Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003198.1 Hibiscus syriacus cultivar Beakdansim tig00006731_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: 627338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:7059 original size:22 final size:22
Alignment explanation
Indices: 7033--7114 Score: 112
Period size: 22 Copynumber: 3.8 Consensus size: 22
7023 TTAGTGCAGA
7033 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATACCCCCTTGAAG
* * *
7055 GGGAACCGATTCCCCTTTGAAG
1 GGGAATCGATACCCCCTTGAAG
* *
7077 GGGAATCGATTCCCCC-TGTAG
1 GGGAATCGATACCCCCTTGAAG
7098 GGGAATCGATACCCCCT
1 GGGAATCGATACCCCCT
7115 GGGGTTCTGG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
21 19 0.37
22 33 0.63
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.21
Consensus pattern (22 bp):
GGGAATCGATACCCCCTTGAAG
Found at i:8318 original size:18 final size:19
Alignment explanation
Indices: 8292--8339 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
8282 GACGACTCCG
* *
8292 ACGATGAACCAGAAC-AGC
1 ACGAGGAACAAGAACGAGC
*
8310 ACGAGGAACAAGCACGAGC
1 ACGAGGAACAAGAACGAGC
8329 A-GAGGAACAAG
1 ACGAGGAACAAG
8340 CACAGCCAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.46, C:0.23, G:0.29, T:0.02
Consensus pattern (19 bp):
ACGAGGAACAAGAACGAGC
Found at i:8340 original size:18 final size:17
Alignment explanation
Indices: 8305--8352 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 17
8295 ATGAACCAGA
8305 ACAGCACGAGGAACAAGC
1 ACAGCA-GAGGAACAAGC
8323 ACGAGCAGAGGAACAAGC
1 AC-AGCAGAGGAACAAGC
8341 ACAGCCAGAGGA
1 ACAG-CAGAGGA
8353 TCAAATGCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 2 0.07
18 22 0.79
19 4 0.14
ACGTcount: A:0.44, C:0.25, G:0.31, T:0.00
Consensus pattern (17 bp):
ACAGCAGAGGAACAAGC
Found at i:23656 original size:4 final size:4
Alignment explanation
Indices: 23647--23674 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
23637 ATCAAACCTC
23647 TTCT TTCT TTCT TTCT TTCT TTCT TTCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT
23675 ATACTCTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTCT
Found at i:28042 original size:45 final size:47
Alignment explanation
Indices: 27990--28078 Score: 155
Period size: 45 Copynumber: 1.9 Consensus size: 47
27980 TCGAATAAAT
27990 GCATGCGAACTAGATATCATGCGGTTAGG-TTTATTTTT-TGAACAA
1 GCATGCGAACTAGATATCATGCGGTTAGGATTTATTTTTGTGAACAA
*
28035 GCATGCGAATTAGATATCATGCGGTTAGGATTTATTTTTGTGAA
1 GCATGCGAACTAGATATCATGCGGTTAGGATTTATTTTTGTGAA
28079 TAACAAAGCA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
45 28 0.68
46 9 0.22
47 4 0.10
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (47 bp):
GCATGCGAACTAGATATCATGCGGTTAGGATTTATTTTTGTGAACAA
Found at i:37705 original size:8 final size:8
Alignment explanation
Indices: 37692--37729 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
37682 GAAAATGGAA
37692 GAAAAAAT
1 GAAAAAAT
37700 G-AAAAAT
1 GAAAAAAT
37707 GAAAAAA-
1 GAAAAAAT
37714 GAGAAAAAT
1 GA-AAAAAT
37723 GAAAAAA
1 GAAAAAA
37730 GAGAGAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 9 0.33
8 16 0.59
9 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (8 bp):
GAAAAAAT
Found at i:37712 original size:16 final size:16
Alignment explanation
Indices: 37700--37742 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
37690 AAGAAAAAAT
37700 GAAAAATGAAAAAAGA
1 GAAAAATGAAAAAAGA
37716 GAAAAATGAAAAAAGA
1 GAAAAATGAAAAAAGA
*
37732 GAGAAAT-AAAA
1 GAAAAATGAAAA
37743 TGAGGGTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (16 bp):
GAAAAATGAAAAAAGA
Found at i:38249 original size:236 final size:236
Alignment explanation
Indices: 37836--38307 Score: 926
Period size: 236 Copynumber: 2.0 Consensus size: 236
37826 GTTGAGTTTG
37836 AAATTCAGAATTCGTGCATGGTGGAGGTTCTGAATCAATTTTGGAAGTAGAAAGAGCTCCTGATA
1 AAATTCAGAATTCGTGCATGGTGGAGGTTCTGAATCAATTTTGGAAGTAGAAAGAGCTCCTGATA
37901 TGGATAGTAACAATGACAGTTGGTGATCAGGGATGAGACTGAAGATTAATGAGTCTCGATTGAAA
66 TGGATAGTAACAATGACAGTTGGTGATCAGGGATGAGACTGAAGATTAATGAGTCTCGATTGAAA
* *
37966 TAACCAAGAGAAATTGAATGCATATGAGATTCAATACTGGTTTAGGGCATCCAATGATAGAGATT
131 TAACCAAGAGAAATGGAATGCATATGAGATTCAATACCGGTTTAGGGCATCCAATGATAGAGATT
38031 TGGGGAGTTTAGAAGTAGCTTCATACTCTTAAGCATCACAA
196 TGGGGAGTTTAGAAGTAGCTTCATACTCTTAAGCATCACAA
38072 AAATTCAGAATTCGTGCATGGTGGAGGTTCTGAATCAATTTTGGAAGTAGAAAGAGCTCCTGATA
1 AAATTCAGAATTCGTGCATGGTGGAGGTTCTGAATCAATTTTGGAAGTAGAAAGAGCTCCTGATA
38137 TGGATAGTAACAATGACAGTTGGTGATCAGGGATGAGACTGAAGATTAATGAGTCTCGATTGAAA
66 TGGATAGTAACAATGACAGTTGGTGATCAGGGATGAGACTGAAGATTAATGAGTCTCGATTGAAA
38202 TAACCAAGAGAAATGGAATGCATATGAGATTCAATACCGGTTTAGGGCATCCAATGATAGAGATT
131 TAACCAAGAGAAATGGAATGCATATGAGATTCAATACCGGTTTAGGGCATCCAATGATAGAGATT
38267 TGGGGAGTTTAGAAGTAGCTTCATACTCTTAAGCATCACAA
196 TGGGGAGTTTAGAAGTAGCTTCATACTCTTAAGCATCACAA
38308 TTTTGAAGAT
Statistics
Matches: 234, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
236 234 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (236 bp):
AAATTCAGAATTCGTGCATGGTGGAGGTTCTGAATCAATTTTGGAAGTAGAAAGAGCTCCTGATA
TGGATAGTAACAATGACAGTTGGTGATCAGGGATGAGACTGAAGATTAATGAGTCTCGATTGAAA
TAACCAAGAGAAATGGAATGCATATGAGATTCAATACCGGTTTAGGGCATCCAATGATAGAGATT
TGGGGAGTTTAGAAGTAGCTTCATACTCTTAAGCATCACAA
Found at i:39172 original size:51 final size:51
Alignment explanation
Indices: 39095--39553 Score: 692
Period size: 51 Copynumber: 9.0 Consensus size: 51
39085 TGAAGCAAAT
* * *
39095 AAGTTCGTTGAGGATTGAGTCATATACTCTCTGAATGAATAGGCAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
39146 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
39197 AAGTTCGTTGAAGA-TGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
39247 AAGTTCGTTGAAGA-TGAGTCCTATA--CTCTGAATGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
* *
39295 AAGTTCGTTGAGGATTGAGTCCTATACTCTCTGAATGAATAGGGAGTGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
*
39346 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAACGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
*
39397 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
* * * *
39448 TAGTTCGTTGAAGATTGAGTCCCATACTCCCTGAAAGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
** ** * * *
39499 CTGTTTATTGAAGATTTTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGAC
1 AAGTTCGTTGAAGA---TT-GAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
39554 CCGTTTTATT
Statistics
Matches: 378, Mismatches: 23, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
48 36 0.10
49 11 0.03
50 61 0.16
51 238 0.63
54 2 0.01
55 30 0.08
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (51 bp):
AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
Found at i:39597 original size:54 final size:53
Alignment explanation
Indices: 39421--39655 Score: 214
Period size: 51 Copynumber: 4.4 Consensus size: 53
39411 TTGAGTCCTA
* ** ** *
39421 TACTCTCTGAAGGAATAGGGAGCGGACTAGTTCGTTGAAGA---TT-GAGTCCCA
1 TACTCTCTGAAGGAATAGAGAGCGGACCCGTTTATTGAAGATTGTTCGAGT--CT
* * * * *
39472 TACTCCCTGAAAGAATAGGGAGCGGACCTGTTTATTGAAGATTTTTCGAGTTCT
1 TACTCTCTGAAGGAATAGAGAGCGGACCCGTTTATTGAAGATTGTTCGAG-TCT
* *
39526 ATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTAAAGATTGTTCAAGTCT
1 -TACTCTCTGAAGGAATAGAGAGCGGACCCG-TTTATTGAAGATTGTTCGAGTCT
* * *
39581 TACTCTCTGAATGAATAGAGAGCAGACACGTTTA-TGAAGATTGTTCGAGTCT
1 TACTCTCTGAAGGAATAGAGAGCGGACCCGTTTATTGAAGATTGTTCGAGTCT
39633 TA-TACTTCTGAAGGAATAG-GAGC
1 TACT-C-TCTGAAGGAATAGAGAGC
39656 AGGCTCGTCA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
51 36 0.23
52 23 0.15
53 16 0.10
54 30 0.19
55 32 0.21
56 18 0.12
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (53 bp):
TACTCTCTGAAGGAATAGAGAGCGGACCCGTTTATTGAAGATTGTTCGAGTCT
Found at i:43274 original size:37 final size:37
Alignment explanation
Indices: 43224--43296 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
43214 TGATTAAAAT
43224 GTAGTATCTATTTGAAAGACACTTTAATCATTTGTCG
1 GTAGTATCTATTTGAAAGACACTTTAATCATTTGTCG
43261 GTAGTATCTATTTGAAAGACACTTTAATCATTTGTC
1 GTAGTATCTATTTGAAAGACACTTTAATCATTTGTC
43297 AATAAACGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (37 bp):
GTAGTATCTATTTGAAAGACACTTTAATCATTTGTCG
Found at i:44323 original size:20 final size:21
Alignment explanation
Indices: 44298--44340 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
44288 AATATTGATA
*
44298 TGGTGGTTCAT-GCACTAACG
1 TGGTGGTCCATAGCACTAACG
*
44318 TGGTGGTCCATAGTACTAACG
1 TGGTGGTCCATAGCACTAACG
44339 TG
1 TG
44341 ACAGTCAACG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (21 bp):
TGGTGGTCCATAGCACTAACG
Found at i:47021 original size:27 final size:27
Alignment explanation
Indices: 46983--47037 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
46973 AGAAAATCAG
46983 CATGTTGGGGTCTACAAGACAATGCAA
1 CATGTTGGGGTCTACAAGACAATGCAA
*
47010 CATGTTGGGGTCTGCAAGACAATGCAA
1 CATGTTGGGGTCTACAAGACAATGCAA
47037 C
1 C
47038 GGATCCTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (27 bp):
CATGTTGGGGTCTACAAGACAATGCAA
Found at i:48077 original size:17 final size:18
Alignment explanation
Indices: 48047--48083 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
48037 TAATATCATT
48047 TATTTAATATTATTTGTA
1 TATTTAATATTATTTGTA
*
48065 TATTTAA-ATTATTTTTA
1 TATTTAATATTATTTGTA
48082 TA
1 TA
48084 ATATATATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TATTTAATATTATTTGTA
Found at i:49446 original size:18 final size:20
Alignment explanation
Indices: 49402--49450 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
49392 AAAAAAACCC
49402 AGTATCGATACTCCACCCTG
1 AGTATCGATACTCCACCCTG
* *
49422 GGTATCGATACT-C-CCTTG
1 AGTATCGATACTCCACCCTG
49440 AGTATCGATAC
1 AGTATCGATAC
49451 CAAAATTAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 14 0.54
19 1 0.04
20 11 0.42
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (20 bp):
AGTATCGATACTCCACCCTG
Found at i:49605 original size:20 final size:20
