAGGAAAAAACAAAGGAAAAT
57237 TGAAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 6 0.24
27 16 0.64
28 3 0.12
ACGTcount: A:0.74, C:0.06, G:0.17, T:0.04
Consensus pattern (26 bp):
AAAAAGAGGAAAAAACAAAGGAAAAT
Found at i:57393 original size:69 final size:69
Alignment explanation
Indices: 57311--57443 Score: 221
Period size: 69 Copynumber: 1.9 Consensus size: 69
57301 AAACTATTAA
* *
57311 ATTGATCAAGCACAATCATTTCTGAATCACTTAACCACTTCACTCGAAGATCATAGAGCATCAAA
1 ATTGATCAAGCACAATCATTTCTGAATCACTGAACCACTCCACTCGAAGATCATAGAGCATCAAA
57376 TGAG
66 TGAG
* * *
57380 ATTGATCAAGCACAATCATTTCTGAATTACTGAATCACTCCACTCGAAGATCATGGAGCATCAA
1 ATTGATCAAGCACAATCATTTCTGAATCACTGAACCACTCCACTCGAAGATCATAGAGCATCAA
57444 GAGAAAGACA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (69 bp):
ATTGATCAAGCACAATCATTTCTGAATCACTGAACCACTCCACTCGAAGATCATAGAGCATCAAA
TGAG
Found at i:58405 original size:31 final size:32
Alignment explanation
Indices: 58370--58488 Score: 125
Period size: 32 Copynumber: 3.8 Consensus size: 32
58360 GGAACAATGA
* *
58370 GGGCATCTTTGAAGATTCAACATCAAATGTT-
1 GGGCATCTTTGTAGATTCAACATCAAATATTG
* * * *
58401 GGGCATTTTTTTATATTTAACATCAAATATTG
1 GGGCATCTTTGTAGATTCAACATCAAATATTG
* * *
58433 GGGCATTTTTTTAGATTCAACATCGAATATTG
1 GGGCATCTTTGTAGATTCAACATCAAATATTG
*
58465 GGGCATCTTTG-GGAATTCAACATC
1 GGGCATCTTTGTAG-ATTCAACATC
58489 CTAATGCAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
31 26 0.35
32 48 0.65
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (32 bp):
GGGCATCTTTGTAGATTCAACATCAAATATTG
Found at i:58442 original size:32 final size:32
Alignment explanation
Indices: 58382--58470 Score: 135
Period size: 32 Copynumber: 2.8 Consensus size: 32
58372 GCATCTTTGA
*
58382 AGATTCAACATCAAATGTT-GGGCATTTTTTT
1 AGATTCAACATCAAATATTGGGGCATTTTTTT
* *
58413 ATATTTAACATCAAATATTGGGGCATTTTTTT
1 AGATTCAACATCAAATATTGGGGCATTTTTTT
*
58445 AGATTCAACATCGAATATTGGGGCAT
1 AGATTCAACATCAAATATTGGGGCAT
58471 CTTTGGGAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 16 0.31
32 35 0.69
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.39
Consensus pattern (32 bp):
AGATTCAACATCAAATATTGGGGCATTTTTTT
Found at i:59240 original size:106 final size:104
Alignment explanation
Indices: 59055--59375 Score: 419
Period size: 106 Copynumber: 3.0 Consensus size: 104
59045 ATATCGTGCC
*
59055 ACTTGAGACAACACAAGTTCAAATCCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTTGAGACAACACAAGTTCAAATTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
59120 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCAC-G-GAAGGATATTGG
*
59161 ACTTGAGACAACACAAGTTTAAATTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTTGAGACAACACAAGTTCAAATTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
*
59226 AATTTCGGAGCCAATTTCAACTTCACGGTGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCAC-G-GAAGGATATTGG
* * * ** * * * * *
59267 ACTCGAAACAGCACAAACTCAACTTCA-AAGCGAAGGGGCGGCTGGCTGTCAACAAATAATTTCT
1 ACTTGAGACAACACAAGTTCAAATTCACAA-CGAAGGGACGGCTGGTTGTCAACAAACAATTTCC
* * * *
59331 TAGTTCCAGAGCCAATTTTAACTTCACGGTAGAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACGG-A-AGGATATTGG
59373 ACT
1 ACT
59376 CGGAACAATA
Statistics
Matches: 191, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
104 1 0.01
105 4 0.02
106 186 0.97
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (104 bp):
ACTTGAGACAACACAAGTTCAAATTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACGGAAGGATATTGG
Found at i:59775 original size:36 final size:37
Alignment explanation
Indices: 59735--59806 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 37
59725 AAACATAAAC
*
59735 ATTGA-AAACATTTCCCTTGAAATG-AATTTTATCTCG
1 ATTGAGAAA-ATTTCCCTTGAAACGAAATTTTATCTCG
* * *
59771 ATTGAGATAGTTTCCCTTGAAACGAAATTTTGTCTC
1 ATTGAGAAAATTTCCCTTGAAACGAAATTTTATCTC
59807 CCTTGAAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
36 18 0.60
37 12 0.40
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.39
Consensus pattern (37 bp):
ATTGAGAAAATTTCCCTTGAAACGAAATTTTATCTCG
Found at i:59930 original size:87 final size:87
Alignment explanation
Indices: 59634--59899 Score: 487
Period size: 87 Copynumber: 3.1 Consensus size: 87
59624 GACAGTTTCT
59634 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
59699 CTTGAAACGAAATTTTGTCTCC
66 CTTGAAACGAAATTTTGTCTCC
59721 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
59786 CTTGAAACGAAATTTTGTCTCC
66 CTTGAAACGAAATTTTGTCTCC
* * * *
59808 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
*
59873 CTTGAAACAAAATTTTGTCTCC
66 CTTGAAACGAAATTTTGTCTCC
59895 CTTGA
1 CTTGA
59900 GACAGCTTCT
Statistics
Matches: 174, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 174 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.36
Consensus pattern (87 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
CTTGAAACGAAATTTTGTCTCC
Found at i:60003 original size:35 final size:35
Alignment explanation
Indices: 59952--60018 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
