Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005486.1 Hibiscus syriacus cultivar Beakdansim tig00012606_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: 117429
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:2785 original size:25 final size:26
Alignment explanation
Indices: 2752--2812 Score: 88
Period size: 25 Copynumber: 2.3 Consensus size: 26
2742 GGTCGAGTCG
2752 GGTCGGGTTTTTTTAA-GTGATATTC
1 GGTCGGGTTTTTTTAAGGTGATATTC
*
2777 GGTCTGGTTTTTTTAAGTGTGATATTC
1 GGTCGGGTTTTTTTAAG-GTGATATTC
2804 GGGTCGGGT
1 -GGTCGGGT
2813 CGGGTTCGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 15 0.48
27 9 0.29
28 7 0.23
ACGTcount: A:0.13, C:0.08, G:0.33, T:0.46
Consensus pattern (26 bp):
GGTCGGGTTTTTTTAAGGTGATATTC
Found at i:3389 original size:18 final size:17
Alignment explanation
Indices: 3346--3391 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
3336 TATGGAATTT
* *
3346 GATTCCAATTCCTGATA
1 GATTCCAATTCCTCACA
*
3363 GATTTCAATTCCTTCACA
1 GATTCCAATTCC-TCACA
3381 GATTCCAATTC
1 GATTCCAATTC
3392 TCTTATAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.37
Consensus pattern (17 bp):
GATTCCAATTCCTCACA
Found at i:5097 original size:18 final size:18
Alignment explanation
Indices: 5065--5116 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
5055 CCAGAATGTA
* *
5065 AAAATGGTACCGATACCC
1 AAAAGGGTACTGATACCC
*
5083 AAAGGGGTACTGATACCC
1 AAAAGGGTACTGATACCC
5101 AAAAGGGTACTGATAC
1 AAAAGGGTACTGATAC
5117 TCTGTATAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (18 bp):
AAAAGGGTACTGATACCC
Found at i:11105 original size:16 final size:16
Alignment explanation
Indices: 11072--11105 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11062 TTTTACGGAT
**
11072 AAAAAACCGGTTTGAA
1 AAAAAACCGGTTAAAA
11088 AAAAAACCGGTTAAAA
1 AAAAAACCGGTTAAAA
11104 AA
1 AA
11106 CCGGTTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.15
Consensus pattern (16 bp):
AAAAAACCGGTTAAAA
Found at i:13414 original size:21 final size:21
Alignment explanation
Indices: 13390--13429 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13380 TTTATTTTAT
13390 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
13411 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
13430 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:13477 original size:33 final size:33
Alignment explanation
Indices: 13424--13522 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
13414 TTTGTTTCAA
13424 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
13456 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
13489 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
13522 T
1 T
13523 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:13917 original size:15 final size:15
Alignment explanation
Indices: 13892--13946 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
13882 ATCTAGAATA
*
13892 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
13907 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
**
13922 AAAAAAACCGGTTTTT
1 -TTAAAACCGGTTTTT
13938 TTAAAACCG
1 TTAAAACCG
13947 AAACCGGTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
15 20 0.62
16 12 0.38
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.42
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:13943 original size:16 final size:16
Alignment explanation
Indices: 13894--13943 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
13884 CTAGAATATT
*
13894 AAAATCGGTTTTTTT-
1 AAAACCGGTTTTTTTA
* **
13909 ATAACCGGTTTTTAAA
1 AAAACCGGTTTTTTTA
13925 AAAACCGGTTTTTTTA
1 AAAACCGGTTTTTTTA
13941 AAA
1 AAA
13944 CCGAAACCGG
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
15 11 0.41
16 16 0.59
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (16 bp):
AAAACCGGTTTTTTTA
Found at i:14063 original size:15 final size:17
Alignment explanation
Indices: 14037--14068 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14027 TTCTATGGGA
14037 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
14053 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
14069 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:19968 original size:20 final size:21
Alignment explanation
Indices: 19943--19984 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
19933 TGATTTACTA
*
19943 AATTG-TAAAAAGAATAAATT
1 AATTGTTAAAAAGAAAAAATT
*
19963 AATTGTTAAAAATAAAAAATT
1 AATTGTTAAAAAGAAAAAATT
19984 A
1 A
19985 GCTTACATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (21 bp):
AATTGTTAAAAAGAAAAAATT
Found at i:20993 original size:33 final size:33
Alignment explanation
Indices: 20948--21015 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
20938 CCGTTAATAA
*
20948 CTAAGTAGTTTAGATATCCTATAACTCTTATCT
1 CTAAGTAATTTAGATATCCTATAACTCTTATCT
* *
20981 CTAAGTAATTTAGATATTCTATATCTCTTATCT
1 CTAAGTAATTTAGATATCCTATAACTCTTATCT
21014 CT
1 CT
21016 TAATAGGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.46
Consensus pattern (33 bp):
CTAAGTAATTTAGATATCCTATAACTCTTATCT
Found at i:21651 original size:36 final size:36
Alignment explanation
Indices: 21603--21747 Score: 231
Period size: 36 Copynumber: 4.1 Consensus size: 36
21593 AAAAGAAAAA
* *
21603 CACATATATTATCATCTAGAATTGAATTCAATCAAG
1 CACATCTATTATCATCTAGAATTGAATTCAACCAAG
* *
21639 CACATCTGTTATCATCTAGAATTGAATTCAATCAAG
1 CACATCTATTATCATCTAGAATTGAATTCAACCAAG
21675 CACATCTATTATCATCTAGAATTGAATTCAACCAAG
1 CACATCTATTATCATCTAGAATTGAATTCAACCAAG
*
21711 CACATCTATTA--ATCTAGAATTCAATTCAACCAAG
1 CACATCTATTATCATCTAGAATTGAATTCAACCAAG
21745 CAC
1 CAC
21748 GGAAACCCCC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
34 25 0.24
36 79 0.76
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (36 bp):
CACATCTATTATCATCTAGAATTGAATTCAACCAAG
Found at i:22346 original size:10 final size:10
Alignment explanation
Indices: 22312--22348 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
22302 CGTTTGGTTT
22312 GAGGGAAAGG
1 GAGGGAAAGG
*
22322 GAGAGAAAGGG
1 GAGGGAAA-GG
22333 GAGGGAAAGG
1 GAGGGAAAGG
22343 GAGGGA
1 GAGGGA
22349 GAGTATGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (10 bp):
GAGGGAAAGG
Found at i:22658 original size:2 final size:2
Alignment explanation
Indices: 22651--22677 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22641 ATCATTTAAT
22651 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 T
22678 CTAATCAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22886 original size:31 final size:30
Alignment explanation
Indices: 22849--22943 Score: 81
Period size: 31 Copynumber: 3.1 Consensus size: 30
22839 AAATTTTAAA
22849 CATTCTAATTTCATCCCAAAACTATGAATCT
1 CATTCTAATTTCATCCCAAAACTATGAAT-T
* ** *
22880 CATTCTAAATT-AGTCCTTAAACTCTTGAA--
1 CATTCTAATTTCA-TCCCAAAACT-ATGAATT
22909 CATTCTAATTTCAT-CCACAAACTATGAATAT
1 CATTCTAATTTCATCCCA-AAACTATGAAT-T
22940 CATT
1 CATT
22944 TTAAATTGGT
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
28 5 0.10
29 16 0.33
30 2 0.04
31 22 0.45
32 4 0.08
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.37
Consensus pattern (30 bp):