Alignment explanation
Indices: 49580--49629 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
49570 CTCGATGGGT
49580 AGTATCGATATTATTCTTAC
1 AGTATCGATATTATTCTTAC
*
49600 AGTATCTATATTATTCTTAC
1 AGTATCGATATTATTCTTAC
49620 AGTATCGATA
1 AGTATCGATA
49630 CCCTCAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (20 bp):
AGTATCGATATTATTCTTAC
Found at i:50251 original size:3 final size:3
Alignment explanation
Indices: 50243--50270 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
50233 TTCTCTAGTT
50243 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
50271 AGAAGAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:50866 original size:25 final size:26
Alignment explanation
Indices: 50828--50876 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
50818 GAGCTTAGGT
*
50828 TTTTTAGGGGTTTTCAAGAATTTATG
1 TTTTTAGGGATTTTCAAGAATTTATG
**
50854 TTTTT-GGGATTTTCTGGAATTTA
1 TTTTTAGGGATTTTCAAGAATTTA
50877 AAGTATTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.20, C:0.04, G:0.22, T:0.53
Consensus pattern (26 bp):
TTTTTAGGGATTTTCAAGAATTTATG
Found at i:53326 original size:16 final size:17
Alignment explanation
Indices: 53305--53338 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
53295 TTTTTTTATT
*
53305 ATTTAATAT-TAAAATA
1 ATTTAAAATATAAAATA
53321 ATTTAAAATATAAAATA
1 ATTTAAAATATAAAATA
53338 A
1 A
53339 AAGGGTTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTTAAAATATAAAATA
Found at i:53455 original size:27 final size:27
Alignment explanation
Indices: 53425--53491 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
53415 TGAGTATAAT
* *
53425 TTTTTAAATTACA-ATAAAAATAAATTA
1 TTTTTAAATTA-AGATAAAAACAAAATA
* *
53452 TTTTTAAATTAAGTTAATAACAAAATA
1 TTTTTAAATTAAGATAAAAACAAAATA
53479 TTTTTAAATTAAG
1 TTTTTAAATTAAG
53492 TTAATAGGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.03
27 34 0.97
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (27 bp):
TTTTTAAATTAAGATAAAAACAAAATA
Found at i:53515 original size:27 final size:27
Alignment explanation
Indices: 53450--53513 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 27
53440 AAAAATAAAT
53450 TATTTTTAAATTAAGTTAATAACAAAA
1 TATTTTTAAATTAAGTTAATAACAAAA
**
53477 TATTTTTAAATTAAGTTAATAGGAAAA
1 TATTTTTAAATTAAGTTAATAACAAAA
53504 TATATTTTAA
1 TAT-TTTTAA
53514 TTTATTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 28 0.82
28 6 0.18
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (27 bp):
TATTTTTAAATTAAGTTAATAACAAAA
Found at i:55554 original size:25 final size:25
Alignment explanation
Indices: 55519--55572 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
55509 AATAGAAAGC
55519 AAAACAAGTCTCAGCTAACATTTAA
1 AAAACAAGTCTCAGCTAACATTTAA
*
55544 GAAAA-AAGTCTCGGCTAACATTTAA
1 -AAAACAAGTCTCAGCTAACATTTAA
55569 AAAA
1 AAAA
55573 TGGACAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 4 0.15
25 19 0.70
26 4 0.15
ACGTcount: A:0.50, C:0.17, G:0.11, T:0.22
Consensus pattern (25 bp):
AAAACAAGTCTCAGCTAACATTTAA
Found at i:57580 original size:9 final size:9
Alignment explanation
Indices: 57566--57594 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
57556 CAACGATTCT
57566 CGATTGAAC
1 CGATTGAAC
57575 CGATTGAAC
1 CGATTGAAC
57584 CGATTGAAC
1 CGATTGAAC
57593 CG
1 CG
57595 GTCCGATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (9 bp):
CGATTGAAC
Found at i:59067 original size:132 final size:131
Alignment explanation
Indices: 58806--59197 Score: 366
Period size: 132 Copynumber: 3.0 Consensus size: 131
58796 CGCTGCTCTT
* ** * *
58806 TAGGGAAGACTAGATCTA-AAAACTTCTTGATTCTCTTCACTACTTTTTCGGGGAAGATTGAATC
1 TAGGGAAGATTA-ATCTAGAAAA-TTCTTGATTAACTTCACTA-TTCTTC-AGGAAGATTGAATC
* * * * * * * *
58870 GAGATTGATTTGCTCCACTGCTCTTCAGGGAAGATCAAATATGGAAATAAGATCTGCTCCGCTAC
62 GAGGTAGATTTGCTCCACTGCTCTTCAGGGAAGATCAAATCTGGGAGTGAGATCTGCTTCACTAC
58935 TTC-A
127 TTCTA
* * *
58939 TAGGGAAGATTATATCTAGAAATTTCTTGATTAACTTCACTATTCTTCAGGAAAGATTAAATTGA
1 TAGGGAAGATTA-ATCTAGAAAATTCTTGATTAACTTCACTATTCTTCAGG-AAGATTGAATCGA
* * *
59004 GGTAGATTTGCTCCACTACCCTTTAGGGAAGATCAAATCTGGGAGTGAGATCTGCTTCACTAC-T
64 GGTAGATTTGCTCCACTGCTCTTCAGGGAAGATCAAATCTGGGAGTGAGATCTGCTTCACTACTT
*
59068 CTT
129 CTA
* * * ** *
59071 TAGGAAAGATCAACTCT-GACAAATT-TT-ATTCAA-TTTACTGCTCTTTAAGGAAGATTGAATC
1 TAGGGAAGATTAA-TCTAGA-AAATTCTTGATT-AACTTCACTATTC-TTCAGGAAGATTGAATC
* * * * *
59132 GAGGTAGATTTGTTACATTGCTCTTCAGGGAAGATCAAATCTGGGAGTGAGATATGCATCACTAC
62 GAGGTAGATTTGCTCCACTGCTCTTCAGGGAAGATCAAATCTGGGAGTGAGATCTGCTTCACTAC
59197 T
127 T
59198 CTTTGGGAAG
Statistics
Matches: 213, Mismatches: 38, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
130 76 0.36
131 16 0.08
132 85 0.40
133 33 0.15
134 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (131 bp):
TAGGGAAGATTAATCTAGAAAATTCTTGATTAACTTCACTATTCTTCAGGAAGATTGAATCGAGG
TAGATTTGCTCCACTGCTCTTCAGGGAAGATCAAATCTGGGAGTGAGATCTGCTTCACTACTTCT
A
Found at i:59072 original size:44 final size:42
Alignment explanation
Indices: 58973--59089 Score: 128
Period size: 44 Copynumber: 2.8 Consensus size: 42
58963 TCTTGATTAA
* * * *
58973 CTTCACTATTCTTCAGGAAAGATTAAAT-TGAGGTAGATTTG
1 CTTCACTACTCTTTAGGAAAGATCAAATCTGAGGTAGATCTG
* * * *
59014 CTCCACTACCCTTTAGGGAAGATCAAATCTGGGAGTGAGATCTG
1 CTTCACTACTCTTTAGGAAAGATCAAATCTGAG-GT-AGATCTG
*
59058 CTTCACTACTCTTTAGGAAAGATCAACTCTGA
1 CTTCACTACTCTTTAGGAAAGATCAAATCTGA
59090 CAAATTTTAT
Statistics
Matches: 60, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
41 22 0.37
42 3 0.05
43 2 0.03
44 33 0.55
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (42 bp):
CTTCACTACTCTTTAGGAAAGATCAAATCTGAGGTAGATCTG
Found at i:64309 original size:15 final size:16
Alignment explanation
Indices: 64289--64322 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
64279 AACTTTTAAA
64289 TCAAAACATTCT-TTT
1 TCAAAACATTCTATTT
*
64304 TCAAAACTTTCTATTT
1 TCAAAACATTCTATTT
64320 TCA
1 TCA
64323 TTTTTGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (16 bp):
TCAAAACATTCTATTT
Found at i:64380 original size:19 final size:20
Alignment explanation
Indices: 64344--64391 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
64334 TCTAAATCAT
* *
64344 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATTCCATTTTAG
64364 TTTTCAAAA-TCCATTTTAG
1 TTTTCAAAATTCCATTTTAG
*
64383 CTTTCAAAA
1 TTTTCAAAA
64392 GAAAATCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.48
Consensus pattern (20 bp):
TTTTCAAAATTCCATTTTAG
Found at i:65728 original size:18 final size:17
Alignment explanation
Indices: 65705--65756 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 17
65695 TATGTAGAGT
65705 AGTATCGGTACCCATTTG
1 AGTATCGGTA-CCATTTG
*
65723 AGTATCGATATCCATTTG
1 AGTATCGGTA-CCATTTG
*
65741 GGTATCGGTACCATTT
1 AGTATCGGTACCATTT
65757 TTGCATTCTG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 6 0.20
18 24 0.80
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (17 bp):
AGTATCGGTACCATTTG
Found at i:68315 original size:35 final size:35
Alignment explanation
Indices: 68269--68341 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
68259 TGTCTATTGC
68269 ACATTTTTTAAGTCATTAACTACAGTGACGAAGTT
1 ACATTTTTTAAGTCATTAACTACAGTGACGAAGTT
68304 ACATTTTTTAAGTCATTAACTACAGTGACGAAGTT
1 ACATTTTTTAAGTCATTAACTACAGTGACGAAGTT
68339 ACA
1 ACA
68342 GTGACGAAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.36
Consensus pattern (35 bp):
ACATTTTTTAAGTCATTAACTACAGTGACGAAGTT
Found at i:68343 original size:14 final size:14
Alignment explanation
Indices: 68324--68352 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
68314 AGTCATTAAC
68324 TACAGTGACGAAGT
1 TACAGTGACGAAGT
68338 TACAGTGACGAAGT
1 TACAGTGACGAAGT
68352 T
1 T
68353 TCTTTGTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (14 bp):
TACAGTGACGAAGT
Found at i:79591 original size:3 final size:3
Alignment explanation
Indices: 79575--79642 Score: 64
Period size: 3 Copynumber: 21.3 Consensus size: 3
79565 TTTTAAAAAA
* * * *
79575 AAT ATT AAT GAT AAT AAT AAAT AAT AAT AAA AAT AAT AAT AAT ATT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
79621 AAT AAT AAAT AAAT AAAT AAT A
1 AAT AAT -AAT -AAT -AAT AAT A
79643 TTTTTTTTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 41 0.75
4 14 0.25
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:79624 original size:34 final size:34
Alignment explanation
Indices: 79568--79632 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
79558 TGAAAATTTT
*
79568 TAAAAAAAATATTAATGATAATAATAAATAATAA
1 TAAAAAAAATAATAATGATAATAATAAATAATAA
*
79602 TAAAAATAATAATAAT-ATTAATAATAAATAA
1 TAAAAAAAATAATAATGA-TAATAATAAATAA
79633 ATAAATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 1 0.04
34 27 0.96
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (34 bp):
TAAAAAAAATAATAATGATAATAATAAATAATAA
Found at i:85866 original size:23 final size:23
Alignment explanation
Indices: 85823--85919 Score: 86
Period size: 23 Copynumber: 4.2 Consensus size: 23
85813 GAGTCGAGGG
* * *
85823 TTCTACGCGGTCATTCAGGACAA
1 TTCTACGTGGTCCTTCGGGACAA
* *
85846 TTCTACGTAGTCCTTCGGGACAT
1 TTCTACGTGGTCCTTCGGGACAA
* * *
85869 TTCTACGCGGTCATTCTGGACAA
1 TTCTACGTGGTCCTTCGGGACAA
* * * *
85892 TACTATGTGGTACTTCGGGACAT
1 TTCTACGTGGTCCTTCGGGACAA
85915 TTCTA
1 TTCTA
85920 TATGACACTT
Statistics
Matches: 56, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGACAA
Found at i:85890 original size:46 final size:46
Alignment explanation
Indices: 85823--85919 Score: 149
Period size: 46 Copynumber: 2.1 Consensus size: 46
85813 GAGTCGAGGG
* *
85823 TTCTACGCGGTCATTCAGGACAATTCTACGTAGTCCTTCGGGACAT
1 TTCTACGCGGTCATTCAGGACAATACTACGTAGTACTTCGGGACAT
* * *
85869 TTCTACGCGGTCATTCTGGACAATACTATGTGGTACTTCGGGACAT
1 TTCTACGCGGTCATTCAGGACAATACTACGTAGTACTTCGGGACAT
85915 TTCTA
1 TTCTA
85920 TATGACACTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (46 bp):
TTCTACGCGGTCATTCAGGACAATACTACGTAGTACTTCGGGACAT