59942 GAAATTAATT
* *
59952 TTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAA
1 TTGTCTCCCTTAAGATAGTTTCCCTTGAAACAAAA
*
59987 TTGTCTCCCTTAAGATAGTTTCTCTTGAAACA
1 TTGTCTCCCTTAAGATAGTTTCCCTTGAAACA
60019 TAAACCTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (35 bp):
TTGTCTCCCTTAAGATAGTTTCCCTTGAAACAAAA
Found at i:60044 original size:100 final size:101
Alignment explanation
Indices: 59808--60045 Score: 343
Period size: 102 Copynumber: 2.4 Consensus size: 101
59798 TTTTGTCTCC
* *
59808 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
*
59873 CTTGAAACAAAATTTTGTCTCCCTTGAGACAGCTTCT
66 CTTGAAACAAAA-TTTGTCTCCCTTAAGACAGCTTCT
* * * * * *
59910 CTTGAAATATAAACATTGAAAATATTTCCTTTGAAATTAATTTTGTCTCTCTTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
* *
59975 CTTGAAACAAAA-TTGTCTCCCTTAAGATAGTTTCT
66 CTTGAAACAAAATTTGTCTCCCTTAAGACAGCTTCT
* *
60010 CTTGAAACATAAACCTTGAAAACGTTTCCCTTGAAA
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
60046 CACAAAATAT
Statistics
Matches: 120, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
100 51 0.43
102 69 0.57
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (101 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
CTTGAAACAAAATTTGTCTCCCTTAAGACAGCTTCT
Found at i:60133 original size:37 final size:37
Alignment explanation
Indices: 60083--60185 Score: 181
Period size: 36 Copynumber: 2.8 Consensus size: 37
60073 AAAACGAGTT
60083 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
* *
60120 TTGAGACAATTTCCCTTGAAAC-AAATTTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
60156 TTGAGACAGTTTCCCTTGAAACAAAATCTT
1 TTGAGACAGTTTCCCTTGAAACAAAATCTT
60186 TGAATATCTT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 34 0.56
37 27 0.44
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (37 bp):
TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
Found at i:60251 original size:102 final size:103
Alignment explanation
Indices: 60096--60283 Score: 258
Period size: 101 Copynumber: 1.8 Consensus size: 103
60086 AGACAGTTTC
*
60096 CCTTGAAACAAAATCTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAATTTTGTCTCTC-TTGA
1 CCTTGAAACAAAATCTTGTCTCCCTTGAGACAATTTCCCTTGAAACAAATTTTGTCTCTCTTTGA
60160 GACAGTTTCCCTTGAAACAAAATCTTTGAATATCTTTT
66 GACAGTTTCCCTTGAAACAAAATCTTTGAATATCTTTT
* * * *
60198 CCTTGAAAC-AAAT-TTCGTCTCCCTTGAGACAGTTT-CTTTTAGAACTAAGTTTTGTCTCTCTT
1 CCTTGAAACAAAATCTT-GTCTCCCTTGAGACAATTTCCCTTGA-AAC-AAATTTTGTCTCTCTT
**
60260 TGAGACAGTTTCTTTTGAAACAAA
63 TGAGACAGTTTCCCTTGAAACAAA
60284 TTTTGTCCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
100 6 0.08
101 24 0.32
102 22 0.29
103 23 0.31
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (103 bp):
CCTTGAAACAAAATCTTGTCTCCCTTGAGACAATTTCCCTTGAAACAAATTTTGTCTCTCTTTGA
GACAGTTTCCCTTGAAACAAAATCTTTGAATATCTTTT
Found at i:60306 original size:36 final size:36
Alignment explanation
Indices: 60195--60317 Score: 151
Period size: 36 Copynumber: 3.4 Consensus size: 36
60185 TTGAATATCT
* *
60195 TTTC-CTTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* *
60230 TTTCT-TTTAGAACTAAGTTTTGTCTCTCTTTGAGACAG
1 TTTCTCTTGA-AAC-AAATTTTGTCTCTC-TTGAGACAG
* *
60268 TTTCTTTTGAAACAAATTTTGTCCCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
60304 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
60318 CAAAAAAAAC
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
35 7 0.09
36 25 0.33
37 23 0.31
38 17 0.23
39 3 0.04
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:60380 original size:39 final size:39
Alignment explanation
Indices: 60315--60392 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
60305 TTCTCTTGAA
*
60315 ACACAAAAAAAACCCTCGAAATTGTTTCTCTTAAAACAC
1 ACACAAAAAAAACCCTCGAAAATGTTTCTCTTAAAACAC
* * *
60354 ACACACAAAAAACCTTTGAAAATGTTTCTCTTAAAACAC
1 ACACAAAAAAAACCCTCGAAAATGTTTCTCTTAAAACAC
60393 CAAACCCTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.46, C:0.24, G:0.05, T:0.24
Consensus pattern (39 bp):
ACACAAAAAAAACCCTCGAAAATGTTTCTCTTAAAACAC
Found at i:61628 original size:37 final size:37
Alignment explanation
Indices: 61574--61672 Score: 112
Period size: 35 Copynumber: 2.7 Consensus size: 37
61564 TTATTATCAG
* *
61574 TTTTATTAATTTGTATATATATATTTACTATTTTTA-TT
1 TTTTATT-ATTTAT-TATATATATATACTATTTTTACTT
*
61612 TTTT-TTATTTATTATATATATATATTATTTTTACTT
1 TTTTATTATTTATTATATATATATACTATTTTTACTT
* * *
61648 TTTTATTATTTGTTTTATTTATATA
1 TTTTATTATTTATTATATATATATA
61673 TTTTTTTCTT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
35 19 0.36
36 11 0.21
37 19 0.36
38 4 0.08
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (37 bp):
TTTTATTATTTATTATATATATATACTATTTTTACTT
Found at i:61651 original size:43 final size:43
Alignment explanation
Indices: 61574--61761 Score: 128
Period size: 41 Copynumber: 4.3 Consensus size: 43
61564 TTATTATCAG
* *
61574 TTTTATTAATTTGTATATATA-TA--TTTACTATT-TTTATTTT
1 TTTTATTTATTTATATATATATTATTTTTACT-TTCTTTATTTT