CATTCTAATTTCATCCCAAAACTATGAATT
Found at i:22930 original size:29 final size:27
Alignment explanation
Indices: 22847--22936 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 27
22837 TAAAATTTTA
22847 AACATTCTAATTTCATCCCAAAACTATG
1 AACATTCTAATTTCATCCC-AAACTATG
* * *
22875 AATCTCATTCTAAATT-AGTCCTTAAACTCTTG
1 AA---CATTCTAATTTCA-TCC-CAAACT-ATG
22907 AACATTCTAATTTCATCCACAAACTATG
1 AACATTCTAATTTCATCC-CAAACTATG
22935 AA
1 AA
22937 TATCATTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
28 6 0.12
29 18 0.38
30 2 0.04
31 18 0.38
32 4 0.08
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.34
Consensus pattern (27 bp):
AACATTCTAATTTCATCCCAAACTATG
Found at i:22937 original size:60 final size:60
Alignment explanation
Indices: 22807--22961 Score: 195
Period size: 60 Copynumber: 2.6 Consensus size: 60
22797 ATATATTTTT
** * * *
22807 AAACTATGACCCTAATTTTAAATTAGTCTTTAAAATTTTAAACATTCTAATTTCATCCCA
1 AAACTATGAATCTCATTTTAAATTAGTCCTTAAAATCTTAAACATTCTAATTTCATCCCA
* * *
22867 AAACTATGAATCTCATTCTAAATTAGTCCTTAAACTCTTGAACATTCTAATTTCAT-CCA
1 AAACTATGAATCTCATTTTAAATTAGTCCTTAAAATCTTAAACATTCTAATTTCATCCCA
* * *
22926 CAAACTATGAATATCATTTTAAATTGGTCCCTAAAA
1 -AAACTATGAATCTCATTTTAAATTAGTCCTTAAAA
22962 ATTTGCATCT
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
59 3 0.04
60 78 0.96
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.37
Consensus pattern (60 bp):
AAACTATGAATCTCATTTTAAATTAGTCCTTAAAATCTTAAACATTCTAATTTCATCCCA
Found at i:22979 original size:60 final size:59
Alignment explanation
Indices: 22825--22985 Score: 155
Period size: 60 Copynumber: 2.7 Consensus size: 59
22815 ACCCTAATTT
* * * * * *
22825 TAAATTAGTCTTTAAAATTTTAAACATTCTAATTTCATCCCAAAACTATGAATCTCATTC
1 TAAATTAGTCCTAAAAATCTTGAACATTCCAATTTCATCCC-AAACTATGAATATCATTC
* * * *
22885 TAAATTAGTCCTTAAACTCTTGAACATTCTAATTTCATCCACAAACTATGAATATCATTT
1 TAAATTAGTCCTAAAAATCTTGAACATTCCAATTTCATCC-CAAACTATGAATATCATTC
* * *
22945 TAAATTGGTCCCTAAAAAT-TTGCATC-TTCCAATTTTATCCC
1 TAAATTAGT-CCTAAAAATCTTG-AACATTCCAATTTCATCCC
22986 CAAATTCATC
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
59 1 0.01
60 75 0.87
61 10 0.12
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.39
Consensus pattern (59 bp):
TAAATTAGTCCTAAAAATCTTGAACATTCCAATTTCATCCCAAACTATGAATATCATTC
Found at i:23575 original size:2 final size:2
Alignment explanation
Indices: 23565--23629 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
23555 TTTTTATAAT
*
23565 TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23607 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
23630 TATCATATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:28719 original size:19 final size:19
Alignment explanation
Indices: 28695--28731 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
28685 AAACTCAAAA
28695 AAATAACATTCTATAACTG
1 AAATAACATTCTATAACTG
* *
28714 AAATAATATTTTATAACT
1 AAATAACATTCTATAACT
28732 TTTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.38
Consensus pattern (19 bp):
AAATAACATTCTATAACTG
Found at i:29660 original size:7 final size:7
Alignment explanation
Indices: 29650--29674 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
29640 TTTATTTGGA
29650 AAATAAT
1 AAATAAT
29657 AAATAAT
1 AAATAAT
29664 AAATAAT
1 AAATAAT
29671 AAAT
1 AAAT
29675 TACACGTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATAAT
Found at i:31362 original size:4 final size:4
Alignment explanation
Indices: 31353--31385 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
31343 GGGTGTTATA
31353 TATG TATG TATG TATG TATG TATG TATG T-TG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TA
31386 GAGTTTGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:33066 original size:29 final size:29
Alignment explanation
Indices: 33023--33105 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
33013 CTCACCTAAC
33023 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
33053 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
33082 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
33106 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:36494 original size:15 final size:15
Alignment explanation
Indices: 36474--36503 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36464 CTTTCTCATA
36474 GTTATTGTTGGAATT
1 GTTATTGTTGGAATT
*
36489 GTTATTGTTGTAATT
1 GTTATTGTTGGAATT
36504 CCAGCCTCGT
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:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (15 bp):
GTTATTGTTGGAATT
Found at i:37835 original size:29 final size:29
Alignment explanation
Indices: 37792--37874 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
37782 CTCACCTAAC
37792 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
37822 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
37851 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
37875 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:42737 original size:24 final size:24
Alignment explanation
Indices: 42703--42813 Score: 84
Period size: 24 Copynumber: 4.6 Consensus size: 24
42693 TAGAGCATTA
*
42703 TATGTGTAATTCTACGTGACACTT
1 TATGTGAAATTCTACGTGACACTT
*
42727 TATGTGAAATTCTACGT-AGTACTT
1 TATGTGAAATTCTACGTGA-CACTT
* * *
42751 TATGT-ATAACTTTTACGTGGCACTA
1 TATGTGA-AA-TTCTACGTGACACTT
* * *
42776 TATGTGCAAA-TCTATGTGGCATTT
1 TATGTG-AAATTCTACGTGACACTT
*
42800 TATGTGAAAATCTA
1 TATGTGAAATTCTA
42814 TGGGGTATTA
Statistics
Matches: 70, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
23 5 0.07
24 47 0.67
25 15 0.21
26 2 0.03
27 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.41
Consensus pattern (24 bp):
TATGTGAAATTCTACGTGACACTT
Found at i:42793 original size:12 final size:12
Alignment explanation
Indices: 42776--42865 Score: 58
Period size: 12 Copynumber: 7.5 Consensus size: 12
42766 CGTGGCACTA
*
42776 TATGTGCAAATC
1 TATGTGCAATTC
*
42788 TATGTGGC-ATTT
1 TATGT-GCAATTC
* *
42800 TATGTGAAAATC
1 TATGTGCAATTC
* ** *
42812 TATGGGGTATTA
1 TATGTGCAATTC
42824 TATGTGCAATTC
1 TATGTGCAATTC
* *
42836 TATGTGGC-ACTA
1 TATGT-GCAATTC
42848 TATGTGCAATTC
1 TATGTGCAATTC
42860 TATGTG
1 TATGTG
42866 GCACGAGTCT
Statistics
Matches: 56, Mismatches: 18, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
11 3 0.05
12 49 0.88
13 4 0.07
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (12 bp):
TATGTGCAATTC
Found at i:42802 original size:49 final size:48
Alignment explanation
Indices: 42696--42804 Score: 112
Period size: 49 Copynumber: 2.2 Consensus size: 48
42686 ATAGAGTTAG
* * *
42696 AGCATTATATGTGTAATTCTACGTGACACTTTATGTGAAATTCTACGT
1 AGCATTTTATGTATAATTCTACGTGACACTATATGTGAAATTCTACGT
* * * * *
42744 AGTACTTTATGTATAACTTTTACGTGGCACTATATGTGCAAA-TCTATGT
1 AGCATTTTATGTATAA-TTCTACGTGACACTATATGTG-AAATTCTACGT
*
42793 GGCATTTTATGT
1 AGCATTTTATGT
42805 GAAAATCTAT
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
48 12 0.25
49 33 0.69
50 3 0.06
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (48 bp):
AGCATTTTATGTATAATTCTACGTGACACTATATGTGAAATTCTACGT