Found at i:85920 original size:23 final size:23
Alignment explanation
Indices: 85823--85955 Score: 74
Period size: 23 Copynumber: 5.7 Consensus size: 23
85813 GAGTCGAGGG
* * *
85823 TTCTACGCGGT-CATTCAGGACAA
1 TTCTACGTGGTAC-TTCGGGACAT
* *
85846 TTCTACGTAGTCCTTCGGGACAT
1 TTCTACGTGGTACTTCGGGACAT
* * *
85869 TTCTACGCGGT-CATTCTGGACAA
1 TTCTACGTGGTAC-TTCGGGACAT
* *
85892 TACTATGTGGTACTTCGGGACAT
1 TTCTACGTGGTACTTCGGGACAT
** **
85915 TTCTATATGACACTTCGGTG-CAT
1 TTCTACGTGGTACTTCGG-GACAT
*
85938 ATTCTACGTGGCACTTCG
1 -TTCTACGTGGTACTTCG
85956 ATGCAATTTA
Statistics
Matches: 85, Mismatches: 20, Indels: 9
0.75 0.18 0.08
Matches are distributed among these distances:
22 1 0.01
23 67 0.79
24 17 0.20
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (23 bp):
TTCTACGTGGTACTTCGGGACAT
Found at i:86687 original size:16 final size:16
Alignment explanation
Indices: 86662--86695 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
86652 TTATTGACCA
*
86662 GTTTTTAAAAGTCAAT
1 GTTTTGAAAAGTCAAT
86678 GTTTTGAAAAGTCAAT
1 GTTTTGAAAAGTCAAT
86694 GT
1 GT
86696 AACACCTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (16 bp):
GTTTTGAAAAGTCAAT
Found at i:88118 original size:14 final size:15
Alignment explanation
Indices: 88094--88123 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
88084 AGCTTTAAGC
88094 AATATATAAAATTTT
1 AATATATAAAATTTT
88109 AATA-ATAAAATTTT
1 AATATATAAAATTTT
88123 A
1 A
88124 GAAACAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATATATAAAATTTT
Found at i:105315 original size:22 final size:23
Alignment explanation
Indices: 105289--105335 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
105279 TGACCGTTGC
105289 ATATGATATTTATCATGAAT-AT
1 ATATGATATTTATCATGAATGAT
105311 ATATGATATTTATCATGAATGAT
1 ATATGATATTTATCATGAATGAT
105334 AT
1 AT
105336 TTTGTGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (23 bp):
ATATGATATTTATCATGAATGAT
Found at i:105528 original size:30 final size:30
Alignment explanation
Indices: 105485--105632 Score: 152
Period size: 30 Copynumber: 4.8 Consensus size: 30
105475 TAATCGGATT
*
105485 AACACTATAGTGTGTAAGGACACTTAGTGC
1 AACACTATAGTGTGTAAGGACACTTAGTAC
* * *
105515 AACACTTTGGTGTGTAAGGACACTTAGCAC
1 AACACTATAGTGTGTAAGGACACTTAGTAC
*
105545 ATATGGTACTATAGTGTGTAAGGACACTTAGTAC
1 A-A---CACTATAGTGTGTAAGGACACTTAGTAC
* * *
105579 AACACTGTAGTGTGTAAGGACACTCAGTAT
1 AACACTATAGTGTGTAAGGACACTTAGTAC
* * * *
105609 ATCATTGTGGTGTGTAAGGACACT
1 AACACTATAGTGTGTAAGGACACT
105633 AAGTGCATAT
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
30 72 0.73
31 1 0.01
33 1 0.01
34 25 0.25
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (30 bp):
AACACTATAGTGTGTAAGGACACTTAGTAC
Found at i:106384 original size:186 final size:184
Alignment explanation
Indices: 106037--106399 Score: 609
Period size: 186 Copynumber: 2.0 Consensus size: 184
106027 AAATTAAATG
* *
106037 TTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAA
1 TTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAA
* * *
106102 ATAATTTTTTTAATTAATTAATATTGATTTATGTTTAAAAGTTATTGGATCTTATATTATTAATT
66 ATAATTTGTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATT
* * *
106167 GGGTTTTAAATGGTTTGGGCTTAGCCCATATGTTATATATAATATATATAATAT
131 GAGTTTTAAATGGTTTGGACTGAGCCCATATGTTATATATAATATATATAATAT
*
106221 TTTTTAATTAAAAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTT
1 TTTTTAATT-AAAAAAA-AGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTC
*
106286 ATATAATTTGTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAA
64 AAATAATTTGTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAA
*
106351 TTGAGTTTTAAATGGTTTGGACTGAGTCCATATGTTATATATAATATAT
129 TTGAGTTTTAAATGGTTTGGACTGAGCCCATATGTTATATATAATATAT
106400 TTGAAATTTA
Statistics
Matches: 166, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
184 9 0.05
185 6 0.04
186 151 0.91
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (184 bp):
TTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAA
ATAATTTGTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATT
GAGTTTTAAATGGTTTGGACTGAGCCCATATGTTATATATAATATATATAATAT
Found at i:109606 original size:21 final size:21
Alignment explanation
Indices: 109580--109637 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
109570 ATGAGGTTTT
*
109580 AGGATGAATATGGGAAGAACA
1 AGGATGAACATGGGAAGAACA
*
109601 AGGATGAACATGGGAAGAGCA
1 AGGATGAACATGGGAAGAACA
* *
109622 AGGTTGAACATAGGAA
1 AGGATGAACATGGGAA
109638 AGAAAGGAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.45, C:0.07, G:0.34, T:0.14
Consensus pattern (21 bp):
AGGATGAACATGGGAAGAACA
Found at i:112387 original size:23 final size:22
Alignment explanation
Indices: 112357--112421 Score: 94
Period size: 23 Copynumber: 2.9 Consensus size: 22
112347 GACATCTTAT
112357 ATGGCACTTCGGTGCATTTCTA
1 ATGGCACTTCGGTGCATTTCTA
* *
112379 CATGGCACTTCGGTGTAATTCTA
1 -ATGGCACTTCGGTGCATTTCTA
112402 AGTGGCACTTCGGTGCATTT
1 A-TGGCACTTCGGTGCATTT
112422 ATACGAGTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
22 1 0.03
23 36 0.97
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (22 bp):
ATGGCACTTCGGTGCATTTCTA
Found at i:119405 original size:11 final size:11
Alignment explanation
Indices: 119389--119419 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
119379 AAGTAAACGT
119389 TCTAGAATGAA
1 TCTAGAATGAA
*
119400 TCTAGAATGAG
1 TCTAGAATGAA
119411 TCTAGAATG
1 TCTAGAATG
119420 CTGAAACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (11 bp):
TCTAGAATGAA
Found at i:132225 original size:60 final size:60
Alignment explanation
Indices: 132106--132230 Score: 144
Period size: 60 Copynumber: 2.1 Consensus size: 60
132096 ACCCTATAAC
* * * *
132106 ATCGAACCTAATTTTGGTATTGATACAGGAAATGGGGTATATGTACCTTAGCATAGTAGT
1 ATCGAACCTAATTTTGGTATCGATACAGGAAAGGGGGTATATATACCATAGCATAGTAGT
* * * * * *
132166 ATCGAAGCTAATTTTGGTATCGATGCCGGAAGGGGGGTATCA-ATACCATAGTATGGTAGT
1 ATCGAACCTAATTTTGGTATCGATACAGGAAAGGGGGTAT-ATATACCATAGCATAGTAGT
132226 ATCGA
1 ATCGA
132231 TACCATGGTA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 53 0.98
61 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (60 bp):
ATCGAACCTAATTTTGGTATCGATACAGGAAAGGGGGTATATATACCATAGCATAGTAGT
Found at i:132804 original size:54 final size:54
Alignment explanation
Indices: 132561--132789 Score: 347
Period size: 54 Copynumber: 4.2 Consensus size: 54
132551 ACCCAATAGA
* * *
132561 CACTAATTGTACATTTCACGGAATTCATCCTAT-ATAGATGAATAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGA-GGATGAATAACCGTTTCGG
*
132615 CACTAAGTGTGCATTTCACGGAATTCATCCTAT-ATGGATGAATAACCGTTTCGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGA-GGATGAATAACCGTTTCGG
*
132669 CACTAAGTGTGCATTTCACGGAAATT-ATCCTATGTGGATGAATAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGG-AATTCATCCTATGAGGATGAATAACCGTTTCGG
*
132723 CACTAAGTGTGCATTTCACGGAATTCATCATATGAGGATGAATAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGAGGATGAATAACCGTTTCGG
*
132777 CACTAGGTGTGCA
1 CACTAAGTGTGCA
132790 AAGCACGACA
Statistics
Matches: 163, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
53 4 0.02
54 155 0.95
55 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (54 bp):
CACTAAGTGTGCATTTCACGGAATTCATCCTATGAGGATGAATAACCGTTTCGG
Found at i:133742 original size:30 final size:29
Alignment explanation
Indices: 133706--133778 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 29
133696 CCCGAAAAAT
*
133706 CACCGGTAACCGGTATATTTATCGATCTAA
1 CACCGGTAA-CAGTATATTTATCGATCTAA
* * * *
133736 CACCGGTCATATTATATTTCTCGATCTAA
1 CACCGGTAACAGTATATTTATCGATCTAA
* *
133765 CACCCGTAGCAGTA
1 CACCGGTAACAGTA
133779 AAGCGCGCTC
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
29 25 0.76
30 8 0.24
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (29 bp):
CACCGGTAACAGTATATTTATCGATCTAA
Found at i:134125 original size:17 final size:18
Alignment explanation
Indices: 134089--134129 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
134079 ATATTATGTA
*
134089 TTTAATTTATTTAAGCAT
1 TTTACTTTATTTAAGCAT
*
134107 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGCAT
134124 TTTACT
1 TTTACT
134130 AATATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTACTTTATTTAAGCAT
Found at i:136406 original size:26 final size:24
Alignment explanation
Indices: 136335--136406 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
136325 TTATATTTGT
136335 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
*
136360 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
136382 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
136407 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:136477 original size:35 final size:33
Alignment explanation
Indices: 136437--136521 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
136427 TTATTTCAGT
136437 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAAT-TC--TTATTG
*
136472 TAATTTGGTTATCATTTACCATTTAATTCTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATTCTTATTG
* *
136507 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
136522 TAAAATTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 3 0.07
38 12 0.28
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATTCTTATTG
Found at i:140416 original size:6 final size:6
Alignment explanation
Indices: 140405--140429 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
140395 TCATTGTGGG
140405 GGCTTA GGCTTA GGCTTA GGCTTA G
1 GGCTTA GGCTTA GGCTTA GGCTTA G
140430 CGTTAAAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.36, T:0.32
Consensus pattern (6 bp):
GGCTTA
Found at i:146815 original size:16 final size:16
Alignment explanation
Indices: 146764--146820 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 16
146754 ACCTATTCAT
*
146764 AATACAAAATAATATAA
1 AATAAAAAATAATAT-A
*
146781 AATAAAAAATACATGTA
1 AATAAAAAATA-ATATA
*
146798 AATAAAAAATATTATA
1 AATAAAAAATAATATA
146814 AATAAAA
1 AATAAAA