*
61614 TTTTATTTATTATATATATATATTATTTTTACTTT-TTTATTAT
1 TTTTATTTATT-TATATATATATTATTTTTACTTTCTTTATTTT
*
61657 TTGT-TTTATTTATATAT-T-TT-TTTCTT-CTTTTTCTTTATTTT
1 TTTTATTTATTTATATATATATTATTT-TTAC--TTTCTTTATTTT
* *
61698 TTTATATTTATTT-TACTTACTATTTTATCTTTACTTTCTTTATCTTAT
1 TTT-TATTTATTTATA--TA-TATATTATTTTTACTTTCTTTAT-TT-T
61746 ATTTTATTTAATTTAT
1 -TTTTATTT-ATTTAT
61762 TTTTTCTTCA
Statistics
Matches: 119, Mismatches: 7, Indels: 34
0.74 0.04 0.21
Matches are distributed among these distances:
38 4 0.03
39 4 0.03
40 14 0.12
41 25 0.21
42 11 0.09
43 19 0.16
44 8 0.07
45 1 0.01
46 10 0.08
47 6 0.05
48 9 0.08
49 7 0.06
50 1 0.01
ACGTcount: A:0.23, C:0.06, G:0.01, T:0.70
Consensus pattern (43 bp):
TTTTATTTATTTATATATATATTATTTTTACTTTCTTTATTTT
Found at i:61671 original size:39 final size:38
Alignment explanation
Indices: 61589--61704 Score: 118
Period size: 37 Copynumber: 3.1 Consensus size: 38
61579 TTAATTTGTA
* * *
61589 TATATATATTTACTATTTTTA-TTTTTTTTA-TT-TAT
1 TATATATATATATTATTTTTACTTTTTTTTATTTGTTT
61624 TATATATATATATTATTTTTACTTTTTTATTATTTGTTT
1 TATATATATATATTATTTTTACTTTTTT-TTATTTGTTT
* *
61663 TAT-T-TATATATTTTTTTCTTCTTTTTCTTTATTT-TTT
1 TATATATATATATTATTTT-TACTTTTT-TTTATTTGTTT
61700 TATAT
1 TATAT
61705 TTATTTTACT
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
35 19 0.28
36 6 0.09
37 21 0.30
38 17 0.25
39 6 0.09
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.72
Consensus pattern (38 bp):
TATATATATATATTATTTTTACTTTTTTTTATTTGTTT
Found at i:61673 original size:37 final size:36
Alignment explanation
Indices: 61589--61715 Score: 122
Period size: 35 Copynumber: 3.7 Consensus size: 36
61579 TTAATTTGTA
* *
61589 TATATATATTTACTATTTTTA-TTTTTTTTATTTAT
1 TATATATATATATTATTTTTACTTTTTTTTATTTAT
*
61624 TATATATATATATTATTTTTACTTTTTTATTATTTGT
1 TATATATATATATTATTTTTACTTTTTT-TTATTTAT
* * * *
61661 TTTATTTATATATT-TTTTT-CTTCTTTTTCTTTAT
1 TATATATATATATTATTTTTACTTTTTTTTATTTAT
* *
61695 T-TTTTTATAT-TTA-TTTTACTT
1 TATATATATATATTATTTTTACTT
61716 ACTATTTTAT
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
32 6 0.08
33 11 0.14
34 7 0.09
35 25 0.32
36 11 0.14
37 19 0.24
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.72
Consensus pattern (36 bp):
TATATATATATATTATTTTTACTTTTTTTTATTTAT
Found at i:61706 original size:39 final size:37
Alignment explanation
Indices: 61602--61708 Score: 121
Period size: 38 Copynumber: 2.9 Consensus size: 37
61592 ATATATTTAC
* *
61602 TATTTTTA-TTTTTTTTA-TTTATTATATATATATAT
1 TATTTTTACTTTTTTTTATTTTTTTATATTTATATAT
*
61637 TATTTTTACTTTTTTATTATTTGTTT-TATTTATATAT
1 TATTTTTACTTTTTT-TTATTTTTTTATATTTATATAT
* *
61674 TTTTTTCTTCTTTTTCTTTATTTTTTTATATTTAT
1 TATTTT-TACTTTTT-TTTATTTTTTTATATTTAT
61709 TTTACTTACT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
35 8 0.13
36 6 0.10
37 18 0.30
38 20 0.33
39 8 0.13
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.75
Consensus pattern (37 bp):
TATTTTTACTTTTTTTTATTTTTTTATATTTATATAT
Found at i:61706 original size:48 final size:52
Alignment explanation
Indices: 61636--61764 Score: 135
Period size: 49 Copynumber: 2.5 Consensus size: 52
61626 TATATATATA
* * * *
61636 TTATTTTTACTTTTTTATTATTTGTTTTATTTA-TATATTT-T-TTT-C-TTCT
1 TTATCTTTATTTTTTTA-TATTTATTTTACTTACTAT-TTTATCTTTACTTTCT
*
61685 TTTTCTTTATTTTTTTATATTTATTTTACTTACTATTTTATCTTTACTTTCT
1 TTATCTTTATTTTTTTATATTTATTTTACTTACTATTTTATCTTTACTTTCT
61737 TTATCTTATATTTTATTTA-ATTTATTTT
1 TTATCTT-TATTTT-TTTATATTTATTTT
61765 TTCTTCATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
48 16 0.24
49 18 0.27
50 3 0.04
51 1 0.01
52 10 0.15
53 15 0.22
54 4 0.06
ACGTcount: A:0.19, C:0.08, G:0.01, T:0.73
Consensus pattern (52 bp):
TTATCTTTATTTTTTTATATTTATTTTACTTACTATTTTATCTTTACTTTCT
Found at i:61721 original size:12 final size:13
Alignment explanation
Indices: 61706--61752 Score: 53
Period size: 12 Copynumber: 3.6 Consensus size: 13
61696 TTTTTATATT
61706 TATTTTA-CTTAC
1 TATTTTATCTTAC
61718 TATTTTATCTTTAC
1 TATTTTATC-TTAC
*
61732 TTTCTTTATCTTA-
1 TAT-TTTATCTTAC
61745 TATTTTAT
1 TATTTTAT
61753 TTAATTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 12 0.40
13 3 0.10
14 9 0.30
15 6 0.20
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.66
Consensus pattern (13 bp):
TATTTTATCTTAC
Found at i:61806 original size:26 final size:25
Alignment explanation
Indices: 61751--61806 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
61741 CTTATATTTT
* *
61751 ATTTAATTTATTTTTTCTTCATTTTA
1 ATTTAATTTATTTTTTATT-ATCTTA
61777 ATTTAATTTATTTATTTATT-TCTTA
1 ATTTAATTTATTT-TTTATTATCTTA
61802 CATTT
1 -ATTT
61807 TTATCTAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 4 0.15
26 17 0.65
27 5 0.19
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (25 bp):
ATTTAATTTATTTTTTATTATCTTA
Found at i:62260 original size:2 final size:2
Alignment explanation
Indices: 62207--62247 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
62197 AGTTGATTTA