Found at i:42814 original size:24 final size:24
Alignment explanation
Indices: 42767--42869 Score: 134
Period size: 24 Copynumber: 4.3 Consensus size: 24
42757 TAACTTTTAC
42767 GTGGCACTATATGTGCAAATCTAT
1 GTGGCACTATATGTGCAAATCTAT
* * *
42791 GTGGCATTTTATGTGAAAATCTAT
1 GTGGCACTATATGTGCAAATCTAT
* * * *
42815 GGGGTATTATATGTGCAATTCTAT
1 GTGGCACTATATGTGCAAATCTAT
*
42839 GTGGCACTATATGTGCAATTCTAT
1 GTGGCACTATATGTGCAAATCTAT
42863 GTGGCAC
1 GTGGCAC
42870 GAGTCTGACG
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (24 bp):
GTGGCACTATATGTGCAAATCTAT
Found at i:46547 original size:51 final size:51
Alignment explanation
Indices: 46471--46570 Score: 191
Period size: 51 Copynumber: 2.0 Consensus size: 51
46461 TTTGATGTTA
*
46471 AGCTTAGTATAAGTATAATGGACATATCATAGAATCCATTACGTTCGTGTG
1 AGCTTAGTATAAGTATAATCGACATATCATAGAATCCATTACGTTCGTGTG
46522 AGCTTAGTATAAGTATAATCGACATATCATAGAATCCATTACGTTCGTG
1 AGCTTAGTATAAGTATAATCGACATATCATAGAATCCATTACGTTCGTG
46571 CGAGGGTTTG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (51 bp):
AGCTTAGTATAAGTATAATCGACATATCATAGAATCCATTACGTTCGTGTG
Found at i:46902 original size:17 final size:17
Alignment explanation
Indices: 46882--46916 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
46872 TATATATTTA
46882 AAAATTAAAATTATTAT
1 AAAATTAAAATTATTAT
**
46899 AAAATTAATTTTATTAT
1 AAAATTAAAATTATTAT
46916 A
1 A
46917 TGACACGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAAATTAAAATTATTAT
Found at i:48029 original size:21 final size:21
Alignment explanation
Indices: 48005--48049 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
47995 ATAAAAAAAA
*
48005 TTACCTAAAATATAATTATTT
1 TTACCTAAAACATAATTATTT
* *
48026 TTACTTAAAACATTATTATTT
1 TTACCTAAAACATAATTATTT
48047 TTA
1 TTA
48050 ATATTTCTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (21 bp):
TTACCTAAAACATAATTATTT
Found at i:48677 original size:2 final size:2
Alignment explanation
Indices: 48666--48710 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
48656 ATCATTTAAA
48666 AT AT -T 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
48707 AT AT
1 AT AT
48711 TTCTTTAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:50849 original size:2 final size:2
Alignment explanation
Indices: 50831--50878 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
50821 GTGGGGAAAA
50831 AT AT -T AT A- AT A- 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
50870 AT AT AT AT A
1 AT AT AT AT A
50879 ATAAAAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 40 0.93
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50971 original size:100 final size:103
Alignment explanation
Indices: 50763--50971 Score: 225
Period size: 100 Copynumber: 2.0 Consensus size: 103
50753 CAATGATTCC
* *
50763 ATATATTATTATAATTAATAAAAACACTAAACCACTATAACTTAAATTAAGGAAATAAGTGGGGA
1 ATATATTATTATAATTAATAAAAACACTAAACCACTATAACTTAAATTAAGAAAACAAGTGGGG-
* * * * *
50828 AAAATATTATAATAATATATATATATATATATATATATAT
65 -AAATATAATAATAATATATATATATAAATAAAAAAATAT
*
50868 ATATA-TA-TATAA-TAA-AAAAA-ACTAAACCACTATAGCTTAAATTAAGAAAAACAAGT-GGG
1 ATATATTATTATAATTAATAAAAACACTAAACCACTATAACTTAAATTAAG-AAAACAAGTGGGG
**
50927 -AATATAATAATTCTATATATATTATAAATAAAAAAACTACT
65 AAATATAATAATAATATATATA-TATAAATAAAAAAA-TA-T
50968 ATAT
1 ATAT
50972 CTTGAACAAA
Statistics
Matches: 90, Mismatches: 10, Indels: 13
0.80 0.09 0.12
Matches are distributed among these distances:
97 18 0.20
98 10 0.11
99 2 0.02
100 33 0.37
101 12 0.13
102 3 0.03
103 5 0.06
104 2 0.02
105 5 0.06
ACGTcount: A:0.54, C:0.07, G:0.06, T:0.33
Consensus pattern (103 bp):
ATATATTATTATAATTAATAAAAACACTAAACCACTATAACTTAAATTAAGAAAACAAGTGGGGA
AATATAATAATAATATATATATATAAATAAAAAAATAT
Found at i:51033 original size:2 final size:2
Alignment explanation
Indices: 51026--51201 Score: 145
Period size: 2 Copynumber: 90.5 Consensus size: 2
51016 CAACCAACTA
51026 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
* * *
51068 AT AT AT AT AT AT AT AT AT AT AT AT AT -T CAT AG AT -T GAT GT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT -AT AT AT
* * * *
51110 A- AT A- AA AA AT AT AT AT AA AT -T AT AT AT AT AT AT -T CAT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
* * * * *
51149 AT -T GAT GT TT A- AT AA AA AT AT AT AT AA AT -T 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
51189 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
51202 CGTAAATCAA
Statistics
Matches: 144, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
1 9 0.06
2 131 0.91
3 4 0.03
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:51532 original size:69 final size:69
Alignment explanation
Indices: 51452--51587 Score: 254
Period size: 69 Copynumber: 2.0 Consensus size: 69
51442 GAATTACCAT
* *
51452 ACTTTTAATATATAATATAAAGTTAAAGTAATCATACATAAAATATATATAAGACACCACAACCA
1 ACTTTTAATATATAATATAAAGGTAAAGTAAACATACATAAAATATATATAAGACACCACAACCA
51517 ACAC
66 ACAC
51521 ACTTTTAATATATAATATAAAGGTAAAGTAAACATACATAAAATATATATAAGACACCACAACCA
1 ACTTTTAATATATAATATAAAGGTAAAGTAAACATACATAAAATATATATAAGACACCACAACCA
51586 AC
66 AC
51588 GTGGGTCACT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.26
Consensus pattern (69 bp):
ACTTTTAATATATAATATAAAGGTAAAGTAAACATACATAAAATATATATAAGACACCACAACCA
ACAC
Found at i:54687 original size:25 final size:25
Alignment explanation
Indices: 54659--54706 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
54649 TTACTATAAG
* *
54659 GTAATTTTTTAACTTTATTTTTTTA
1 GTAATTTTTTAAATTTACTTTTTTA
54684 GTAATTTTTTAAATTTACTTTTT
1 GTAATTTTTTAAATTTACTTTTT
54707 ATCATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (25 bp):
GTAATTTTTTAAATTTACTTTTTTA
Found at i:54717 original size:22 final size:21
Alignment explanation
Indices: 54689--54738 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
54679 TTTTAGTAAT
54689 TTTTTAAATTTACTTT-TTATCA
1 TTTTTAAATTTA-TTTATTAT-A
*
54711 TTTTTAATTTTATTTATTATA
1 TTTTTAAATTTATTTATTATA
54732 TTATTTA
1 TT-TTTA
54739 GATGATGGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTAAATTTATTTATTATA
Found at i:56415 original size:23 final size:22
Alignment explanation
Indices: 56389--56452 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 22
56379 AAATTATATT
56389 ATTA-ATTCTAATATTTTATGTAA
1 ATTAGATT-TAAT-TTTTATGTAA
56412 ATTATAGATTTAATTTTTATGTAA
1 A-T-TAGATTTAATTTTTATGTAA
56436 ATTATAGATTTAATTTT
1 A-T-TAGATTTAATTTT
56453 ACTTTCAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
23 1 0.03
24 28 0.74
25 6 0.16
26 3 0.08
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.55
Consensus pattern (22 bp):
ATTAGATTTAATTTTTATGTAA
Found at i:56434 original size:24 final size:24
Alignment explanation
Indices: 56397--56452 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
56387 TTATTAATTC
56397 TAATATTTTATGTAAATTATAGATT
1 TAAT-TTTTATGTAAATTATAGATT
56422 TAATTTTTATGTAAATTATAGATT
1 TAATTTTTATGTAAATTATAGATT
56446 TAATTTT
1 TAATTTT
56453 ACTTTCAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (24 bp):
TAATTTTTATGTAAATTATAGATT