146821 TAAAAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.29
17 22 0.63
18 3 0.09
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.25
Consensus pattern (16 bp):
AATAAAAAATAATATA
Found at i:147211 original size:195 final size:197
Alignment explanation
Indices: 146866--147265 Score: 637
Period size: 195 Copynumber: 2.0 Consensus size: 197
146856 CAAAAAAAAT
* *
146866 TGTAAGTAAAATTAGTAAAGCATGTAGTAGATGATGTAGGTGTGTAAGAAAGTACTGAAGCAAAT
1 TGTAAGTAAAAGTAGTAAAGCATGTAGTAGATGATGTAGGTGTGTAAGAAAGTACTAAAGCAAAT
* * * *
146931 AGTAGAGATTTTTTTGGAAGTATTAAAATAATTGAAAAAAATGAATTTAAAAATTAAAATTTTAA
66 AGTAAAGATTTGTTTGGAAGTATTAAAATAATTGAAAAAAATGAATTTAAAAATCAAAATATTAA
* *
146996 AAAAAATTCACAATCAAAGTAAGAAGTAAAGAAGGC-A-AGGAAGCATAGAAACTCTAGTTTCAA
131 AAAAAATTCACAACCAAAGTAAGAAGTAAAGAAGGCAAGAGGAAGCAGAGAAACTCTAGTTTCAA
147059 AG
196 AG
147061 TGTAAGTAAAAGTAGTAAAGCATGTAGTAGATGATGTAGGTGTGTAAGAAAGTACTAAAGCAAAT
1 TGTAAGTAAAAGTAGTAAAGCATGTAGTAGATGATGTAGGTGTGTAAGAAAGTACTAAAGCAAAT
147126 AGTAAAGAATTTGTTTGGAAGTATTAAAAATAATTG-AAAAAATGAATTTAAAAATCAAAATATT
66 AGTAAAG-ATTTGTTTGGAAGTATT-AAAATAATTGAAAAAAATGAATTTAAAAATCAAAATATT
* *
147190 ATAAAAAATT-ACAACCAAAGTAAGAAGTAAAGAAGGCAACGGGAGGAAGCAGAGAAACTTTAGT
129 AAAAAAAATTCACAACCAAAGTAAGAAGTAAAGAAGGCAA---GAGGAAGCAGAGAAACTCTAGT
147254 TTCAAAG
191 TTCAAAG
147261 TGTAA
1 TGTAA
147266 ACCTTTTATC
Statistics
Matches: 188, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
195 95 0.51
196 52 0.28
197 10 0.05
200 31 0.16
ACGTcount: A:0.48, C:0.06, G:0.20, T:0.26
Consensus pattern (197 bp):
TGTAAGTAAAAGTAGTAAAGCATGTAGTAGATGATGTAGGTGTGTAAGAAAGTACTAAAGCAAAT
AGTAAAGATTTGTTTGGAAGTATTAAAATAATTGAAAAAAATGAATTTAAAAATCAAAATATTAA
AAAAAATTCACAACCAAAGTAAGAAGTAAAGAAGGCAAGAGGAAGCAGAGAAACTCTAGTTTCAA
AG
Found at i:152595 original size:35 final size:34
Alignment explanation
Indices: 152534--152724 Score: 238
Period size: 35 Copynumber: 5.5 Consensus size: 34
152524 AGTTTGTATC
* * * *
152534 GATTCAAGTCCAATGGAATGAAGCATCGCACTTCT
1 GATTCAAGTCGAACGGAAGGAGGCATCGCACTT-T
152569 GATTCAAGTCGAACGGAAGGAGGCATCGCACTTT
1 GATTCAAGTCGAACGGAAGGAGGCATCGCACTTT
* *
152603 GATTCAAGTCGAACGGAATGAGGCATTGCACTTT
1 GATTCAAGTCGAACGGAAGGAGGCATCGCACTTT
** *
152637 CGATTCAAGTCGAACGGAAGGAATCATCGTACTTCT
1 -GATTCAAGTCGAACGGAAGGAGGCATCGCACTT-T
*
152673 GATTCAATTCGAACGGAAGGAGGCATCGCACTTT
1 GATTCAAGTCGAACGGAAGGAGGCATCGCACTTT
* *
152707 CGATTCAACTAGAACGGA
1 -GATTCAAGTCGAACGGA
152725 TGGTTTACTA
Statistics
Matches: 136, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
34 34 0.25
35 101 0.74
36 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (34 bp):
GATTCAAGTCGAACGGAAGGAGGCATCGCACTTT
Found at i:152645 original size:69 final size:70
Alignment explanation
Indices: 152534--152724 Score: 260
Period size: 69 Copynumber: 2.7 Consensus size: 70
152524 AGTTTGTATC
* * * *
152534 GATTCAAGTCCAATGGAATGAAGCATCGCAC-TTCTGATTCAAGTCGAACGGAAGGAGGCATCGC
1 GATTCAAGTCGAACGGAATGAGGCATCGCACTTTC-GATTCAAGTCGAACGGAAGGAAGCATCGC
152598 ACTT-T
65 ACTTCT
* * *
152603 GATTCAAGTCGAACGGAATGAGGCATTGCACTTTCGATTCAAGTCGAACGGAAGGAATCATCGTA
1 GATTCAAGTCGAACGGAATGAGGCATCGCACTTTCGATTCAAGTCGAACGGAAGGAAGCATCGCA
152668 CTTCT
66 CTTCT
* * * *
152673 GATTCAATTCGAACGGAAGGAGGCATCGCACTTTCGATTCAACTAGAACGGA
1 GATTCAAGTCGAACGGAATGAGGCATCGCACTTTCGATTCAAGTCGAACGGA
152725 TGGTTTACTA
Statistics
Matches: 108, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
69 57 0.53
70 51 0.47
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (70 bp):
GATTCAAGTCGAACGGAATGAGGCATCGCACTTTCGATTCAAGTCGAACGGAAGGAAGCATCGCA
CTTCT
Found at i:154356 original size:24 final size:23
Alignment explanation
Indices: 154329--154376 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
154319 AAAACCCATG
154329 AAATT-ATTAAAATTTCCAAAAAAA
1 AAATTCATT-AAA-TTCCAAAAAAA
*
154353 AAATTCCTTAAATTCCAAAAAAA
1 AAATTCATTAAATTCCAAAAAAA
154376 A
1 A
154377 TAGGGAGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 12 0.55
24 8 0.36
25 2 0.09
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.27
Consensus pattern (23 bp):
AAATTCATTAAATTCCAAAAAAA
Found at i:155190 original size:32 final size:32
Alignment explanation
Indices: 155153--155229 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 32
155143 TTGTTTATGA
155153 TTTTTTGGAATTTT-TAGGAATTTAAGAGT-TTT
1 TTTTTTGGAATTTTCT-GGAATTTAA-AGTGTTT
*
155185 TTTTTTAG-ATTTTCTGGAATTTAAAGTGTTT
1 TTTTTTGGAATTTTCTGGAATTTAAAGTGTTT
*
155216 TTTTTGGGAATTTT
1 TTTTTTGGAATTTT
155230 AATAATTTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
30 3 0.08
31 23 0.59
32 13 0.33
ACGTcount: A:0.22, C:0.01, G:0.18, T:0.58
Consensus pattern (32 bp):
TTTTTTGGAATTTTCTGGAATTTAAAGTGTTT
Found at i:158650 original size:19 final size:19
Alignment explanation
Indices: 158623--158659 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
158613 TAAATATATA
*
158623 TATATATTTTTATATTATT
1 TATAAATTTTTATATTATT
*
158642 TATAAATTTTTATTTTAT
1 TATAAATTTTTATATTAT
158660 AAATATATTC
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATAAATTTTTATATTATT
Found at i:159620 original size:14 final size:14
Alignment explanation
Indices: 159601--159641 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
159591 TTGACCCAAT
*
159601 TTTGACCCGACCCG
1 TTTGACCCGACCCA
159615 TTTGACCCGACCCA
1 TTTGACCCGACCCA
*
159629 TTT-ACCAGACCCA
1 TTTGACCCGACCCA
159642 ACCCGTTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 9 0.36
14 16 0.64
ACGTcount: A:0.22, C:0.41, G:0.15, T:0.22
Consensus pattern (14 bp):
TTTGACCCGACCCA
Found at i:161931 original size:24 final size:24
Alignment explanation
Indices: 161904--161958 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
161894 TATATGATTT
*
161904 CTGACCTAGATTCTGATT-TGATAC
1 CTGACCTAGATTCTG-TTATAATAC
* *
161928 CTGACCTGGATTTTGTTATAATAC
1 CTGACCTAGATTCTGTTATAATAC
161952 CTGACCT
1 CTGACCT
161959 GAATTATGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 2 0.07
24 25 0.93
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (24 bp):
CTGACCTAGATTCTGTTATAATAC
Found at i:165861 original size:16 final size:17
Alignment explanation
Indices: 165840--165874 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
165830 TTAGTGGGGG
165840 AATGTTGATAATG-CTC
1 AATGTTGATAATGACTC
165856 AATGTTGATAATGACTC
1 AATGTTGATAATGACTC
165873 AA
1 AA
165875 ATTAGGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.34
Consensus pattern (17 bp):
AATGTTGATAATGACTC
Found at i:165955 original size:36 final size:36
Alignment explanation
Indices: 165870--165972 Score: 181
Period size: 35 Copynumber: 2.9 Consensus size: 36
165860 TTGATAATGA
165870 CTCAAATTAGGTTATCCCACTAGTATTGAAAATATG
1 CTCAAATTAGGTTATCCCACTAGTATTGAAAATATG
*
165906 CT-AAATTAGGTTATCCCACTAGTATTGCAAATATG
1 CTCAAATTAGGTTATCCCACTAGTATTGAAAATATG
165941 CTCAAATTAGGTTATCCCACTAGTATTAGAAA
1 CTCAAATTAGGTTATCCCACTAGTATT-GAAA
165973 TGACGATTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
35 34 0.54
36 26 0.41
37 3 0.05
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (36 bp):
CTCAAATTAGGTTATCCCACTAGTATTGAAAATATG
Found at i:167716 original size:43 final size:43
Alignment explanation
Indices: 167661--168049 Score: 260
Period size: 43 Copynumber: 9.1 Consensus size: 43
167651 TGAGAACAAA
* ** *
167661 AAACGCTGCAAAAGATCGTTATCTATAGCGACGTTTTTCGAAC
1 AAACGCCGCAAAAGATCGAGATCTATAGCGACGTTTTTGGAAC
* * * * *
167704 AAACGTCACAAAAGGTTGAGATCTATAGC-AGCATTTTTGGAAC
1 AAACGCCGCAAAAGATCGAGATCTATAGCGA-CGTTTTTGGAAC
* * *
167747 AAACGCCGCAAAAGGTTC-AGATCTATATCAACGTTTTTGGAAC
1 AAACGCCGCAAAA-GATCGAGATCTATAGCGACGTTTTTGGAAC
* * *
167790 AAACGCCGCAAAAGATTGAGATCTATAGCGGCGTTTCTGGAAC
1 AAACGCCGCAAAAGATCGAGATCTATAGCGACGTTTTTGGAAC
** * * * *
167833 AAACGTTGCAAAAGGTC-AAATTTATAAC-AGCTGTTTTT--ATAC
1 AAACGCCGCAAAAGATCGAGATCTATAGCGA-C-GTTTTTGGA-AC
* * * *
167875 AAACTCTGCAAAAGGTC-AGATCTATAACGACGTTTTTGGAAC
1 AAACGCCGCAAAAGATCGAGATCTATAGCGACGTTTTTGGAAC
** * * **
167917 AAACGCCGCAAAAGATTTATATCTATAGCGGCGTTTCAGGAAC
1 AAACGCCGCAAAAGATCGAGATCTATAGCGACGTTTTTGGAAC
* * * * *
167960 AAAAGTCGCAAAAGGTC-ATATCTATAGC-AGCGTTTTTGGATAT
1 AAACGCCGCAAAAGATCGAGATCTATAGCGA-CGTTTTTGGA-AC
* ***
168003 AAACGCCGTAAAA-AGTC-AGATCTATAGCGGTATTTTTGGATAC
1 AAACGCCGCAAAAGA-TCGAGATCTATAGCGACGTTTTTGGA-AC
168046 AAAC
1 AAAC
168050 TATGTGTTTA
Statistics
Matches: 271, Mismatches: 60, Indels: 30
0.75 0.17 0.08
Matches are distributed among these distances:
41 7 0.03
42 73 0.27
43 188 0.69
44 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (43 bp):
AAACGCCGCAAAAGATCGAGATCTATAGCGACGTTTTTGGAAC
Found at i:167809 original size:86 final size:84
Alignment explanation
Indices: 167681--168030 Score: 310
Period size: 86 Copynumber: 4.1 Consensus size: 84
167671 AAAGATCGTT
* * * * * *
167681 ATCTATAGCGACGTTTTTCGAACAAACGTCACAAAAGGTTGAGATCTATAGCAGCATTTTTGGAA
1 ATCTATAGCAACGTTTTTGGAACAAACGCCGCAAAAGG-TCAGATCTATAGCAGCGTTTTTGGAA
167746 CAAACGCCGCAAAAGGTTCAG
65 CAAACGCCGCAAAAGG-TCAG
* * * * *
167767 ATCTATATCAACGTTTTTGGAACAAACGCCGCAAAAGATTGAGATCTATAGCGGCGTTTCTGGAA
1 ATCTATAGCAACGTTTTTGGAACAAACGCCGCAAAAG-GTCAGATCTATAGCAGCGTTTTTGGAA
** *
167832 CAAACGTTGCAAAAGGTCAA
65 CAAACGCCGCAAAAGGTCAG
* * * * * *
167852 ATTTATAACAGCTGTTTTT--ATACAAACTCTGCAAAAGGTCAGATCTATAAC-GACGTTTTTGG
1 ATCTATAGCAAC-GTTTTTGGA-ACAAACGCCGCAAAAGGTCAGATCTATAGCAG-CGTTTTTGG
* * *
167914 AACAAACGCCGCAAAAGATTTAT
63 AACAAACGCCGCAAAAG-GTCAG
** ** * * *
167937 ATCTATAGCGGCGTTTCAGGAACAAAAGTCGCAAAAGGTCATATCTATAGCAGCGTTTTTGGATA
1 ATCTATAGCAACGTTTTTGGAACAAACGCCGCAAAAGGTCAGATCTATAGCAGCGTTTTTGGA-A
* * *
168002 TAAACGCCGTAAAAAGTCAG
65 CAAACGCCGCAAAAGGTCAG
168022 ATCTATAGC
1 ATCTATAGC
168031 GGTATTTTTG
Statistics
Matches: 212, Mismatches: 43, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
83 1 0.00
84 39 0.18
85 82 0.39
86 90 0.42
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (84 bp):