62207 AT AT AT AT 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 AT A
62248 ATTATTGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:67642 original size:44 final size:44
Alignment explanation
Indices: 67590--67689 Score: 139
Period size: 44 Copynumber: 2.3 Consensus size: 44
67580 ATACCATGTT
** *
67590 CAGTATCGATACTACTTTACATAGTAGTATCGATACTCACTGGA
1 CAGTATCGATACTACTACACATAATAGTATCGATACTCACTGGA
* *
67634 C-GATATCGATACTACTACACATAATAGTGTCGATACTCCCTGGA
1 CAG-TATCGATACTACTACACATAATAGTATCGATACTCACTGGA
67678 CAGTATCGATAC
1 CAGTATCGATAC
67690 CGTTGAGTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 1 0.02
44 47 0.96
45 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (44 bp):
CAGTATCGATACTACTACACATAATAGTATCGATACTCACTGGA
Found at i:74398 original size:19 final size:20
Alignment explanation
Indices: 74355--74392 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
74345 CCCCCTTTGA
*
74355 AGGGGAACCGATTCCCCCAC
1 AGGGGAACCGATACCCCCAC
*
74375 AGGGGAATCGATACCCCC
1 AGGGGAACCGATACCCCC
74393 CTGGGGTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.37, G:0.26, T:0.11
Consensus pattern (20 bp):
AGGGGAACCGATACCCCCAC
Found at i:74436 original size:8 final size:8
Alignment explanation
Indices: 74423--74447 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
74413 GGCAAGAACA
74423 CCCAAAAC
1 CCCAAAAC
74431 CCCAAAAC
1 CCCAAAAC
74439 CCCAAAAC
1 CCCAAAAC
74447 C
1 C
74448 TATTCCGCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (8 bp):
CCCAAAAC
Found at i:82872 original size:20 final size:21
Alignment explanation
Indices: 82847--82899 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
82837 CTCTTGCTAG
*
82847 GTATCGATACTACTAGCAT-A
1 GTATCGATACTACTAGAATGA
*
82867 GTATCGATACTACTTGAATGA
1 GTATCGATACTACTAGAATGA
82888 GTATCGATACTA
1 GTATCGATACTA
82900 TTTATACAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (21 bp):
GTATCGATACTACTAGAATGA
Found at i:82897 original size:41 final size:41
Alignment explanation
Indices: 82847--82926 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
82837 CTCTTGCTAG
* *
82847 GTATCGATACTA-CTAGCATAGTATCGATACTACTTGAATGA
1 GTATCGATACTATCTA-CACAGTACCGATACTACTTGAATGA
* *
82888 GTATCGATACTATTTATACAGTACCGATACTACTTGAAT
1 GTATCGATACTATCTACACAGTACCGATACTACTTGAAT
82927 AAGTGTCCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 32 0.94
42 2 0.06
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (41 bp):
GTATCGATACTATCTACACAGTACCGATACTACTTGAATGA
Found at i:85769 original size:24 final size:23
Alignment explanation
Indices: 85737--85815 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 23
85727 ACCATGTTTG
85737 GTATCGATACTACTTTACATAGTA
1 GTATCGATACTAC-TTACATAGTA
*
85761 GTATCGATACTCAC-TAGAT-G-A
1 GTATCGATACT-ACTTACATAGTA
* *
85782 -TATCAATACTACTGTGCATAGTA
1 GTATCGATACTACT-TACATAGTA
85805 GTATCGATACT
1 GTATCGATACT
85816 CCCTGGACAA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
19 2 0.05
20 9 0.20
21 4 0.09
22 2 0.05
23 5 0.11
24 20 0.45
25 2 0.05
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (23 bp):
GTATCGATACTACTTACATAGTA
Found at i:85829 original size:44 final size:44
Alignment explanation
Indices: 85738--85834 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 44
85728 CCATGTTTGG
* **
85738 TATCGATACTACTTTACATAGTAGTATCGATACTCACTAGATGA
1 TATCGATACTACTGTACATAGTAGTATCGATACTCACTAGACAA
* * * *
85782 TATCAATACTACTGTGCATAGTAGTATCGATACTCCCTGGACAA
1 TATCGATACTACTGTACATAGTAGTATCGATACTCACTAGACAA
85826 TATCGATAC
1 TATCGATAC
85835 CGTTGAGTCG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (44 bp):
TATCGATACTACTGTACATAGTAGTATCGATACTCACTAGACAA
Found at i:87216 original size:25 final size:25
Alignment explanation
Indices: 87182--87230 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
87172 TCCTCTTGAT
87182 TATTCCATTATTTTGATTTACTCAC
1 TATTCCATTATTTTGATTTACTCAC
87207 TATTCCATTATTTTGATTTACTCA
1 TATTCCATTATTTTGATTTACTCA
87231 ATTGATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.18, G:0.04, T:0.53
Consensus pattern (25 bp):
TATTCCATTATTTTGATTTACTCAC
Found at i:93709 original size:16 final size:16
Alignment explanation
Indices: 93688--93718 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
93678 TTATAAATTT
*
93688 TTTATTATACTTATTG
1 TTTATTATAATTATTG
93704 TTTATTATAATTATT
1 TTTATTATAATTATT
93719 TGAAAAAAAT
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:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTATTATAATTATTG
Found at i:99478 original size:16 final size:16
Alignment explanation
Indices: 99446--99482 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
99436 GCAAAAAATT
99446 AATAAGTAAAATATTA
1 AATAAGTAAAATATTA
99462 AATAA-TAAAATACTTA
1 AATAAGTAAAATA-TTA
99478 AATAA
1 AATAA
99483 ATTAAATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (16 bp):
AATAAGTAAAATATTA
Found at i:100129 original size:203 final size:206
Alignment explanation
Indices: 99780--100190 Score: 792