Found at i:57292 original size:2 final size:2
Alignment explanation
Indices: 57285--57321 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
57275 TTCATACATT
57285 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 T
57322 GATGAAATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:57696 original size:2 final size:2
Alignment explanation
Indices: 57689--57718 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
57679 TAAAAATAAT
57689 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
57719 TAATAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:57739 original size:24 final size:26
Alignment explanation
Indices: 57682--57776 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 26
57672 TAAATATTAA
* * *
57682 AAATAATTATATATATATATATATATAT
1 AAATAA-TATAAATATATATTTA-ATTT
* *
57710 ATATAATATTAATA-A-ATTTAATTT
1 AAATAATATAAATATATATTTAATTT
57734 AAATAA-A-AAATATATATTTAATTT
1 AAATAATATAAATATATATTTAATTT
*
57758 AAATATATATATATATATA
1 AAATA-ATATAAATATATA
57777 CCCGGCCCGA
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
22 4 0.07
23 2 0.04
24 22 0.41
25 5 0.09
26 2 0.04
27 14 0.26
28 5 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AAATAATATAAATATATATTTAATTT
Found at i:57754 original size:19 final size:19
Alignment explanation
Indices: 57730--57769 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
57720 AATAAATTTA
57730 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
57749 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
57768 AT
1 AT
57770 ATATATACCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:61120 original size:32 final size:33
Alignment explanation
Indices: 61046--61123 Score: 86
Period size: 37 Copynumber: 2.3 Consensus size: 33
61036 AATCGGGTTC
* * *
61046 GGGTCGGGTCGGTTTTTTTAAGTTTGATATTCGA
1 GGGTCGGGTCGGATTTTCTAAGTGTGATATTC-A
61080 GTCTGGTCGGGTCGGATTTTCTAAGTGTGATATT-A
1 G---GGTCGGGTCGGATTTTCTAAGTGTGATATTCA
61115 GGGTCGGGT
1 GGGTCGGGT
61124 TTTTTTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
32 8 0.21
34 1 0.03
35 2 0.05
37 27 0.71
ACGTcount: A:0.14, C:0.10, G:0.36, T:0.40
Consensus pattern (33 bp):
GGGTCGGGTCGGATTTTCTAAGTGTGATATTCA
Found at i:61223 original size:28 final size:28
Alignment explanation
Indices: 61170--61264 Score: 140
Period size: 28 Copynumber: 3.5 Consensus size: 28
61160 AAAAATCGAG
*
61170 TTCGGGTCAGG-TTTTTTAAGTTTGATA
1 TTCGGGTCAGGTTTTTTTAAGTGTGATA
*
61197 TTCGGGTCGGGTTTTTTTAAGTGTGATA
1 TTCGGGTCAGGTTTTTTTAAGTGTGATA
*
61225 TTCGGGTAAGGTTTTTTTAAGTGTGATA
1 TTCGGGTCAGGTTTTTTTAAGTGTGATA
*
61253 TTCGAGTC-GGTT
1 TTCGGGTCAGGTT
61265 CGGGTTTAGG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 14 0.23
28 47 0.77
ACGTcount: A:0.17, C:0.07, G:0.29, T:0.46
Consensus pattern (28 bp):
TTCGGGTCAGGTTTTTTTAAGTGTGATA
Found at i:61575 original size:16 final size:16
Alignment explanation
Indices: 61554--61584 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61544 GTTTCAGATT
61554 TAGATTCCAATTCCTA
1 TAGATTCCAATTCCTA
*
61570 TAGATTTCAATTCCT
1 TAGATTCCAATTCCT
61585 TCACATATTC
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:0.23, G:0.06, T:0.42
Consensus pattern (16 bp):
TAGATTCCAATTCCTA
Found at i:62511 original size:20 final size:20
Alignment explanation
Indices: 62476--62513 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
62466 TCGAGGAAAA
**
62476 GGAGGAGAAGTGAAGAGGAG
1 GGAGGAGAAGAAAAGAGGAG
62496 GGAGGAGAAGAAAAGAGG
1 GGAGGAGAAGAAAAGAGG
62514 GTGAAGTTGG
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:0.45, C:0.00, G:0.53, T:0.03
Consensus pattern (20 bp):
GGAGGAGAAGAAAAGAGGAG
Found at i:63538 original size:34 final size:33
Alignment explanation
Indices: 63478--63543 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 33
63468 CTTACATAAT
* **
63478 TTTTTGGTCAAAATAAATATTTAAAGTTATTTTC
1 TTTTTGGACAAAATAAATATCAAAAG-TATTTTC
*
63512 TTTTTGGACAAAATAGATATCAAAAGTATTTT
1 TTTTTGGACAAAATAAATATCAAAAGTATTTT
63544 TTGGTCAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 6 0.21
34 22 0.79
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (33 bp):
TTTTTGGACAAAATAAATATCAAAAGTATTTTC
Found at i:63688 original size:28 final size:28
Alignment explanation
Indices: 63652--63752 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 28
63642 AAAATGTTTG
* *
63652 AATAGTTTAGGTACCTATTTTGACATAA
1 AATACTTTAGGTACCTATTTTGACAAAA
63680 AATACTTTAGGTACCTATTTTGACTAAAA
1 AATACTTTAGGTACCTATTTTGAC-AAAA
* * **
63709 AATAATTTTAAGTATTTATTTTGACCAAAA
1 AAT-ACTTTAGGTACCTATTTTGA-CAAAA
63739 AATACTTTAGGTAC
1 AATACTTTAGGTAC
63753 TTAAACGAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 14 0.23
30 23 0.38
31 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.40
Consensus pattern (28 bp):
AATACTTTAGGTACCTATTTTGACAAAA
Found at i:65541 original size:2 final size:2
Alignment explanation
Indices: 65534--65597 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
65524 TAACTCCGGC
65534 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
65576 GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA
65598 CCTGTATAAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:71167 original size:52 final size:52
Alignment explanation
Indices: 71089--71187 Score: 189
Period size: 52 Copynumber: 1.9 Consensus size: 52
71079 ATGAGATAGT
71089 AAACATACTACCGTCCTTATATTTCATTATCCTTTGATTTGATCTTTGATTC
1 AAACATACTACCGTCCTTATATTTCATTATCCTTTGATTTGATCTTTGATTC
*
71141 AAACATACTACCGTCGTTATATTTCATTATCCTTTGATTTGATCTTT
1 AAACATACTACCGTCCTTATATTTCATTATCCTTTGATTTGATCTTT
71188 TCATGCATCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.46
Consensus pattern (52 bp):
AAACATACTACCGTCCTTATATTTCATTATCCTTTGATTTGATCTTTGATTC
Found at i:71430 original size:32 final size:32
Alignment explanation
Indices: 71394--71471 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
71384 ATATAATGTT
* * * *
71394 TCATGTCTTTATTTATGTGTACGTAATATATA
1 TCATGTCATTATTTATATATACATAATATATA
* *
71426 TCATGTCATCATTTATATATACATAATATGTA
1 TCATGTCATTATTTATATATACATAATATATA
*
71458 TCATATCATTATTT
1 TCATGTCATTATTT
71472 TAAATATATG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.49
Consensus pattern (32 bp):
TCATGTCATTATTTATATATACATAATATATA
Found at i:72994 original size:22 final size:21
Alignment explanation
Indices: 72958--73004 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 21
72948 TTTTGAGGTT
72958 ATTTAAAAATATAT-ATTTTA
1 ATTTAAAAATATATAATTTTA
72978 ATTTAAAAATATATATAATTTTA
1 ATTT-AAAA-ATATATAATTTTA
73001 ATTT
1 ATTT
73005 TAAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
22 6 0.25
23 10 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTAAAAATATATAATTTTA
Found at i:73001 original size:18 final size:18
Alignment explanation
Indices: 72958--72998 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
72948 TTTTGAGGTT
72958 ATTTAAAAATATATATTTTA
1 ATTTAAAAATATATA--TTA
72978 ATTTAAAAATATATA-TA
1 ATTTAAAAATATATATTA
72995 ATTT
1 ATTT
72999 TAATTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
20 15 0.71