ATCTATAGCAACGTTTTTGGAACAAACGCCGCAAAAGGTCAGATCTATAGCAGCGTTTTTGGAAC
AAACGCCGCAAAAGGTCAG
Found at i:167941 original size:127 final size:127
Alignment explanation
Indices: 167661--168028 Score: 429
Period size: 127 Copynumber: 2.9 Consensus size: 127
167651 TGAGAACAAA
* * * * * * * *
167661 AAACGCTGCAAAAGATCGT-TATCTATAGCGACGTTTTTCGAACAAACGTCACAAAAGGTTGAGA
1 AAACGCCGCAAAAGAT-TTATATCTATAGCGGCGTTTCTGGAACAAACGTCGCAAAAGG-TCAAA
* *
167725 TCTATAGCAGCAT-TTTTGGA-ACAAACGCCGCAAAAGGTTCAGATCTATATCAACGTTTTTGGA
64 TCTATAGCAGC-TGTTTT-TATACAAACGCCGCAAAAGG-TCAGATCTATAACAACGTTTTTGGA
167788 AC
126 AC
* * * *
167790 AAACGCCGCAAAAGATTGAGATCTATAGCGGCGTTTCTGGAACAAACGTTGCAAAAGGTCAAATT
1 AAACGCCGCAAAAGATTTATATCTATAGCGGCGTTTCTGGAACAAACGTCGCAAAAGGTCAAATC
* * * *
167855 TATAACAGCTGTTTTTATACAAACTCTGCAAAAGGTCAGATCTATAACGACGTTTTTGGAAC
66 TATAGCAGCTGTTTTTATACAAACGCCGCAAAAGGTCAGATCTATAACAACGTTTTTGGAAC
* * *
167917 AAACGCCGCAAAAGATTTATATCTATAGCGGCGTTTCAGGAACAAAAGTCGCAAAAGGTCATATC
1 AAACGCCGCAAAAGATTTATATCTATAGCGGCGTTTCTGGAACAAACGTCGCAAAAGGTCAAATC
* * *
167982 TATAGCAGC-GTTTTTGGATATAAACGCCGTAAAAAGTCAGATCTATA
66 TATAGCAGCTGTTTTT--ATACAAACGCCGCAAAAGGTCAGATCTATA
168029 GCGGTATTTT
Statistics
Matches: 203, Mismatches: 31, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
126 6 0.03
127 93 0.46
128 56 0.28
129 48 0.24
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (127 bp):
AAACGCCGCAAAAGATTTATATCTATAGCGGCGTTTCTGGAACAAACGTCGCAAAAGGTCAAATC
TATAGCAGCTGTTTTTATACAAACGCCGCAAAAGGTCAGATCTATAACAACGTTTTTGGAAC
Found at i:168194 original size:21 final size:21
Alignment explanation
Indices: 168170--168216 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
168160 AAGTTGACAT
168170 CATAACAACAAACTTGAAATC
1 CATAACAACAAACTTGAAATC
*
168191 CATAACAAGAAACTTGAAATC
1 CATAACAACAAACTTGAAATC
168212 CATAA
1 CATAA
168217 TAATAAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.53, C:0.21, G:0.06, T:0.19
Consensus pattern (21 bp):
CATAACAACAAACTTGAAATC
Found at i:170970 original size:23 final size:21
Alignment explanation
Indices: 170944--170985 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
170934 TATAAAAAAT
170944 TATTTTATATTAAATATTTTTTG
1 TATTTT-TATTAAAT-TTTTTTG
*
170967 TATTTTTATTTAATTTTTT
1 TATTTTTATTAAATTTTTT
170986 AAATAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 7 0.39
23 6 0.33
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (21 bp):
TATTTTTATTAAATTTTTTTG
Found at i:171945 original size:37 final size:38
Alignment explanation
Indices: 171898--172076 Score: 168
Period size: 38 Copynumber: 4.8 Consensus size: 38
171888 TAACATAATC
* * *
171898 TAATCGAATATAAATTCGT-AATAATATATTCATGTTT
1 TAATCGAATATAAATTCATAAATAATATATTCATATAT
* *
171935 TAATTGAATATAAATTCATAAATAATATATT--TGTAGT
1 TAATCGAATATAAATTCATAAATAATATATTCATATA-T
* * *
171972 TAATCAAATATAAATTTATAAATAATATATTCCTATAT
1 TAATCGAATATAAATTCATAAATAATATATTCATATAT
* * * * *
172010 CAATCAAATATAAATTCGTAAATAATGTATTCCA-ATCT
1 TAATCGAATATAAATTCATAAATAATATATT-CATATAT
* * *
172048 TAATTGAATATAAATCCTTAAATAATATA
1 TAATCGAATATAAATTCATAAATAATATA
172077 ATATTATCCT
Statistics
Matches: 118, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
36 3 0.03
37 46 0.39
38 65 0.55
39 4 0.03
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.40
Consensus pattern (38 bp):
TAATCGAATATAAATTCATAAATAATATATTCATATAT
Found at i:172390 original size:36 final size:36
Alignment explanation
Indices: 172305--172407 Score: 172
Period size: 35 Copynumber: 2.9 Consensus size: 36
172295 TTGATAATGA
*
172305 CTCAAATTAGGTTATCCCAGTAGTATTGAAAATATG
1 CTCAAATTAGGTTATCCCACTAGTATTGAAAATATG
*
172341 CT-AAATTAGGTTATCCCACTAGTATTGCAAATATG
1 CTCAAATTAGGTTATCCCACTAGTATTGAAAATATG
172376 CTCAAATTAGGTTATCCCACTAGTATTAGAAA
1 CTCAAATTAGGTTATCCCACTAGTATT-GAAA
172408 TGACGATTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
35 33 0.53
36 26 0.42
37 3 0.05
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (36 bp):
CTCAAATTAGGTTATCCCACTAGTATTGAAAATATG
Found at i:176508 original size:16 final size:17
Alignment explanation
Indices: 176487--176521 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
176477 TTAGTGGGGG
176487 AATGTTGATAATG-CTC
1 AATGTTGATAATGACTC
176503 AATGTTGATAATGACTC
1 AATGTTGATAATGACTC
176520 AA
1 AA
176522 ATTAGGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.34
Consensus pattern (17 bp):
AATGTTGATAATGACTC
Found at i:176602 original size:36 final size:36
Alignment explanation
Indices: 176517--176620 Score: 174
Period size: 35 Copynumber: 2.9 Consensus size: 36
176507 TTGATAATGA
*
176517 CTCAAATTAGGTTATCCCACTAGTATTGAAAATATG
1 CTCAAATTAGGTTATCCCACTAGTATTGAAAATAGG
*
176553 CT-AAATTAGGTTATCCCACTAGTATTGCAAATAGG
1 CTCAAATTAGGTTATCCCACTAGTATTGAAAATAGG
*
176588 CTCAAATTAGGTTATCCCACTAGTATTGGAAAT
1 CTCAAATTAGGTTATCCCACTAGTATTGAAAAT
176621 GACGATTTTG
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
35 33 0.52
36 31 0.48
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (36 bp):
CTCAAATTAGGTTATCCCACTAGTATTGAAAATAGG
Found at i:179809 original size:17 final size:17
Alignment explanation
Indices: 179784--179816 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
179774 GTTATGACCC
*
179784 AAGAGAATCGAAGAAAA
1 AAGAAAATCGAAGAAAA
179801 AAGAAAATCGAAGAAA
1 AAGAAAATCGAAGAAA
179817 TAGAAATAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.06, G:0.21, T:0.06
Consensus pattern (17 bp):
AAGAAAATCGAAGAAAA
Found at i:185211 original size:45 final size:43
Alignment explanation
Indices: 185128--185212 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 43
185118 TAAATCTCTA
* *
185128 TAAAACTAAAAGAATTAATATAATGCAAGTTTTCTTTTATATG
1 TAAAACTAAAAGAATTAATATAAAGCAAGTTTTATTTTATATG
*
185171 TAAAACTAAAA-ATATTTTATATAAAAGCAAGTTTTATTTTAT
1 TAAAACTAAAAGA-A-TTAATAT-AAAGCAAGTTTTATTTTAT
185213 TTCTTTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 12 0.33
44 6 0.17
45 17 0.47
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (43 bp):
TAAAACTAAAAGAATTAATATAAAGCAAGTTTTATTTTATATG
Found at i:185715 original size:8 final size:7
Alignment explanation
Indices: 185691--185732 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
185681 ATTTCATACA
185691 TGCATTT
1 TGCATTT
185698 T-CATTT
1 TGCATTT
185704 TGCATCTT
1 TGCAT-TT
185712 TGCATTT
1 TGCATTT
* *
185719 TTCATTG
1 TGCATTT
185726 TGCATTT
1 TGCATTT
185733 ATACTTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.14, C:0.17, G:0.12, T:0.57
Consensus pattern (7 bp):
TGCATTT
Found at i:185812 original size:12 final size:12
Alignment explanation
Indices: 185791--185844 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
185781 ACATTCACAT
185791 ATTTACATTTGC
1 ATTTACATTTGC
*
185803 ATTTAGATTTGC
1 ATTTACATTTGC
* *
185815 ATTTTTACGTTTGT
1 A--TTTACATTTGC
*
185829 ATTTACATTTTC
1 ATTTACATTTGC
185841 ATTT
1 ATTT
185845 TTACATAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
12 24 0.73
14 9 0.27
ACGTcount: A:0.22, C:0.11, G:0.09, T:0.57
Consensus pattern (12 bp):
ATTTACATTTGC
Found at i:185822 original size:26 final size:26
Alignment explanation
Indices: 185792--185850 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
185782 CATTCACATA
*
185792 TTTACATTTGCATTTAGATTTGCATT
1 TTTACATTTGCATTTACATTTGCATT
* * *
185818 TTTACGTTTGTATTTACATTTTCATT
1 TTTACATTTGCATTTACATTTGCATT
185844 TTTACAT
1 TTTACAT
185851 AATTACATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.12, G:0.08, T:0.58
Consensus pattern (26 bp):
TTTACATTTGCATTTACATTTGCATT
Found at i:188285 original size:38 final size:38
Alignment explanation
Indices: 188227--188300 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
188217 CCGTAATGTT
* * *
188227 TACACATAAGGTCGTGCCCACTATATGCACTGAAGTGA
1 TACACATAAGGTCATGCCCACCATATGCACCGAAGTGA
* *
188265 TACACATAAGGTTATTCCCACCATATGCACCGAAGT
1 TACACATAAGGTCATGCCCACCATATGCACCGAAGT
188301 ACTTAATTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (38 bp):
TACACATAAGGTCATGCCCACCATATGCACCGAAGTGA
Found at i:188518 original size:26 final size:28
Alignment explanation
Indices: 188463--188519 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
188453 TAACATTTAC
* *
188463 GATAAACATCATATATATATACACTCAT
1 GATAAACATCATATATATATAAACTAAT
188491 GATAAACATCATATATA-ATAAAC-AAT
1 GATAAACATCATATATATATAAACTAAT
188517 GAT
1 GAT
188520 CAATTCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 5 0.19
27 5 0.19
28 17 0.63
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (28 bp):
GATAAACATCATATATATATAAACTAAT
Found at i:190554 original size:19 final size:19
Alignment explanation
Indices: 190530--190575 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
190520 TTTACCCTTA
190530 ATAAAACCTGATATTTACC
1 ATAAAACCTGATATTTACC
*
190549 ATAAAACTTGATATTTACC
1 ATAAAACCTGATATTTACC
190568 ATAAAACC
1 ATAAAACC
190576 AAGACACCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.30
Consensus pattern (19 bp):
ATAAAACCTGATATTTACC
Found at i:194258 original size:15 final size:15
Alignment explanation
Indices: 194213--194274 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
194203 TGGACCCTAA
*
194213 AAAAAGAAAAAAACAT
1 AAAAAGAAAATAA-AT
*
194229 AAAAAG-AAATTAAT
1 AAAAAGAAAATAAAT
*
194243 AAATAGAAAATAAAT
1 AAAAAGAAAATAAAT
* *
194258 AAAAATAATATAAAT
1 AAAAAGAAAATAAAT
194273 AA
1 AA
194275 TATAATATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
14 7 0.18
15 25 0.66
16 6 0.16
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.18
Consensus pattern (15 bp):
AAAAAGAAAATAAAT
Found at i:194276 original size:29 final size:30
Alignment explanation
Indices: 194210--194274 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
194200 TATTGGACCC
194210 TAAA-AAA-AGAAAAAAACATAAAAAGAAA
1 TAAATAAATAGAAAAAAACATAAAAAGAAA
* * *
194238 TTAATAAATAGAAAATAA-ATAAAAATAATA
1 TAAATAAATAGAAAAAAACATAAAAAGAA-A
194268 TAAATAA
1 TAAATAA