Period size: 203 Copynumber: 2.0 Consensus size: 206
99770 TAAGGAGCGC
99780 TTCAAGGGGCGCCTTACCCCATGTGGCGCCAAATCAGCATATAGCGCGGTGCAGGGGGCGCGTTT
1 TTCAAGGGGCGCCTTACCCCATGTGGCGCCAAATCAGCATATAGCGCGGTGCAGGGGGCGCGTTT
99845 TACTGCTAAGGATGTTAGATCGGGAAATATAGTCTGACCAGTGTTAGATCGGTAAATATACCGGT
66 TACTGCTAAGGATGTTAGATCGGGAAATATAGTCTGACCAGTGTTAGATCGGTAAATATACCGGT
99910 CACTGGTGATTTTTCG-AAAAAACACCCATAATGTAACCAAA-ACATATCGTTTTATT-AATAAT
131 CACTGGTGATTTTTCGAAAAAAACACCCATAATGTAACCAAACACATATCGTTTTATTAAATAAT
99972 TATTTTATTTT
196 TATTTTATTTT
99983 TTCAAGGGGCGCCTTACCCCATGTGGCGCCAAATCAGCATATAGCGCGGTGCAGGGGGCGCGTTT
1 TTCAAGGGGCGCCTTACCCCATGTGGCGCCAAATCAGCATATAGCGCGGTGCAGGGGGCGCGTTT
100048 TACTGCTAAGGATGTTAGATCGGGAAATATAGTCTGACCAGTGTTAGATCGGTAAATATACCGGT
66 TACTGCTAAGGATGTTAGATCGGGAAATATAGTCTGACCAGTGTTAGATCGGTAAATATACCGGT
*
100113 CACTGGTGATTTTTCGAAAAAAACACCCATAATGTAACCAAACATATATCGTTTTATTAAATAAT
131 CACTGGTGATTTTTCGAAAAAAACACCCATAATGTAACCAAACACATATCGTTTTATTAAATAAT
100178 TATTTTATTTT
196 TATTTTATTTT
100189 TT
1 TT
100191 ATTCTTTTAA
Statistics
Matches: 204, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
203 146 0.72
204 25 0.12
205 14 0.07
206 19 0.09
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (206 bp):
TTCAAGGGGCGCCTTACCCCATGTGGCGCCAAATCAGCATATAGCGCGGTGCAGGGGGCGCGTTT
TACTGCTAAGGATGTTAGATCGGGAAATATAGTCTGACCAGTGTTAGATCGGTAAATATACCGGT
CACTGGTGATTTTTCGAAAAAAACACCCATAATGTAACCAAACACATATCGTTTTATTAAATAAT
TATTTTATTTT
Found at i:103139 original size:42 final size:42
Alignment explanation
Indices: 103092--103176 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
103082 ACTGCAGAGG
103092 TGAATGCCAGTGCCGATCCAGCAGAAATAGCCGTTGAGATGC
1 TGAATGCCAGTGCCGATCCAGCAGAAATAGCCGTTGAGATGC
103134 TGAATGCCAGTGCCGATCCAGCAGAAATAGCCGTTGAGATGC
1 TGAATGCCAGTGCCGATCCAGCAGAAATAGCCGTTGAGATGC
103176 T
1 T
103177 CCTCCCTGCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.20
Consensus pattern (42 bp):
TGAATGCCAGTGCCGATCCAGCAGAAATAGCCGTTGAGATGC
Found at i:105431 original size:20 final size:21
Alignment explanation
Indices: 105406--105450 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
105396 AAATCACATT
105406 ATTTTA-ATAGAAAAT-ATATA
1 ATTTTATAT-GAAAATAATATA
*
105426 ATTTTATATGAGAATAATATA
1 ATTTTATATGAAAATAATATA
105447 ATTT
1 ATTT
105451 ATAAAGGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (21 bp):
ATTTTATATGAAAATAATATA
Found at i:116408 original size:30 final size:30
Alignment explanation
Indices: 116373--116434 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
116363 ATCTTGCTTG
*
116373 TACTAACTCGTTTTTCTCTTTTGTTTGTGT
1 TACTAACTCGTTTTTCTCTTTTGTTTATGT
116403 TACTAACTCGTTTTTCTCTTTTGTTTATGT
1 TACTAACTCGTTTTTCTCTTTTGTTTATGT
116433 TA
1 TA
116435 TTTTCATCAT
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:0.13, C:0.16, G:0.11, T:0.60
Consensus pattern (30 bp):
TACTAACTCGTTTTTCTCTTTTGTTTATGT
Found at i:116981 original size:20 final size:21
Alignment explanation
Indices: 116944--116986 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
116934 ATCAATATTT
*
116944 TTGCATCTGCATTTGCA-TCA
1 TTGCATCTGCATTGGCATTCA
116964 TTGCATTCTGCA-TGGCATTCA
1 TTGCA-TCTGCATTGGCATTCA
116985 TT
1 TT
116987 TAAGAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (21 bp):
TTGCATCTGCATTGGCATTCA
Found at i:120109 original size:16 final size:16
Alignment explanation
Indices: 120088--120118 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
120078 GAAAACATAT
*
120088 AACACATATATACATC
1 AACACATACATACATC
120104 AACACATACATACAT
1 AACACATACATACAT
120119 TATACATAAA
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:0.52, C:0.26, G:0.00, T:0.23
Consensus pattern (16 bp):
AACACATACATACATC
Found at i:120532 original size:37 final size:37
Alignment explanation
Indices: 120475--120571 Score: 117
Period size: 37 Copynumber: 2.6 Consensus size: 37
120465 ATCTCACTAG
*
120475 AGACAATTTTTTCTTAAAAACAAATATTGTATCACTTA
1 AGACAATTTTATC-TAAAAACAAATATTGTATCACTTA
* * * * *
120513 AGATAGTTTTATCTAAAAACAAATTTTGTCTCGCTTA
1 AGACAATTTTATCTAAAAACAAATATTGTATCACTTA
120550 AGACAATTTTATC--AAAACAAAT
1 AGACAATTTTATCTAAAAACAAAT
120572 TTCATCTCGC
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
35 9 0.18
37 32 0.63
38 10 0.20
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.37
Consensus pattern (37 bp):
AGACAATTTTATCTAAAAACAAATATTGTATCACTTA
Found at i:120580 original size:35 final size:36
Alignment explanation
Indices: 120509--120593 Score: 102
Period size: 35 Copynumber: 2.4 Consensus size: 36
120499 TATTGTATCA
* * **
120509 CTTAAGATAGTTTTATCTAAAAACAAATTTTGTCTCG
1 CTTAAGACAATTTTATC-AAAAACAAATTTCATCTCG
120546 CTTAAGACAATTTTATC-AAAACAAATTTCATCTCG
1 CTTAAGACAATTTTATCAAAAACAAATTTCATCTCG
*
120581 CTTGAGAC-ATTTT
1 CTTAAGACAATTTT
120594 CCTTTACGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
34 5 0.12
35 23 0.53
37 15 0.35
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.39
Consensus pattern (36 bp):
CTTAAGACAATTTTATCAAAAACAAATTTCATCTCG