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTAAAAATATATATTA
Found at i:73009 original size:22 final size:21
Alignment explanation
Indices: 72959--73010 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
72949 TTTGAGGTTA
*
72959 TTTAAAAATATATATTTTAAT
1 TTTAAATATATATATTTTAAT
*
72980 TTAAAAATATATATAATTTTAAT
1 TT-TAAATATATAT-ATTTTAAT
73003 TTTAAATA
1 TTTAAATA
73011 AAATTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 2 0.08
22 14 0.54
23 10 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTAAATATATATATTTTAAT
Found at i:76247 original size:25 final size:25
Alignment explanation
Indices: 76219--76270 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
76209 AGACATCTCC
76219 ACCCGTACA-ACGAGAGAAACTCGAG
1 ACCCGTA-AGACGAGAGAAACTCGAG
* *
76244 ACCCGTAAGGCGAGAGAAGCTCGAG
1 ACCCGTAAGACGAGAGAAACTCGAG
76269 AC
1 AC
76271 AATGTTAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.37, C:0.27, G:0.29, T:0.08
Consensus pattern (25 bp):
ACCCGTAAGACGAGAGAAACTCGAG
Found at i:79069 original size:2 final size:2
Alignment explanation
Indices: 79058--79100 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
79048 TCTAGATTTA
79058 AT AT -T 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
79099 AT
1 AT
79101 TTAATAATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:83006 original size:23 final size:23
Alignment explanation
Indices: 82928--83007 Score: 83
Period size: 24 Copynumber: 3.5 Consensus size: 23
82918 ATATGTTTTT
* *
82928 CTTTCTTATTCT-TTTCTTTTTTG
1 CTTTCTT-TTCTCTATCTTCTTTG
82951 CTTTCTTTTCTCTATCTCTCTTTG
1 CTTTCTTTTCTCTATCT-TCTTTG
* * *
82975 GTTTCTTTCCTCTCTCTTCTTT-
1 CTTTCTTTTCTCTATCTTCTTTG
82997 CTTTCTTTTCT
1 CTTTCTTTTCT
83008 TTCTTTTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
22 13 0.27
23 16 0.33
24 19 0.40
ACGTcount: A:0.03, C:0.26, G:0.04, T:0.68
Consensus pattern (23 bp):
CTTTCTTTTCTCTATCTTCTTTG
Found at i:84871 original size:2 final size:2
Alignment explanation
Indices: 84866--84892 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
84856 TTAATCATTA
84866 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 A
84893 ATGATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87618 original size:121 final size:117
Alignment explanation
Indices: 87464--87883 Score: 529
Period size: 116 Copynumber: 3.5 Consensus size: 117
87454 TAGTATAATC
87464 TTAAATTCTTAACTATAAAAATATATATTTTATTATTATTTTTAATTTATCGAATATATATATTT
1 TTAAATTCTTAACTATAAAAATATATATTTTATT-TT-TTTTTAATTTATCGAATATATATATTT
* * * *
87529 TAGTTTAAAATAGGCCAAGTTTATTATTTGAGGTAAGAGTATATATTTAAAATAT
64 TA-TTTAAAGTAGGCCAAGTTTATTATTTAAGTTAAGAATATATATTTAAAATAT
* * * *
87584 TTAAATTCTCAAATATAAAAAATATATATTTTA-TTTTTTTTAATTTATAGAATATATAT-TTTG
1 TTAAATTCTTAACTAT-AAAAATATATATTTTATTTTTTTTTAATTTATCGAATATATATATTTT
*
87647 ATTTAAAGTAGGCCAAGTTTATTATTAAAGTTAAGAATATATATTTAAAATAT
65 ATTTAAAGTAGGCCAAGTTTATTATTTAAGTTAAGAATATATATTTAAAATAT
* * * *
87700 TTACATTCTTAACTATAAAAATATATATTTTATTACTTTTCTTAATTTTTCAAATATATATATAT
1 TTAAATTCTTAACTATAAAAATATATATTTTATT--TTTTTTTAATTTATCGAATATATATAT-T
* * * *
87765 ATTTTTTAAAGTATGCCAAATTTATTATTTAAGTTAATAATATATATTTAAAATATATGT
63 -TTATTTAAAGTAGGCCAAGTTTATTATTTAAGTTAAGAATATATATTT-AAA-ATA--T
* * * *
87825 TTAAATTCTTTACTATAAAAATATTTATTTTATTTTTTATTAATTTATTGAATATATAT
1 TTAAATTCTTAACTATAAAAATATATATTTTATTTTTTTTTAATTTATCGAATATATAT
87884 TTTAAAGTAT
Statistics
Matches: 260, Mismatches: 29, Indels: 19
0.84 0.09 0.06
Matches are distributed among these distances:
115 16 0.06
116 61 0.23
117 4 0.02
118 43 0.17
119 3 0.01
120 16 0.06
121 58 0.22
122 3 0.01
123 24 0.09
125 32 0.12
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (117 bp):
TTAAATTCTTAACTATAAAAATATATATTTTATTTTTTTTTAATTTATCGAATATATATATTTTA
TTTAAAGTAGGCCAAGTTTATTATTTAAGTTAAGAATATATATTTAAAATAT
Found at i:87934 original size:20 final size:22
Alignment explanation
Indices: 87909--87948 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
87899 GAATAAAATT
87909 AAAATA-TTTA-AGTTAAGATA
1 AAAATATTTTATAGTTAAGATA
87929 AAAATATTTTATAGTTAAGA
1 AAAATATTTTATAGTTAAGA
87949 GTTTAAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (22 bp):
AAAATATTTTATAGTTAAGATA
Found at i:87935 original size:236 final size:230
Alignment explanation
Indices: 87468--87937 Score: 504
Period size: 236 Copynumber: 2.0 Consensus size: 230
87458 ATAATCTTAA
* *
87468 ATTCTTAACTATAAAAATATATATTTTATTATTATTTTTAATTTATCGAATATATATATTTTAGT
1 ATTCTTAACTATAAAAATATATATTTTATTATTATTCTTAATTTATCAAATATATATATTTTAGT
* * *
87533 TTAAAATAGGCCAAGTTTATTATTTGAGGTAAGAGTATATATTTAAAATATTTAAATTCTCAAAT
66 TTAAAATAGGCCAAATTTATTATTTAAGGTAAGAATATATATTTAAAATATTTAAATTCTCAAAT
* * *
87598 ATAAAAAATATATATTTTATTTTTTTTAATTTATAGAATATATATTTTGATTTAAAGTAGGCCAA
131 ATAAAAAATATATATTTTATTTTTTTTAATTTATAGAATATATATTTTAATTTAAAGTAGACAAA
* * *
87663 GTTTATTATTAAAGTTAAGAATATATATTTAAAATATTTAC
196 ATTAAATATTAAAGTTAAG---A-ATA--TAAAATATTTAC
*
87704 ATTCTTAACTATAAAAATATATATTTTATTACTT-TTCTTAATTTTTCAAATATATATATATATT
1 ATTCTTAACTATAAAAATATATATTTTATTA-TTATTCTTAATTTATCAAATATATATAT-T-TT
* * * * *
87768 -TTTTAAAGTATGCCAAATTTATTATTTAAGTTAATAATATATATTTAAAATATATGTTTAAATT
63 AGTTTAAAATAGGCCAAATTTATTATTTAAGGTAAGAATATATATTT-AAA-ATA--TTTAAATT
** * * *
87832 CTTTACTAT-AAAAATATTTATTTTATTTTTTATTAATTTATTGAATATATATTTTAAAGTATTA
124 CTCAAATATAAAAAATATATATTTTATTTTTT-TTAATTTATAGAATATATATTTT-AA-T-TTA
* *
87896 TAAG-A-ATAAAATTAAAATATTTAAGTTAAG-ATA-AAAATATTT
185 -AAGTAGACAAAATT-AAATATTAAAGTTAAGAATATAAAATATTT
87938 TATAGTTAAG
Statistics
Matches: 197, Mismatches: 24, Indels: 26
0.80 0.10 0.11
Matches are distributed among these distances:
236 62 0.31
237 41 0.21
238 5 0.03
239 6 0.03
240 21 0.11
241 36 0.18
242 1 0.01
243 5 0.03
244 17 0.09
245 3 0.02
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (230 bp):
ATTCTTAACTATAAAAATATATATTTTATTATTATTCTTAATTTATCAAATATATATATTTTAGT
TTAAAATAGGCCAAATTTATTATTTAAGGTAAGAATATATATTTAAAATATTTAAATTCTCAAAT
ATAAAAAATATATATTTTATTTTTTTTAATTTATAGAATATATATTTTAATTTAAAGTAGACAAA
ATTAAATATTAAAGTTAAGAATATAAAATATTTAC
Found at i:88811 original size:65 final size:64
Alignment explanation
Indices: 88717--88905 Score: 206
Period size: 65 Copynumber: 2.9 Consensus size: 64
88707 TTGACCGTTG
* *
88717 ATTCGATGTTTCAAAATAACC-TGAGTGCATCGATGCATGGCTGGTGCATCGATGCATCAAATGC
1 ATTCGATGTTTCATAA-AACCATGAGTGCATCGATGCATGGATGGTGCATCGATGCATCAAATGC
* *
88781 ATTCGATGTTTTCATAAAACCATGAGTGCATCGATGCAT-GATATGTGCATCGATGCATAAAATG
1 ATTCGATG-TTTCATAAAACCATGAGTGCATCGATGCATGGAT-GGTGCATCGATGCATCAAATG
88845 C
64 C
* * * ** *
88846 ATTTGACG-TTCAATTTATTCCATG-GTGCATCGATGCATGGATTGGTGCATCGGTGCATCA
1 ATTCGATGTTTC-A-TAAAACCATGAGTGCATCGATGCATGGA-TGGTGCATCGATGCATCA
88906 CTTTGAAAAA
Statistics
Matches: 106, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
63 3 0.03
64 29 0.27
65 73 0.69
66 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (64 bp):
ATTCGATGTTTCATAAAACCATGAGTGCATCGATGCATGGATGGTGCATCGATGCATCAAATGC
Found at i:91497 original size:44 final size:45
Alignment explanation