194275 TATAATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 3 0.10
29 12 0.40
30 15 0.50
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (30 bp):
TAAATAAATAGAAAAAAACATAAAAAGAAA
Found at i:194322 original size:34 final size:32
Alignment explanation
Indices: 194279--194498 Score: 113
Period size: 36 Copynumber: 6.4 Consensus size: 32
194269 AAATAATATA
* *
194279 ATATA-TATATATATAAAATATTTTGTTTAAACT
1 ATATATTATATATATAAAA-AGTTT-TTAAAACT
* *
194312 ATATATTATATTTTTAAAAAGTTTTTAAAACT
1 ATATATTATATATATAAAAAGTTTTTAAAACT
* * *
194344 ATATATTATATAGTTTTCAAAAAATGTTTTAAAAAT
1 ATATATTATATA--TAT-AAAAAGT-TTTTAAAACT
* * *
194380 AT-TA-TATAAGTTTTTAAAAATATTTTTAAAACT
1 ATATATTAT-A-TATATAAAAA-GTTTTTAAAACT
*
194413 ATATATTATATAATTTTTCAAAAAAAGTTTTTAAAACT
1 ATATATTATAT-A----T-ATAAAAAGTTTTTAAAACT
* * **
194451 ATATATTATATAATTTTCTAATATCTTTTTAAAACT
1 ATATATTATAT-A---TATAAAAAGTTTTTAAAACT
194487 ATATATTATATA
1 ATATATTATATA
194499 ATTTTTCAAA
Statistics
Matches: 153, Mismatches: 18, Indels: 30
0.76 0.09 0.15
Matches are distributed among these distances:
32 18 0.12
33 26 0.17
34 25 0.16
35 13 0.08
36 37 0.24
37 4 0.03
38 25 0.16
39 5 0.03
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (32 bp):
ATATATTATATATATAAAAAGTTTTTAAAACT
Found at i:194574 original size:36 final size:37
Alignment explanation
Indices: 194307--194574 Score: 283
Period size: 36 Copynumber: 7.5 Consensus size: 37
194297 TATTTTGTTT
194307 AAACTATATATTATAT---TTTT-AAAAA-GTTTTTA
1 AAACTATATATTATATAAGTTTTCAAAAATGTTTTTA
194339 AAACTATATATTATAT-AGTTTTCAAAAAATG-TTTT-
1 AAACTATATATTATATAAGTTTTC-AAAAATGTTTTTA
* *
194374 AAA--A-ATATTATATAAGTTTTTAAAAATATTTTTA
1 AAACTATATATTATATAAGTTTTCAAAAATGTTTTTA
* *
194408 AAACTATATATTATATAATTTTTCAAAAAAAGTTTTTA
1 AAACTATATATTATATAAGTTTTC-AAAAATGTTTTTA
* * *
194446 AAACTATATATTATATAA-TTTTCTAATATCTTTTTA
1 AAACTATATATTATATAAGTTTTCAAAAATGTTTTTA
* * *
194482 AAACTATATATTATATAATTTTTCAAAAATATTTTAAAA
1 AAACTATATATTATATAAGTTTTCAAAAATGTTTT--TA
* * *
194521 AAACTATATACTATATAAGTTTTC-AAAATGCTTTAA
1 AAACTATATATTATATAAGTTTTCAAAAATGTTTTTA
*
194557 AAACTATATAATATATAA
1 AAACTATATATTATATAA
194575 ATTATATCTT
Statistics
Matches: 202, Mismatches: 19, Indels: 26
0.82 0.08 0.11
Matches are distributed among these distances:
32 31 0.15
33 11 0.05
34 7 0.03
35 3 0.01
36 56 0.28
37 34 0.17
38 37 0.18
39 23 0.11
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.45
Consensus pattern (37 bp):
AAACTATATATTATATAAGTTTTCAAAAATGTTTTTA
Found at i:195662 original size:165 final size:164
Alignment explanation
Indices: 195356--196289 Score: 1327
Period size: 165 Copynumber: 5.7 Consensus size: 164
195346 AGGTCTTCGG
* * * * *
195356 TTGGCAGATAGCCTTTCTCGACTTAAGCTATACTGCAAACGACGTGCCTTTGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
*
195421 CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGC
66 CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
* *
195486 CCTCGAAGCTGAGTATAATCAAACTTGAGAGTCT
131 CCTCGAAGCTGAGTGTAATCGAACTTGAGAGTCT
* *
195520 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGTGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* *
195585 TGAACTCGAAGGTCTTTTGGTGATAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
66 CGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
*
195650 CCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTCT
130 CCCTCGAAGCTGAGTGTAATCGAACTTGAGAGTCT
* *
195685 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATAATGCGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * * * * * *
195750 CGAACTCGAAGGTATTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTT
66 CGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
195815 CCCTCGAAGCTGAGTGTAATCGAACTTGA-AGGTCT
130 CCCTCGAAGCTGAGTGTAATCGAACTTGAGA-GTCT
*
195850 TTGGCAGATAGCCCTTTTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * * *
195915 CGAACTC-ACAGGTCTTTGGTGACAGATAACCATTCTAGCCTTGAGTTATGATATAAATGATGTA
66 CGAACTCGA-AGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
* * * *
195979 CCCTCAAAGCTGAGTGTAATCGAACTCGAGGGGCT
130 CCCTCGAAGCTGAGTGTAATCGAACTTGAGAGTCT
*
196014 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCCAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* ** * * * *
196079 CGAACTCGAAGGTCTTTGATTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATG
66 CGAACTCGAAGGTCTTTG-GTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
* * * * * *
196144 CCTTAG-AGCTGAGCGTAGTCAAACTCGA-AGGTCTT
130 CCCTCGAAGCTGAGTGTAATCGAACTTGAGA-GTC-T
*
196179 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * *
196244 CGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTGGCCTTGAG
66 CGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAG
196290 CTAAGTTGCA
Statistics
Matches: 687, Mismatches: 73, Indels: 19
0.88 0.09 0.02
Matches are distributed among these distances:
164 243 0.35
165 444 0.65
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (164 bp):
TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
CCTCGAAGCTGAGTGTAATCGAACTTGAGAGTCT
Found at i:195977 original size:329 final size:329
Alignment explanation
Indices: 195356--196289 Score: 1426
Period size: 329 Copynumber: 2.8 Consensus size: 329
195346 AGGTCTTCGG
* * * * *
195356 TTGGCAGATAGCCTTTCTCGACTTAAGCTATACTGCAAACGACGTGCCTTTGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * * * *
195421 CGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTG
66 CGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTG
*
195485 CCCTCGAAGCTGAGTATAATCAAACTTG-AGAGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
131 CCCTCGAAGCTGAGTGTAATCAAACTTGAAG-GTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
* * *
195549 ATGCTGCAAATGATATGCCTTGGAGCTGAGTGTAGTTGAACTCGAAGGTCTTTTGGTGATAGATA
195 ATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATA
* * * * *
195614 ACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGA
259 ACCCTTCTAGCCTTGAGTTATGATATAAATGATGTACCCTCAAAGCTGAGTGTAATCGAACTCGA
*
195679 GGGTCT
324 GGGGCT
* *
195685 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATAATGCGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * *
195750 CGAACTCGAAGGTATTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTT
66 CGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTG
* *
195815 CCCTCGAAGCTGAGTGTAATCGAACTTGAAGGTCTTTGGCAGATAGCCCTTTTCGACTTAAGCTA
131 CCCTCGAAGCTGAGTGTAATCAAACTTGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
*
195880 TGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC-ACAGGTCTTTGGTGACAGATAA
196 TGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGA-AGGTCTTTGGTGACAGATAA
*
195944 CCATTCTAGCCTTGAGTTATGATATAAATGATGTACCCTCAAAGCTGAGTGTAATCGAACTCGAG
260 CCCTTCTAGCCTTGAGTTATGATATAAATGATGTACCCTCAAAGCTGAGTGTAATCGAACTCGAG
196009 GGGCT
325 GGGCT
*
196014 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCCAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * *
196079 CGAACTCGAAGGTCTTTGATTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATG
66 CGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTG
* * * * *
196144 CCTTAG-AGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGGCAGATAGCCCTTCTCGACTTAAGCT
131 CCCTCGAAGCTGAGTGTAATCAAACTTGAAGGTC-TTTGGCAGATAGCCCTTCTCGACTTAAGCT
*
196208 ATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATA
195 ATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATA
* *
196273 GCCCTTCTGGCCTTGAG
259 ACCCTTCTAGCCTTGAG
196290 CTAAGTTGCA
Statistics
Matches: 549, Mismatches: 50, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
328 23 0.04
329 360 0.66
330 164 0.30
331 2 0.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (329 bp):
TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTG
CCCTCGAAGCTGAGTGTAATCAAACTTGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
TGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAAC
CCTTCTAGCCTTGAGTTATGATATAAATGATGTACCCTCAAAGCTGAGTGTAATCGAACTCGAGG
GGCT
Found at i:196302 original size:494 final size:494
Alignment explanation
Indices: 195356--196302 Score: 1445
Period size: 494 Copynumber: 1.9 Consensus size: 494
195346 AGGTCTTCGG
*
195356 TTGGCAGATAGCCTTTCTCGACTTAAGCTATACTGCAAACGACGTGCCTTTGAGCTGAGCGTAGT
1 TTGGCAGATAGCCTTTCTCGACTTAAGCTATACTGCAAACGACGTGCCTTGGAGCTGAGCGTAGT
* * *
195421 CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGC
66 CGAACTCGAAGGTCTTTGGTGACAGATAACCATTCTAGCCTTGAGTTATACTATAAATGATGTAC
* * *
195486 CCTCGAAGCTGAGTATAATCAAACTTGAGAGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
131 CCTCAAAGCTGAGTATAATCAAACTCGAGAGGCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
* *
195551 GCTGCAAATGATATGCCTTGGAGCTGAGTGTAGTTGAACTCGAAGGTCTTTTGGTGATAGATAAC
196 GCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGATAGATAAC
* * * * * * * *
195616 CCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGAGG
261 CCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTAGAAGCTGAGCGTAATCAAACTCGAAG
195681 GTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATAATGCGCCTTGGAGCTGAGCG
326 GTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATAATGCGCCTTGGAGCTGAGCG
* *
195746 TAGTCGAACTCGAAGGTATTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
391 TAGTCGAACTCGAAGGTATTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTAAGCTGCAAATGA
195811 TGTTCCCTCGAAGCTGAGTGTAATCGAACTTGAAGGTCT
456 TGTTCCCTCGAAGCTGAGTGTAATCGAACTTGAAGGTCT
* * *
195850 TTGGCAGATAGCCCTTT-TCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
1 TTGGCAGATAG-CCTTTCTCGACTTAAGCTATACTGCAAACGACGTGCCTTGGAGCTGAGCGTAG
195914 TCGAACTC-ACAGGTCTTTGGTGACAGATAACCATTCTAGCCTTGAGTTATGA-TATAAATGATG
65 TCGAACTCGA-AGGTCTTTGGTGACAGATAACCATTCTAGCCTTGAGTTAT-ACTATAAATGATG
* * *
195977 TACCCTCAAAGCTGAGTGTAATCGAACTCGAGGGGCTTTGGCAGATAGCCCTTCTCGACTTAAGC
128 TACCCTCAAAGCTGAGTATAATCAAACTCGAGAGGCTTTGGCAGATAGCCCTTCTCGACTTAAGC
* * * *