Found at i:121060 original size:40 final size:40
Alignment explanation
Indices: 120923--121071 Score: 127
Period size: 40 Copynumber: 3.7 Consensus size: 40
120913 GATGGTCTGC
* * *
120923 CATCCTCATCATGTAGAAACTGTGTCATCCACCGACCAGA
1 CATCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGA
* * * * * *** * *
120963 CCTCCTCATCATGTAAGAGCCGTGTCACCCTAGATAACTAGT
1 CATCCTCATCACGTAGGAACCGTGTCATCC-A-CCGACCAGA
* *
121005 CGTCCACATCACGTAGGAACCGTGTCATCCACCGACCAGA
1 CATCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGA
* *
121045 CATCCTCATCACGTAGGAGCCATGTCA
1 CATCCTCATCACGTAGGAACCGTGTCA
121072 CCCCTAGATA
Statistics
Matches: 81, Mismatches: 26, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
40 51 0.63
41 2 0.02
42 28 0.35
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (40 bp):
CATCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGA
Found at i:121071 original size:82 final size:83
Alignment explanation
Indices: 120923--121108 Score: 250
Period size: 82 Copynumber: 2.3 Consensus size: 83
120913 GATGGTCTGC
* * * * * * *
120923 CATCCTCATCATGTAGAAACTGTGTCATCCACCGACCAGACCTCCTCATCATGTAAGAGCCGTGT
1 CATCCACATCACGTAGGAACCGTGTCATCCACCGACCAGACATCCTCATCACGTAAGAGCCATGT
120988 CA-CCCTAGATAA-CTAGT
66 CACCCCTAGATAATC-AGT
* *
121005 CGTCCACATCACGTAGGAACCGTGTCATCCACCGACCAGACATCCTCATCACGTAGGAGCCATGT
1 CATCCACATCACGTAGGAACCGTGTCATCCACCGACCAGACATCCTCATCACGTAAGAGCCATGT
121070 CACCCCTAGATAATCAGT
66 CACCCCTAGATAATCAGT
* *
121088 CATCCTCATCGCGTAGGAACC
1 CATCCACATCACGTAGGAACC
121109 ATGTTATCAC
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
82 58 0.64
83 31 0.34
84 1 0.01
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.22
Consensus pattern (83 bp):
CATCCACATCACGTAGGAACCGTGTCATCCACCGACCAGACATCCTCATCACGTAAGAGCCATGT
CACCCCTAGATAATCAGT
Found at i:123579 original size:128 final size:125
Alignment explanation
Indices: 123400--123740 Score: 456
Period size: 125 Copynumber: 2.7 Consensus size: 125
123390 AGATGATAAA
* ** * **
123400 TAAAGTATTTATTTATTTAAAAATATTTAGAAAAAACTTCTAGTTGCTTTAAGACAACCCCTTTC
1 TAAAATATTTATTTATTTAAAAATA-CCAGAAAAGACTTCTAGTTGCTTTAAGACAACCAATTTC
123465 TTCAATATTAATAATAAATAAATAAACATTTTCCTAATAATAAAATTAATATA-AATTTATAAAA
65 TTCAATA-T--TAATAAATAAATAAACATTTTCCTAATAAT-AAATTAATATATAATTTA-AAAA
123529 G
125 G
* * * *
123530 TAAAATA-TTATTTATTTAAAAATACCAGAAAAGACTTTTAGTTGTTTTAAGACGATCAATTTCT
1 TAAAATATTTATTTATTTAAAAATACCAGAAAAGACTTCTAGTTGCTTTAAGACAACCAATTTCT
123594 TCAATATTAATAAATAAATAAACATTTTCCTAATAATAAATTAATATATAATTTAAAAAG
66 TCAATATTAATAAATAAATAAACATTTTCCTAATAATAAATTAATATATAATTTAAAAAG
* **
123654 TAAAATATTTATTTATTTAAAAATACCAGAAAATGAATTCTAGTTGCTTTAAGACAGTCAATTTC
1 TAAAATATTTATTTATTTAAAAATACCAGAAAA-GACTTCTAGTTGCTTTAAGACAACCAATTTC
*
123719 TT-AATATCGAA-AAATAAATAAA
65 TTCAATAT-TAATAAATAAATAAA
123741 TAATTTATTT
Statistics
Matches: 191, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
124 23 0.12
125 77 0.40
126 30 0.16
127 1 0.01
128 37 0.19
129 17 0.09
130 6 0.03
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (125 bp):
TAAAATATTTATTTATTTAAAAATACCAGAAAAGACTTCTAGTTGCTTTAAGACAACCAATTTCT
TCAATATTAATAAATAAATAAACATTTTCCTAATAATAAATTAATATATAATTTAAAAAG
Found at i:125049 original size:3 final size:3
Alignment explanation
Indices: 125039--125115 Score: 95
Period size: 3 Copynumber: 26.3 Consensus size: 3
125029 GTAATAATTT
* * * *
125039 ATA A-A ATA ATA ATA ATA ATA ATA ATT ATA GTA ATA ATG ATA ATA AGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
125086 ATA ATA ATA ATA ATA A-A ATA AAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
125116 AAGAAAACTG
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
2 4 0.06
3 58 0.94
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:125355 original size:45 final size:45
Alignment explanation
Indices: 125289--125810 Score: 893
Period size: 45 Copynumber: 11.6 Consensus size: 45
125279 GAGGTCTTAT
* * * * *
125289 CATCTTGCACTGTAGGTCTTACAGATGACCCTG-AGGCTTTAAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCC-GAAGGTTTTGAAAA
125334 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * *
125379 CATCATGCACTAAAGGGATTACAGAAGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
125424 CATCATGCACTGAAGGGCTTACAGATGACTCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
125469 CATCATGCACTGAAGGGCTTACAGATAACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
125514 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
125559 CATCATGCACTGATGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
125604 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
125649 CATCATGCACTGAAGGGCTTACAGATGGCCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
125694 CATCATGCACTGAAGGGCTTACAGATGACCCGAGGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
125739 CATCATGCATTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
125784 CATCATGCACTGAAGGGCTTACAGATG
1 CATCATGCACTGAAGGGCTTACAGATG
125811 TGGGAAATAG