Indices: 91443--91527 Score: 111
Period size: 44 Copynumber: 1.9 Consensus size: 45
91433 ATGCATGGCC
* * *
91443 TTGTGCATCGATGCATATTC-AAGGCG-TGCATCGGTGCACTTTCA
1 TTGTGCATCGATACACATTCAAAGG-GATGCATCGATGCACTTTCA
*
91487 TTGTGTATCGATACACATTCAAAGGGATGCATCGATGCACT
1 TTGTGCATCGATACACATTCAAAGGGATGCATCGATGCACT
91528 GTTAAGTGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
44 18 0.51
45 17 0.49
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (45 bp):
TTGTGCATCGATACACATTCAAAGGGATGCATCGATGCACTTTCA
Found at i:95313 original size:21 final size:21
Alignment explanation
Indices: 95283--95324 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
95273 CCACGATAGG
95283 GGGTACCGGTACCCCTTCATA
1 GGGTACCGGTACCCCTTCATA
* *
95304 GGGTATCGGTACTCCTTCATA
1 GGGTACCGGTACCCCTTCATA
95325 AAATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.29, G:0.24, T:0.29
Consensus pattern (21 bp):
GGGTACCGGTACCCCTTCATA
Found at i:95377 original size:17 final size:17
Alignment explanation
Indices: 95355--95421 Score: 84
Period size: 17 Copynumber: 4.0 Consensus size: 17
95345 GTTGCAGCCA
95355 GGGGGTATAGATACCAT
1 GGGGGTATAGATACCAT
*
95372 GGGGGTATCGATACCAT
1 GGGGGTATAGATACCAT
*
95389 --GGGTATCGATACCAT
1 GGGGGTATAGATACCAT
*
95404 GAGGAGTATAGATACCAT
1 G-GGGGTATAGATACCAT
95422 CCGAGCAATC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
15 15 0.34
17 16 0.36
18 13 0.30
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (17 bp):
GGGGGTATAGATACCAT
Found at i:95394 original size:15 final size:15
Alignment explanation
Indices: 95357--95404 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
95347 TGCAGCCAGG
*
95357 GGGTATAGATACCAT
1 GGGTATCGATACCAT
95372 GGGGGTATCGATACCAT
1 --GGGTATCGATACCAT
95389 GGGTATCGATACCAT
1 GGGTATCGATACCAT
95404 G
1 G
95405 AGGAGTATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 16 0.53
17 14 0.47
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (15 bp):
GGGTATCGATACCAT
Found at i:95400 original size:32 final size:33
Alignment explanation
Indices: 95357--95421 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
95347 TGCAGCCAGG
* *
95357 GGGTATAGATACCATG-GGGGTATCGATACCAT
1 GGGTATAGATACCATGAGGAGTATAGATACCAT
*
95389 GGGTATCGATACCATGAGGAGTATAGATACCAT
1 GGGTATAGATACCATGAGGAGTATAGATACCAT
95422 CCGAGCAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (33 bp):
GGGTATAGATACCATGAGGAGTATAGATACCAT
Found at i:98314 original size:64 final size:64
Alignment explanation
Indices: 98245--98452 Score: 262
Period size: 65 Copynumber: 3.2 Consensus size: 64
98235 TGCACTAAGA
*
98245 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAACCTGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAACCTGAGTGCATCGATGCATGGATG
* *
98309 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ACCCTGAGTGCATCGATGCAT-GAT
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AAATAACCTGAGTGCATCGATGCATGGAT
*
98372 AT
64 -G
** *
98374 GTGCATCGATGCATAAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATA-ACC-TGAGTGCATCGATGCATGGA-
98437 TG
63 TG
*
98439 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
98453 CACTTTGAAA
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
62 1 0.01
63 5 0.04
64 46 0.37
65 70 0.56
66 4 0.03
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAACCTGAGTGCATCGATGCATGGATG
Found at i:98378 original size:65 final size:64
Alignment explanation
Indices: 98219--98404 Score: 250
Period size: 65 Copynumber: 2.9 Consensus size: 64
98209 TGACCGTTGG
* * * *
98219 ACCCTTAGTGCATCGGTGCACTAAGAGTGCATCGATGCATAAAATGCATTCGATG-TTTCAAAAT
1 ACCCTGAGTGCATCGATGCA-TGATAGTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAAT
* * * *
98283 AACCTGAGTGCATCGATGCATGGCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA
1 ACCCTGAGTGCATCGATGCAT-GATAGTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAA
98348 -
64 T
98348 ACCCTGAGTGCATCGATGCATGATATGTGCATCGATGCATAAAATGCATTCGATGTT
1 ACCCTGAGTGCATCGATGCATGATA-GTGCATCGATGCATAAAATGCATTCGATGTT
98405 CAATTTATTC
Statistics
Matches: 106, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
63 1 0.01
64 47 0.44
65 55 0.52
66 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (64 bp):
ACCCTGAGTGCATCGATGCATGATAGTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAAT
Found at i:99246 original size:31 final size:28
Alignment explanation
Indices: 99198--99295 Score: 88
Period size: 31 Copynumber: 3.2 Consensus size: 28
99188 AATGTTTAAT
* *
99198 TTTAATATTAAACTTTAGATAGAATACTAA
1 TTTAATCTTAAATTTTAGATA-AATA-TAA
* *
99228 TTTAATCTTTGAATTTTAGGTAAAATATCAA
1 TTTAATC-TTAAATTTTAGAT-AAATAT-AA
*
99259 TTTAATACTTAAATTTTAGTTAAATATTAA
1 TTTAAT-CTTAAATTTTAGATAAATA-TAA
99289 TTTAATC
1 TTTAATC
99296 CCTACATGTG
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
29 1 0.02
30 20 0.35
31 34 0.60
32 2 0.04
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (28 bp):
TTTAATCTTAAATTTTAGATAAATATAA
Found at i:100892 original size:13 final size:13
Alignment explanation
Indices: 100874--100901 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
100864 CATAGTTAAA
100874 CAGTCTACATATG
1 CAGTCTACATATG
100887 CAGTCTACATATG
1 CAGTCTACATATG
100900 CA
1 CA
100902 CATCTGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (13 bp):
CAGTCTACATATG
Found at i:105623 original size:2 final size:2
Alignment explanation
Indices: 105611--105659 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
105601 TAACATAAAC
*
105611 AT AT AT TT 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
105653 AT AT AT A
1 AT AT AT A
105660 CATTATTGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:106719 original size:16 final size:16
Alignment explanation
Indices: 106698--106728 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
106688 CCATCGTATT
106698 TTATTATTTCATTTTC
1 TTATTATTTCATTTTC
*
106714 TTATTATTTTATTTT
1 TTATTATTTCATTTT
106729 AAATATTACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTATTTCATTTTC
Found at i:106809 original size:34 final size:34
Alignment explanation
Indices: 106771--106848 Score: 156
Period size: 34 Copynumber: 2.3 Consensus size: 34
106761 TGTATATATA
106771 TATATTATTTTGATTATTTTATTTCTTTTACATC
1 TATATTATTTTGATTATTTTATTTCTTTTACATC
106805 TATATTATTTTGATTATTTTATTTCTTTTACATC
1 TATATTATTTTGATTATTTTATTTCTTTTACATC
106839 TATATTATTT
1 TATATTATTT
106849 ATTCGTTTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.65
Consensus pattern (34 bp):
TATATTATTTTGATTATTTTATTTCTTTTACATC
Found at i:106810 original size:17 final size:17
Alignment explanation
Indices: 106790--106844 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
106780 TTGATTATTT
106790 TATTTCTTTTACATCTA
1 TATTTCTTTTACATCTA
* * *
106807 TATTAT-TTTGATTAT-TT
1 TATT-TCTTTTA-CATCTA
106824 TATTTCTTTTACATCTA
1 TATTTCTTTTACATCTA
106841 TATT
1 TATT
106845 ATTTATTCGT
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
16 3 0.11
17 22 0.79
18 3 0.11
ACGTcount: A:0.24, C:0.11, G:0.02, T:0.64
Consensus pattern (17 bp):
TATTTCTTTTACATCTA