196042 TATGCTGCCAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGATTGGTAGA
193 TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTG-GTGATAGA
* * *
196106 TAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCTTAG-AGCTGAGCGTAGTCAAACTC
257 TAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTAGAAGCTGAGCGTAATCAAACTC
* *
196170 GAAGGTCTTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCT
322 GAAGGTC-TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATAATGCGCCTTGGAGCT
* * * * * * *
196235 GAGTGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTGGCCTTGAGCTAAGTTGCA
386 GAGCGTAGTCGAACTCGAAGGTATTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTAAGCTGCA
196300 AAT
451 AAT
196303 AGTTTCTTCA
Statistics
Matches: 407, Mismatches: 41, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
493 27 0.07
494 374 0.92
495 6 0.01
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (494 bp):
TTGGCAGATAGCCTTTCTCGACTTAAGCTATACTGCAAACGACGTGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTGGTGACAGATAACCATTCTAGCCTTGAGTTATACTATAAATGATGTAC
CCTCAAAGCTGAGTATAATCAAACTCGAGAGGCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
GCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGATAGATAAC
CCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTAGAAGCTGAGCGTAATCAAACTCGAAG
GTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATAATGCGCCTTGGAGCTGAGCG
TAGTCGAACTCGAAGGTATTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTAAGCTGCAAATGA
TGTTCCCTCGAAGCTGAGTGTAATCGAACTTGAAGGTCT
Found at i:202061 original size:19 final size:19
Alignment explanation
Indices: 202037--202075 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
202027 TCGAATGCAT
202037 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
202056 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
202075 T
1 T
202076 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:202092 original size:65 final size:63
Alignment explanation
Indices: 201974--202182 Score: 199
Period size: 65 Copynumber: 3.2 Consensus size: 63
201964 TATTCAAAGG
* *
201974 CATGCACCGATGCA-TCAGTCCATGCATCGATGCATCGATGAAT-TAATT-GAACATCGAATGCA
1 CATGCACCGATGCACTC--TCCATGCATCGATGCATC--TGAATAT-TTTCAAACATCGAATGCA
*
202036 TTC
61 TTT
202039 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCA-TCTGAATATTTTC-AAACATCGAATGCATTT
* * *** * ** * *
202104 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTCAAACATCAAATGTATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCATCTGAATA-TTTTCAAACATCGAATGCATTT
*
202168 CATGCATCGATGCAC
1 CATGCACCGATGCAC
202183 ACTTGGTGCA
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
63 7 0.06
64 51 0.41
65 64 0.52
66 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (63 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCATCTGAATATTTTCAAACATCGAATGCATTT
Found at i:202180 original size:64 final size:65
Alignment explanation
Indices: 202023--202183 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 65
202013 GAATTAATTG
* * *** *
202023 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
* **
202088 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
202151 A
65 A
* *
202152 AACATCAAATGTATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
202184 CTTGGTGCAC
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 35 0.42
65 48 0.58
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:208009 original size:20 final size:21
Alignment explanation
Indices: 207980--208035 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
207970 TTTGTGCTTC
*
207980 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
208000 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
208022 ATGCATCGATGCAT
1 ATGCATCGATGCAT
208036 AAGACCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:209618 original size:21 final size:21
Alignment explanation
Indices: 209576--209619 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
209566 ACCCCGGGAG
*
209576 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
209597 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
209618 CT
1 CT
209620 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:210674 original size:19 final size:19
Alignment explanation
Indices: 210650--210688 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
210640 TCGAATGCAT
210650 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
210669 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
210688 T
1 T
210689 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:210705 original size:65 final size:63
Alignment explanation
Indices: 210587--210795 Score: 208
Period size: 65 Copynumber: 3.2 Consensus size: 63
210577 TATTCAAAGG
* *
210587 CATGCACCGATGCA-TCAGTCCATGCATCGATGCATCGATGAAT-TAATT-GAACATCGAATGCA
1 CATGCACCGATGCACTC--TCCATGCATCGATGCATC--TGAATAT-TTTCAAACATCGAATGCA
*
210649 TTC
61 TTT
210652 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCA-TCTGAATATTTTC-AAACATCGAATGCATTT
* * *** * ** *
210717 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTCAAACATCGGATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCATCTGAATA-TTTTCAAACATCGAATGCATTT
*
210781 CATGCATCGATGCAC
1 CATGCACCGATGCAC
210796 ACTTGGTGCA
Statistics
Matches: 125, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
63 7 0.06
64 52 0.42
65 64 0.51
66 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (63 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCATCTGAATATTTTCAAACATCGAATGCATTT
Found at i:210790 original size:64 final size:65
Alignment explanation
Indices: 210636--210796 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
210626 GAATTAATTG
* * *** *
210636 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
* **
210701 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
210764 A
65 A
*
210765 AACATCGGATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
210797 CTTGGTGCAC
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 36 0.43
65 48 0.57
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:210811 original size:64 final size:64
Alignment explanation
Indices: 210587--210816 Score: 216
Period size: 64 Copynumber: 3.6 Consensus size: 64
210577 TATTCAAAGG
* * * *
210587 CATGCACCGATGCATCAGTCCATGCATCGATGCATCGATGAAT-TAATT--GAACATCGAATGCA
1 CATGCATCGATGCA-CACTCCATGCATCGATGCATC-A-GAATAT-TTTCAAAACATCGAATGCA
*
210649 TTC
62 TTT
* * *
210652 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAAAACATCGAATGCATTT
* ** ** *
210717 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-AAACATCGGATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAAAACATCGAATGCATTT
*** *
210781 CATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 CATGCATCGATGCACACTCCATGCATCGATGCATCA
210817 AGTGTTCCAA
Statistics
Matches: 138, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
63 6 0.04
64 68 0.49
65 64 0.46
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (64 bp):
CATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAAAACATCGAATGCATTT
Found at i:212417 original size:38 final size:37
Alignment explanation
Indices: 212280--212509 Score: 252
Period size: 38 Copynumber: 6.5 Consensus size: 37
212270 TATTTTGTTT
212280 AAACTATATATTATAT---TTTT-AAAAA-GTTTTTA
1 AAACTATATATTATATAAGTTTTCAAAAATGTTTTTA
212312 AAACTATATATTATAT-AGTTTTC--AAAT-TTTTTA
1 AAACTATATATTATATAAGTTTTCAAAAATGTTTTTA
*
212345 AAA--A-ATATTATATAAGTTTTCAAAAATATTTTTA
1 AAACTATATATTATATAAGTTTTCAAAAATGTTTTTA
*
212379 AAACTATATATTATATAATTTTTCAAAAAATGTTTTTA
1 AAACTATATATTATATAAGTTTTC-AAAAATGTTTTTA
* * *
212417 AAACTATATATTATATAAATTTTCAAAAATATTTTAAAA
1 AAACTATATATTATATAAGTTTTCAAAAATGTTTT--TA
* * * *
212456 AAATTATATACTATATAAGTTTTC-AAAATGCTTTAA
1 AAACTATATATTATATAAGTTTTCAAAAATGTTTTTA
*
212492 AAACTATATAATATATAA
1 AAACTATATATTATATAA
212510 ATTATATCTT
Statistics
Matches: 172, Mismatches: 12, Indels: 24
0.83 0.06 0.12
Matches are distributed among these distances:
30 9 0.05
31 8 0.05
32 16 0.09
33 16 0.09
34 13 0.08
36 19 0.11
37 26 0.15
38 43 0.25
39 22 0.13
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (37 bp):
AAACTATATATTATATAAGTTTTCAAAAATGTTTTTA
Found at i:212440 original size:75 final size:73
Alignment explanation
Indices: 212280--212589 Score: 273
Period size: 75 Copynumber: 4.2 Consensus size: 73
212270 TATTTTGTTT
*
212280 AAACTATATATTATAT---TTTT-AAAAA-GTTTTTAAAACTATATATTATAT-AGTTTTC-AAA
1 AAACTATATATTATATAAATTTTCAAAAATATTTTTAAAACTATATATTATATAAGTTTTCAAAA
212338 T-TTTTTA
66 TGTTTTTA
* *
212345 AAA--A-ATATTATATAAGTTTTCAAAAATATTTTTAAAACTATATATTATATAATTTTTCAAAA
1 AAACTATATATTATATAAATTTTCAAAAATATTTTTAAAACTATATATTATATAAGTTTTC--AA
212407 AATGTTTTTA
64 AATGTTTTTA
* * *
212417 AAACTATATATTATATAAATTTTCAAAAATATTTTAAAAAAATTATATACTATATAAGTTTTCAA
1 AAACTATATATTATATAAATTTTCAAAAATATTTT--TAAAACTATATATTATATAAGTTTTCAA
* *
212482 AATGCTTTAA
64 AATGTTTTTA
* * * * *
212492 AAACTATATAATATATAAATTATATCTTTTTAAAATATTTTCATAAACTATATAATATATAAATT
1 AAACTATATATTATATAAATT-T-TC----AAAAATATTTTTA-AAACTATATATTATATAAGTT
*
212557 TTCGATAATCGTTTTCTGA
59 TTC-AAAAT-GTTTT-T-A
*
212576 AAATTATATATTAT
1 AAACTATATATTAT
212590 GTTTTGCCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 33
0.79 0.08 0.13
Matches are distributed among these distances:
62 9 0.05
63 1 0.01
65 7 0.04
66 5 0.03
67 22 0.11
68 6 0.03
71 4 0.02
72 9 0.05
74 1 0.01
75 57 0.29
76 1 0.01
77 24 0.12
79 1 0.01
80 21 0.11
81 14 0.07
82 4 0.02
84 13 0.07
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (73 bp):
AAACTATATATTATATAAATTTTCAAAAATATTTTTAAAACTATATATTATATAAGTTTTCAAAA
TGTTTTTA
Found at i:212464 original size:39 final size:37
Alignment explanation
Indices: 212280--212559 Score: 219
Period size: 38 Copynumber: 7.6 Consensus size: 37
212270 TATTTTGTTT
212280 AAACTATATATTATAT---TTTT-AAAAAGT-TTTT-A
1 AAACTATATATTATATAAATTTTCAAAAA-TATTTTAA
* *
212312 AAACTATATATTATAT-AGTTTTC--AAAT-TTTTTA