Statistics
Matches: 452, Mismatches: 24, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
44 1 0.00
45 451 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (45 bp):
CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
Found at i:127077 original size:53 final size:53
Alignment explanation
Indices: 126870--127068 Score: 208
Period size: 53 Copynumber: 3.7 Consensus size: 53
126860 ATAATCTCTG
* ** *
126870 GTTCGTAAAACATTTGACAATACATTCATCCAGT-TGTGGCTTCTGTACAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCTGTGGCTTCTGCACAGAT
* * * *
126922 GTTTCGTAAAACATTTGAAAACATATTCATCCTTTCCTGTGGCTTATGCATAGAT
1 G-TTCGTAAAACATTTGACAACACATTCATCCTTT-CTGTGGCTTCTGCACAGAT
* * * * *
126977 GTTTGT-AAA-ATTTGACAACACATTAATCCTTTTCTGTGGATTTCTGCCCATAT
1 GTTCGTAAAACATTTGACAACACATTCATCC-TTTCTGTGG-CTTCTGCACAGAT
127030 GTTCGTAAAACATTTGACAA-ACATTCATCCTTTCATGTG
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTC-TGTG
127069 TTTTCTGCCT
Statistics
Matches: 120, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
52 24 0.20
53 51 0.43
54 20 0.17
55 25 0.21
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (53 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCTGTGGCTTCTGCACAGAT
Found at i:131404 original size:7 final size:7
Alignment explanation
Indices: 131392--131485 Score: 90
Period size: 7 Copynumber: 13.9 Consensus size: 7
131382 CTTGATTCAA
131392 TTTTTTC
1 TTTTTTC
131399 TTTTTTC
1 TTTTTTC
131406 TTTTTTC
1 TTTTTTC
131413 --TTTTC
1 TTTTTTC
*
131418 CTTTTTC
1 TTTTTTC
131425 TATTTTTC
1 T-TTTTTC
* *
131433 ATCTTT-
1 TTTTTTC
*
131439 TTTTCTC
1 TTTTTTC
131446 TTTTTT-
1 TTTTTTC
131452 TTTTTT-
1 TTTTTTC
*
131458 TTTTTTT
1 TTTTTTC
131465 TTTTTTC
1 TTTTTTC
131472 TTTTTTC
1 TTTTTTC
131479 TCTTTTT
1 T-TTTTT
131486 TTTGATGAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
5 5 0.07
6 15 0.21
7 42 0.58
8 11 0.15
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:131440 original size:1 final size:1
Alignment explanation
Indices: 131436--131488 Score: 61
Period size: 1 Copynumber: 53.0 Consensus size: 1
131426 ATTTTTCATC
* * * * *
131436 TTTTTTTCTCTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTTTCTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
131489 GATGAATGAG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:131441 original size:11 final size:10
Alignment explanation
Indices: 131406--131487 Score: 70
Period size: 9 Copynumber: 8.6 Consensus size: 10
131396 TTCTTTTTTC
131406 TTTTTTCT-T
1 TTTTTTCTCT
131415 TTCCTTTT-TCT
1 TT--TTTTCTCT
*
131426 ATTTTTCATCT
1 TTTTTTC-TCT
131437 TTTTTTCTCT
1 TTTTTTCTCT
131447 TTTTTT-T-T
1 TTTTTTCTCT
131455 TTTTTT-T-T
1 TTTTTTCTCT
*
131463 TTTTTTTTC-
1 TTTTTTCTCT
131472 TTTTTTCTCT
1 TTTTTTCTCT
131482 TTTTTT
1 TTTTTT
131488 TGATGAATGA
Statistics
Matches: 62, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
8 15 0.24
9 16 0.26
10 16 0.26
11 15 0.24
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTCTCT
Found at i:131455 original size:45 final size:44
Alignment explanation
Indices: 131392--131487 Score: 122
Period size: 47 Copynumber: 2.1 Consensus size: 44
131382 CTTGATTCAA
131392 TTTTTTC-TTTTTTCTTTTTTCTTTTCCTTTTTCTATTTTTCATCT
1 TTTTTTCTTTTTTTCTTTTTTCTTTTCCTTTTTCT-TTTTTC-TCT
* * **
131437 TTTTTTCTCTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTTTCTCT
1 TTTTTTCT-TTTTTTCTTTTTTCTTTTCCTTTTTCTTTTTTCTCT
131482 TTTTTT
1 TTTTTT
131488 TGATGAATGA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
45 16 0.36
46 6 0.13
47 23 0.51
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (44 bp):
TTTTTTCTTTTTTTCTTTTTTCTTTTCCTTTTTCTTTTTTCTCT
Found at i:131772 original size:2 final size:2
Alignment explanation
Indices: 131765--131794 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
131755 CAACAAGGGA
131765 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
131795 TTGAAAGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:135747 original size:47 final size:47
Alignment explanation
Indices: 135677--135776 Score: 148
Period size: 47 Copynumber: 2.1 Consensus size: 47
135667 ATCATGATAT
* * *
135677 AAAAATCCT-AACCTCATGCTTTCTAGTTCCATGCTTTGTTTGGAAAA
1 AAAAAT-CTAAACCGCATGATTTCTAGTTCCATGCTTTGTTTAGAAAA
*
135724 ATAAATCTAAACCGCATGATTTCTAGTTCCATGCTTTGTTTAGAAAA
1 AAAAATCTAAACCGCATGATTTCTAGTTCCATGCTTTGTTTAGAAAA
135771 AAAAAT
1 AAAAAT
135777 GAAATCAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 2 0.04
47 45 0.96
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (47 bp):
AAAAATCTAAACCGCATGATTTCTAGTTCCATGCTTTGTTTAGAAAA
Found at i:137099 original size:133 final size:133
Alignment explanation
Indices: 136808--137160 Score: 534
Period size: 133 Copynumber: 2.6 Consensus size: 133
136798 ATAAAGTATT
** * * * *
136808 TATTTATTTATTTAAAAATATTTAGAAAATGG-CTTCTAGTTGCTTTAAGATAGCCCATTTCTTC
1 TATTTATTTATTTAAAAATA-CCAGAAAAAGGACTTCTAGTTGCTTTAAGACAGTCAATTTCTTC
*
136872 AATTTTAATAAATAAATAAATAAAAAACATTTTCCTAATAATAAAATTAATATATAATTTATAAA