Found at i:109223 original size:12 final size:12
Alignment explanation
Indices: 109206--109234 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
109196 ACATGAAATC
109206 ATACCATCTGGT
1 ATACCATCTGGT
109218 ATACCATCTGGT
1 ATACCATCTGGT
109230 ATACC
1 ATACC
109235 GCCAACAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (12 bp):
ATACCATCTGGT
Found at i:110553 original size:95 final size:94
Alignment explanation
Indices: 110383--110580 Score: 301
Period size: 95 Copynumber: 2.1 Consensus size: 94
110373 ACATTATAAT
* *
110383 ATTATATATACAATAAAGCTTGATTTGTCCATCTAGAGCAACTGGTTAAATGCCCCAGCTTTATG
1 ATTATATATACAATAAAGCTTGAGTTGTCCATCTAAAGCAACTGGTTAAATGCCCCAGCTTTATG
* *
110448 GATAATATTCAGCTAGCCTGATAAAGGTG
66 GATAAGATTCAGCTAACCTGATAAAGGTG
* * **
110477 ATTATACTATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAATGCCCTGGCTTTAT
1 ATTATA-TATACAATAAAGCTTGAGTTGTCCATCTAAAGCAACTGGTTAAATGCCCCAGCTTTAT
110542 GGATAAGATTCAGCTAACCTGATAAAGGT-
65 GGATAAGATTCAGCTAACCTGATAAAGGTG
110571 ATT-TATATAC
1 ATTATATATAC
110581 TGAGCTGTCC
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
92 5 0.05
93 2 0.02
94 9 0.09
95 79 0.83
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (94 bp):
ATTATATATACAATAAAGCTTGAGTTGTCCATCTAAAGCAACTGGTTAAATGCCCCAGCTTTATG
GATAAGATTCAGCTAACCTGATAAAGGTG
Found at i:111896 original size:36 final size:36
Alignment explanation
Indices: 111856--112037 Score: 133
Period size: 36 Copynumber: 5.1 Consensus size: 36
111846 ATTTGTCTCA
111856 CTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCC
1 CTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCC
* * * * * * *
111892 CTTGAGATTGTCATT-CTT-ATAA-TAGACATTGTCTCA
1 CTTGAGACTGT-TTTACTTGA-AAGAAGA-TTTATTTCC
*
111928 CTTGAGACTGTTTTACTTGAAAGATGATTTATTTCC
1 CTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCC
* * * * * * *
111964 CTTAAGATTGTCATT-CTT-AAA-ACAGACCTTGTCTCA
1 CTTGAGACTGT-TTTACTTGAAAGA-AGA-TTTATTTCC
112000 CTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCC
1 CTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCC
112036 CT
1 CT
112038 CAAGATTGTC
Statistics
Matches: 104, Mismatches: 30, Indels: 24
0.66 0.19 0.15
Matches are distributed among these distances:
34 1 0.01
35 13 0.12
36 76 0.73
37 13 0.12
38 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.41
Consensus pattern (36 bp):
CTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCC
Found at i:111947 original size:72 final size:72
Alignment explanation
Indices: 111848--112059 Score: 370
Period size: 72 Copynumber: 2.9 Consensus size: 72
111838 TACAAATGAT
* *
111848 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTTGAGATTGTCATTCTTATA
1 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTTAAGATTGTCATTCTTAAA
*
111913 ATAGACA
66 ACAGACA
*
111920 TTGTCTCACTTGAGACTGTTTTACTTGAAAGATGATTTATTTCCCTTAAGATTGTCATTCTTAAA
1 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTTAAGATTGTCATTCTTAAA
*
111985 ACAGACC
66 ACAGACA
*
111992 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGTCATTCTTAAA
1 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTTAAGATTGTCATTCTTAAA
112057 ACA
66 ACA
112060 AGATTTTATC
Statistics
Matches: 133, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 133 1.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (72 bp):
TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTTAAGATTGTCATTCTTAAA
ACAGACA
Found at i:112210 original size:39 final size:39
Alignment explanation
Indices: 112165--112239 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
112155 CCTTGAAATG
* *
112165 AATTTTGTCTCTCTTGAGCTAGTTTCCCTCGAAACAGAA
1 AATTTTGTCTCCCTTGAGATAGTTTCCCTCGAAACAGAA
* *
112204 AATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTTGAGATAGTTTCCCTCGAAACA
112240 TATACATTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (39 bp):
AATTTTGTCTCCCTTGAGATAGTTTCCCTCGAAACAGAA
Found at i:112302 original size:36 final size:37
Alignment explanation
Indices: 112255--112324 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
112245 ATTGAAAACA
** *
112255 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
112291 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGA
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGA
112325 CAATTTATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 12 0.40
37 18 0.60
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.41
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
Found at i:112341 original size:37 final size:37
Alignment explanation
Indices: 112269--112341 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
112259 CCTTGAAATG
* * * * *
112269 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAA
1 AATTTTGTCTCCCTTGAGACAATTTACCTTAAAACAA
*
112306 AATTTTGTCTCCCTTGAGACAATTTATCTTAAAACA
1 AATTTTGTCTCCCTTGAGACAATTTACCTTAAAACA
112342 TAAACATTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGACAATTTACCTTAAAACAA
Found at i:112351 original size:102 final size:102
Alignment explanation
Indices: 112062--112571 Score: 790
Period size: 101 Copynumber: 5.0 Consensus size: 102
112052 TTAAAACAAG
* * * * * *
112062 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAATAGAAAATTTTGTCTCCCTTGGGACAATTTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTG-AA-ACAAAATTTTGTCTCCCTTGAGACAGTTTCT
112127 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
64 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
* * *
112166 ATTTTGTCTCTCTTGAGCTAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGATAGTTTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC--AAAATTTTGTCTCCCTTGAGACAGTTTCT
*
112231 CTTGAAACATATACATTGAAAACATTTCCCTTGAAATGA
64 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
* *
112270 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAATTTATCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
*
112335 TAAAACATAAACATTGAAAACATTTCCCTTGAAATGA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
*
112372 ATTTTGTCTCTCTTGAGATAGTTTACCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
112436 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
* *
112473 ATTTTGTCACTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCCATTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
* * *
112537 TGAAACATAAACTTTAAAAATAGTTTCCCTTGAAA
66 TGAAACATAAACATTGAAAACA-TTTCCCTTGAAA
112572 CAAAACCTTT
Statistics
Matches: 378, Mismatches: 25, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
101 144 0.38
102 109 0.29
103 2 0.01
104 123 0.33
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (102 bp):
ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
TGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
Found at i:112411 original size:36 final size:35
Alignment explanation
Indices: 112361--112442 Score: 110
Period size: 36 Copynumber: 2.3 Consensus size: 35
112351 AAAACATTTC
** * *
112361 CCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTT
1 CCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTT
112396 ACCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTT
1 -CCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTT
112432 CTCTTGAAACA
1 C-CTTGAAACA
112443 TAAACATTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 1 0.02
36 40 0.98
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (35 bp):
CCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTT
Found at i:112505 original size:36 final size:36
Alignment explanation
Indices: 112458--112543 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
112448 ATTGAAAACA
** *
112458 TTTCCCTTGAAATGAATTTTGTCACTC-TTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCAC-CATTGAGACAG
*
112494 TTTCCCTTGAAACAAATTTTGTCTCCATTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCACCATTGAGACAG
*
112530 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
112544 TAAACTTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 1 0.02
36 43 0.98
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCACCATTGAGACAG
Found at i:112569 original size:30 final size:30
Alignment explanation
Indices: 112528--112605 Score: 106
Period size: 30 Copynumber: 2.6 Consensus size: 30
112518 CCATTGAGAC
112528 AGTTTCTCTTGAAACATAAA-CTTTAAAAAT
1 AGTTTCTCTTGAAACA-AAACCTTTAAAAAT
* * *
112558 AGTTTCCCTTGAAACAAAACCTTTGAATAT
1 AGTTTCTCTTGAAACAAAACCTTTAAAAAT
112588 -GTTTCTCTTGAAACAAAA
1 AGTTTCTCTTGAAACAAAA
112606 TTTTGCCTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 20 0.47
30 23 0.53
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.35
Consensus pattern (30 bp):
AGTTTCTCTTGAAACAAAACCTTTAAAAAT
Found at i:112671 original size:96 final size:97
Alignment explanation
Indices: 112398--112706 Score: 240
Period size: 101 Copynumber: 3.1 Consensus size: 97
112388 GATAGTTTAC
* * * * * *
112398 CTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA-TTT
1 CTTGAAACAAAATTTTGCCTCCATGGAGACAGTTTCTCTTGAAACATAAACTTTAAAAAGAGTTT
* *** *
112461 CCCTTGAAATGAATTTTGTCACTCTTGAGATA-GTTTCC
66 CCCTTGAAA-CAA---AAAC-CT-TTGA-ATATGTTTCT
* * *
112499 CTTGAAAC-AAATTTTGTCTCCATTGAGACAGTTTCTCTTGAAACATAAACTTTAAAAATAGTTT
1 CTTGAAACAAAATTTTGCCTCCATGGAGACAGTTTCTCTTGAAACATAAACTTTAAAAAGAGTTT
112563 CCCTTGAAAC-AAAACCTTTGAATATGTTTCT
66 CCCTTGAAACAAAAACCTTTGAATATGTTTCT
* * * * *
112594 CTTGAAACAAAATTTTGCCTCCCTGGAGGCAGTTTCTCTTGAAA-A-AACCTTT-GAAAGCGTTT
1 CTTGAAACAAAATTTTGCCTCCATGGAGACAGTTTCTCTTGAAACATAAACTTTAAAAAGAG-TT
*
112656 TCTCTTGAAACACAAAAAAACCTTTGAA-ATCGTTTCT
65 TCCCTTG-AA-AC--AAAAACCTTTGAATAT-GTTTCT
112693 CTTGGAACACAAAA
1 CTT-GAA-ACAAAA
112707 AGAAAACCTT
Statistics
Matches: 178, Mismatches: 18, Indels: 24
0.81 0.08 0.11
Matches are distributed among these distances:
93 4 0.02
94 17 0.10
95 20 0.11
96 35 0.20
97 1 0.01
98 2 0.01
99 21 0.12
100 4 0.02
101 62 0.35
102 12 0.07
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (97 bp):
CTTGAAACAAAATTTTGCCTCCATGGAGACAGTTTCTCTTGAAACATAAACTTTAAAAAGAGTTT
CCCTTGAAACAAAAACCTTTGAATATGTTTCT
Found at i:112692 original size:34 final size:34
Alignment explanation
Indices: 112635--112746 Score: 152
Period size: 35 Copynumber: 3.2 Consensus size: 34
112625 GTTTCTCTTG
* *
112635 AAAAAACCTTTGAAAGCGTTTTCTCTTGAAACACA
1 AAAAAACCTTTGAAATCG-TTTCTCTTGAAACAAA
112670 AAAAAACCTTTGAAATCGTTTCTCTTGGAACACAAA
1 AAAAAACCTTTGAAATCGTTTCTCTT-GAA-ACAAA
* *
112706 AAGAAAACCTTGGAAATTGTTTCTCTTGAAACAAA
1 AA-AAAACCTTTGAAATCGTTTCTCTTGAAACAAA
112741 AAAAAA
1 AAAAAA
112747 AAAGAAAACC
Statistics
Matches: 70, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
34 12 0.17
35 27 0.39
36 9 0.13
37 22 0.31
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.27
Consensus pattern (34 bp):
AAAAAACCTTTGAAATCGTTTCTCTTGAAACAAA
Found at i:112722 original size:37 final size:36
Alignment explanation
Indices: 112635--112748 Score: 142
Period size: 37 Copynumber: 3.2 Consensus size: 36
112625 GTTTCTCTTG
* *
112635 AAAAAACCTTTGAAAGCGTTTTCTCTT-GAA-ACACA
1 AAAAAACCTTTGAAATCG-TTTCTCTTGGAACACAAA
112670 AAAAAACCTTTGAAATCGTTTCTCTTGGAACACAAA
1 AAAAAACCTTTGAAATCGTTTCTCTTGGAACACAAA
* * * *
112706 AAGAAAACCTTGGAAATTGTTTCTCTTGAAACAAAAA
1 AA-AAAACCTTTGAAATCGTTTCTCTTGGAACACAAA
112743 AAAAAA
1 AAAAAA
112749 AGAAAACCTT
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
34 8 0.11
35 20 0.29
36 10 0.14
37 32 0.46
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (36 bp):
AAAAAACCTTTGAAATCGTTTCTCTTGGAACACAAA
Found at i:113092 original size:2 final size:2
Alignment explanation
Indices: 113080--113138 Score: 70
Period size: 2 Copynumber: 31.0 Consensus size: 2
113070 TAACATAAAC
* * *
113080 AT AT AT TT AT AT AC AT AT -T A- AT AT AT AT AT -T AC 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
113119 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
113139 TATTGTTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
1 3 0.06
2 45 0.94
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:114284 original size:16 final size:16
Alignment explanation
Indices: 114263--114293 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
114253 CCATCGTATT
114263 TTATTATTTCATTTTC
1 TTATTATTTCATTTTC
*
114279 TTATTATTTTATTTT
1 TTATTATTTCATTTT
114294 AAATATTACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTATTTCATTTTC
Found at i:114563 original size:14 final size:13
Alignment explanation
Indices: 114494--114567 Score: 53
Period size: 13 Copynumber: 5.5 Consensus size: 13
114484 CCTTTATTTG
*
114494 TTATTCTTTTATT
1 TTATTTTTTTATT
* * *
114507 TCATTTTGGTTATC
1 TTATTTT-TTTATT
*
114521 TTATTTATTTGA-T
1 TTATTT-TTTTATT
114534 TTATTTTTTTATT
1 TTATTTTTTTATT
114547 TTATTTTTGTT-TCT
1 TTATTTTT-TTAT-T
114561 TTATTTT
1 TTATTTT
114568 CATTTTATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
12 4 0.09
13 21 0.45
14 21 0.45
15 1 0.02
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.74
Consensus pattern (13 bp):
TTATTTTTTTATT
Found at i:114565 original size:19 final size:17
Alignment explanation
Indices: 114524--114573 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
114514 GGTTATCTTA
* *
114524 TTTATTTGATTTATTTT
1 TTTATTTTATTTTTTTT
114541 TTTATTTTATTTTTGTTT
1 TTTATTTTATTTTT-TTT
114559 CTTTATTTTCATTTT
1 -TTTATTTT-ATTTT
114574 ATTTATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 12 0.43
18 3 0.11
19 8 0.29
20 5 0.18
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.78
Consensus pattern (17 bp):
TTTATTTTATTTTTTTT
Found at i:114582 original size:14 final size:13
Alignment explanation
Indices: 114516--114586 Score: 54
Period size: 14 Copynumber: 5.1 Consensus size: 13
114506 TTCATTTTGG
114516 TTATCTTATTTATT
1 TTAT-TTATTTATT
*
114530 TGATTTATTT-TT
1 TTATTTATTTATT
*
114542 TTATTTTATTTTTGT
1 TTA-TTTATTTAT-T
*
114557 TTCTTTATTTTCATT
1 TTATTTA-TTT-ATT
114572 TTATTTATTTCATT
1 TTATTTATTT-ATT
114586 T
1 T
114587 ACTTTTTATC
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
12 4 0.09
13 13 0.28
14 16 0.34
15 13 0.28
16 1 0.02
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.75
Consensus pattern (13 bp):
TTATTTATTTATT
Done.