65 AATATTAATAAATAAATAAAT---AAACATTTTCCTAATAATAAAATTAATATATAATTTATAAA
136937 AGTAAAA
127 AGTAAAA
* *
136944 TATTTATTTATTTAAAAATACCAAAAAAAGGACTTCTAGTTGTTTTAAGACAGTCAATTTCTTCA
1 TATTTATTTATTTAAAAATACCAGAAAAAGGACTTCTAGTTGCTTTAAGACAGTCAATTTCTTCA
*
137009 ATATTAATAAATAAATAAATAAACATTTTCCTAATAATAAATTTAATATATAATTTATAAAAGTA
66 ATATTAATAAATAAATAAATAAACATTTTCCTAATAATAAAATTAATATATAATTTATAAAAGTA
137074 AAA
131 AAA
137077 TATTTATTTATTTAAAAATACCAGAAAAA-GACTTCTAGTTGCTTTAAGACAGTCAATTTCTT-A
1 TATTTATTTATTTAAAAATACCAGAAAAAGGACTTCTAGTTGCTTTAAGACAGTCAATTTCTTCA
*
137140 ATATCGAA-AAATAAATAAATA
66 ATAT-TAATAAATAAATAAATA
137161 TTTTTATTTA
Statistics
Matches: 202, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
131 18 0.09
132 34 0.17
133 75 0.37
135 7 0.03
136 68 0.34
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (133 bp):
TATTTATTTATTTAAAAATACCAGAAAAAGGACTTCTAGTTGCTTTAAGACAGTCAATTTCTTCA
ATATTAATAAATAAATAAATAAACATTTTCCTAATAATAAAATTAATATATAATTTATAAAAGTA
AAA
Found at i:137181 original size:2 final size:2
Alignment explanation
Indices: 137174--137219 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
137164 TTATTTAAAC
137174 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
137216 AT AT
1 AT AT
137220 GATTAAGATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:137286 original size:21 final size:21
Alignment explanation
Indices: 137227--137280 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
137217 TATGATTAAG
**
137227 ATAATAAAATA-ATTAAAGTA
1 ATAATAAAATATAACAAAGTA
137247 ATAATTAAAATATAACAAAGTA
1 ATAA-TAAAATATAACAAAGTA
*
137269 ATAATATAATAT
1 ATAATAAAATAT
137281 TGCAAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.14
21 14 0.48
22 11 0.38
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (21 bp):
ATAATAAAATATAACAAAGTA
Found at i:138529 original size:3 final size:3
Alignment explanation
Indices: 138519--138599 Score: 110
Period size: 3 Copynumber: 27.3 Consensus size: 3
138509 GTAATAATTT
* * *
138519 ATA A-A ATA ATA ATA ATA ATA ATA GTA ATA ATG ATG ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
138566 ATA ATA ATA ATA ATA ATA AAA ATA AAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
138600 AAGTAAACTA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
2 2 0.03
3 67 0.97
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:138600 original size:15 final size:15
Alignment explanation
Indices: 138556--138606 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
138546 TAATGATGAT
* *
138556 AATAATAATAATAAT
1 AATAAAAATAATAAA
*
138571 AATAATAATAATAAA
1 AATAAAAATAATAAA
138586 AATAAAAATAATAAA
1 AATAAAAATAATAAA
*
138601 AGTAAA
1 AATAAA
138607 CTAAAAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (15 bp):
AATAAAAATAATAAA
Found at i:139266 original size:23 final size:23
Alignment explanation
Indices: 139232--139293 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
139222 AACTTATATA
139232 GCACTTCGGTGCATTTCTACACG
1 GCACTTCGGTGCATTTCTACACG
* * **
139255 GCACTTCAGTGCAATTCTACGTG
1 GCACTTCGGTGCATTTCTACACG
139278 GCACTTCGGTGCATTT
1 GCACTTCGGTGCATTT
139294 ATATGAGCTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (23 bp):
GCACTTCGGTGCATTTCTACACG
Found at i:144348 original size:15 final size:15
Alignment explanation
Indices: 144328--144357 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
144318 ATAAAGATGT
144328 TCTACGTGTAAGTGA
1 TCTACGTGTAAGTGA
*
144343 TCTACGTGTATGTGA
1 TCTACGTGTAAGTGA
144358 ATTATATGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.37
Consensus pattern (15 bp):
TCTACGTGTAAGTGA
Found at i:144675 original size:23 final size:23
Alignment explanation
Indices: 144649--144710 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
144639 ACATTATATA
144649 GCACTTTGGTGCATTTCTACGCG
1 GCACTTTGGTGCATTTCTACGCG
* * *
144672 GCACTTCGGTGCAATTCTACGTG
1 GCACTTTGGTGCATTTCTACGCG
144695 GCACTTTGGTGCATTT
1 GCACTTTGGTGCATTT
144711 ATATGAGCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (23 bp):
GCACTTTGGTGCATTTCTACGCG
Found at i:155278 original size:12 final size:12
Alignment explanation
Indices: 155249--155282 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
155239 CTCCTACGAT
*
155249 ACAACAATCAATC
1 ACAACAAT-AAGC
155262 ACAACAATAAGC
1 ACAACAATAAGC
155274 ACAACAATA
1 ACAACAATA
155283 GTGACCAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.59, C:0.26, G:0.03, T:0.12
Consensus pattern (12 bp):
ACAACAATAAGC
Found at i:155803 original size:20 final size:20
Alignment explanation
Indices: 155756--155813 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
155746 AAATAACTAA
155756 CAAATTCGCAACACGAACTC
1 CAAATTCGCAACACGAACTC
* * ***
155776 TAATTTCGCAACACGGTTTC
1 CAAATTCGCAACACGAACTC
* *
155796 CAAATTCGTAACTCGAAC
1 CAAATTCGCAACACGAAC
155814 ATAAATATTT
Statistics
Matches: 26, Mismatches: 12, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.24
Consensus pattern (20 bp):
CAAATTCGCAACACGAACTC
Done.