1 AAACTATATATTATATAAATTTTCAAAAATATTTTAA
* *
212345 AAA--A-ATATTATATAAGTTTTCAAAAATATTTTTA
1 AAACTATATATTATATAAATTTTCAAAAATATTTTAA
* * *
212379 AAACTATATATTATATAATTTTTCAAAAAATGTTTTTA
1 AAACTATATATTATATAAATTTTC-AAAAATATTTTAA
212417 AAACTATATATTATATAAATTTTCAAAAATATTTTAAAA
1 AAACTATATATTATATAAATTTTCAAAAATATTTT--AA
* * * **
212456 AAATTATATACTATATAAGTTTTC-AAAATGCTTTAA
1 AAACTATATATTATATAAATTTTCAAAAATATTTTAA
* * *
212492 AAACTATATAATATATAAATTATATCTTTTTAAAATATTTTCAT
1 AAACTATATATTATATAAATT-T-TC----AAAAATATTTT-AA
*
212536 AAACTATATAATATATAAATTTTC
1 AAACTATATATTATATAAATTTTC
212560 GATAATCGTT
Statistics
Matches: 210, Mismatches: 16, Indels: 34
0.81 0.06 0.13
Matches are distributed among these distances:
30 9 0.04
31 8 0.04
32 21 0.10
33 11 0.05
34 13 0.06
36 21 0.10
37 27 0.13
38 45 0.21
39 22 0.10
42 2 0.01
43 9 0.04
44 22 0.10
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (37 bp):
AAACTATATATTATATAAATTTTCAAAAATATTTTAA
Found at i:215623 original size:39 final size:39
Alignment explanation
Indices: 215567--215663 Score: 158
Period size: 39 Copynumber: 2.5 Consensus size: 39
215557 CAACTCAAAA
* *
215567 ATATGCACCGTAATGCTTACACATAAGGTCGTGCCCACG
1 ATATGCACCGTAGTGCTTACACATAAGGTCGTGCCCACC
215606 ATATGCACCGTAGTGCTTACACATAAGGTCGTGCCCACC
1 ATATGCACCGTAGTGCTTACACATAAGGTCGTGCCCACC
**
215645 ATATGCACCAAAGTGCTTA
1 ATATGCACCGTAGTGCTTA
215664 ATTGATATGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
ATATGCACCGTAGTGCTTACACATAAGGTCGTGCCCACC
Found at i:215873 original size:26 final size:24
Alignment explanation
Indices: 215821--215874 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
215811 ATAACTTTTG
***
215821 TGATAAACATCATATATATTCTCA
1 TGATAAACATCATATATATAAACA
215845 TGATAAACATCATATATAATAAACAA
1 TGATAAACATCATATAT-ATAAAC-A
215871 TGAT
1 TGAT
215875 CAATGCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 17 0.68
25 3 0.12
26 5 0.20
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (24 bp):
TGATAAACATCATATATATAAACA
Found at i:229190 original size:19 final size:19
Alignment explanation
Indices: 229166--229230 Score: 112
Period size: 19 Copynumber: 3.4 Consensus size: 19
229156 TTTACCCTTA
229166 ATAAAACCTGATATTTACC
1 ATAAAACCTGATATTTACC
*
229185 ATAAAACTTGATATTTACC
1 ATAAAACCTGATATTTACC
*
229204 ATAAAACTTGATATTTACC
1 ATAAAACCTGATATTTACC
229223 ATAAAACC
1 ATAAAACC
229231 AAGACACCTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (19 bp):
ATAAAACCTGATATTTACC
Found at i:242728 original size:26 final size:24
Alignment explanation
Indices: 242676--242729 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
242666 ATAACATTTG
***
242676 TGATAAACATCATATATATTCTCA
1 TGATAAACATCATATATATAAACA
242700 TGATAAACATCATATATAATAAACAA
1 TGATAAACATCATATAT-ATAAAC-A
242726 TGAT
1 TGAT
242730 CAATGCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 17 0.68
25 3 0.12
26 5 0.20
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (24 bp):
TGATAAACATCATATATATAAACA
Found at i:255421 original size:30 final size:31
Alignment explanation
Indices: 255356--255423 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
255346 AACAATCTAC
* * * * *
255356 AACTTTTCAAAAATTATTGATTTAGTCTCCT
1 AACTTTTCAAAAATCATAGATATAGTCCCCA
255387 AACTTTTCAAAAATCATAGA-ATAGTCCCCA
1 AACTTTTCAAAAATCATAGATATAGTCCCCA
255417 AACTTTT
1 AACTTTT
255424 ATAAGGCTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 14 0.44
31 18 0.56
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.38
Consensus pattern (31 bp):
AACTTTTCAAAAATCATAGATATAGTCCCCA
Found at i:257641 original size:18 final size:20
Alignment explanation
Indices: 257609--257646 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
257599 ATATGATGCT
*
257609 TAAAATATTACATCA-AGAA
1 TAAAATATTAAATCATAGAA
257628 TAAAA-ATTAAATCATAGAA
1 TAAAATATTAAATCATAGAA
257647 AAGTATGCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.61, C:0.08, G:0.05, T:0.26
Consensus pattern (20 bp):
TAAAATATTAAATCATAGAA
Found at i:271014 original size:23 final size:23
Alignment explanation
Indices: 270984--271034 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
270974 ATGAAGGTTC
270984 AGAAAGTCATCAAGCAGATAGTA
1 AGAAAGTCATCAAGCAGATAGTA
271007 AGAAAGTCATCAAGCAGATAGTA
1 AGAAAGTCATCAAGCAGATAGTA
271030 AGAAA
1 AGAAA
271035 TTTATTGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.51, C:0.12, G:0.22, T:0.16
Consensus pattern (23 bp):
AGAAAGTCATCAAGCAGATAGTA
Found at i:286788 original size:14 final size:14
Alignment explanation
Indices: 286769--286805 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
286759 ACCCAGTCGC
*
286769 TGAGTCAACTAGGT
1 TGAGTCAACTAGAT
*
286783 TGAGTCAACTCGAT
1 TGAGTCAACTAGAT
286797 TGAGTCAAC
1 TGAGTCAAC
286806 CCGTTGAACG
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:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (14 bp):
TGAGTCAACTAGAT
Found at i:287605 original size:28 final size:28
Alignment explanation
Indices: 287560--287613 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
287550 GAAATTATAG
* * * *
287560 AATTGCCCCTGAAGTGTACAATGACCAA
1 AATTCCCCCTAAAATGTAAAATGACCAA
287588 AATTCCCCCTAAAATGTAAAATGACC
1 AATTCCCCCTAAAATGTAAAATGACC
287614 TAAAGTATCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.22
Consensus pattern (28 bp):
AATTCCCCCTAAAATGTAAAATGACCAA
Found at i:290445 original size:13 final size:13
Alignment explanation
Indices: 290427--290451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
290417 TTGCAGGGGC
290427 AAGTTTCAAAACA
1 AAGTTTCAAAACA
290440 AAGTTTCAAAAC
1 AAGTTTCAAAAC
290452 TAACTATTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (13 bp):
AAGTTTCAAAACA
Found at i:291061 original size:93 final size:95
Alignment explanation
Indices: 290888--291070 Score: 246
Period size: 93 Copynumber: 1.9 Consensus size: 95
290878 TAAGTTACGT
* * **
290888 CATTTGTGATTACTTCAAATATTTTTTAAGATAAAAACATGCTTTTGAGTCTATTTACTAAAAAA
1 CATTTGTGATTACATCAAATATATTTTAAGATAAAAACATGCTTTCAAGTCTATTTACTAAAAAA
*
290953 TCTTTCAATTTTCCCC-TTATTTTTTAGGC
66 TCTTTCAACTTTCCCCTTTATTTTTTAGGC
* ** *
290982 CATTTGTTATTACATCAAATAATATTTTAAGATTTAAA-ATGC-TTCAAGTCTATTTATTAAAAA
1 CATTTGTGATTACATCAAAT-ATATTTTAAGATAAAAACATGCTTTCAAGTCTATTTACTAAAAA
*
291045 ATCTTTCGACTTTCCCCTTTATTTTT
65 ATCTTTCAACTTTCCCCTTTATTTTT
291071 AAGTGGATGA
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
93 33 0.43
94 30 0.39
95 14 0.18
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.46
Consensus pattern (95 bp):
CATTTGTGATTACATCAAATATATTTTAAGATAAAAACATGCTTTCAAGTCTATTTACTAAAAAA
TCTTTCAACTTTCCCCTTTATTTTTTAGGC
Found at i:291229 original size:77 final size:77
Alignment explanation
Indices: 291102--291258 Score: 278
Period size: 77 Copynumber: 2.0 Consensus size: 77
291092 ATCAAGAAAT
* *
291102 TTCAGCCTTGCTTACCAAGTAAATTGATAGCTAAATGGAAAGACTAACTATTTTGTTTAACATTT
1 TTCAGCCTTGCTTACCAAGTAAATTGATAGCTAAATAGAAAAACTAACTATTTTGTTTAACATTT
*
291167 AGGATCCCTTGC
66 AGGATCCCTGGC
*
291179 TTCAGCCTTGCTTACTAAGTAAATTGATAGCTAAATAGAAAAACTAACTATTTTGTTTAACATTT
1 TTCAGCCTTGCTTACCAAGTAAATTGATAGCTAAATAGAAAAACTAACTATTTTGTTTAACATTT
291244 AGGATCCCTGGC
66 AGGATCCCTGGC
291256 TTC
1 TTC
291259 TATTTGTACT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (77 bp):
TTCAGCCTTGCTTACCAAGTAAATTGATAGCTAAATAGAAAAACTAACTATTTTGTTTAACATTT
AGGATCCCTGGC
Found at i:293337 original size:18 final size:17
Alignment explanation
Indices: 293314--293356 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
293304 ATATATACAT
*
293314 ATAATAATAATAACTTGA
1 ATAATAATAATAA-ATGA
*
293332 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
293349 ATAA-AATA
1 ATAATAATA
293357 TCCATATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:294696 original size:105 final size:105
Alignment explanation
Indices: 294509--295231 Score: 1115
Period size: 105 Copynumber: 7.0 Consensus size: 105
294499 GCATTGTTCA
* * **
294509 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
294569 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
294609 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
294674 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* ** *
294714 GAGTCCAATTTCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
294779 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
294819 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
294884 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
294924 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGTTCTGAAATTGAGAA---GTTGTTGACAGG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
294986 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTGTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
295026 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTG-AATTGAGAAGTTGTTGTTAAC-AG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
295089 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 -CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
295130 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAA
* ** * *
295195 CCAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
295232 CCTCGAGTGC
Statistics
Matches: 576, Mismatches: 35, Indels: 18
0.92 0.06 0.03
Matches are distributed among these distances:
100 36 0.06
101 10 0.02
102 90 0.16
103 3 0.01
104 86 0.15
105 312 0.54
106 38 0.07
107 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:295223 original size:312 final size:314
Alignment explanation
Indices: 294509--295231 Score: 1115
Period size: 312 Copynumber: 2.3 Consensus size: 314
294499 GCATTGTTCA
* * **
294509 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTG-AA-TGA-AA--T-TTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* * *
294568 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGAAGTCCAATATCCTTCATTGTGAA
* *
294633 GTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTT
131 GTTGAAATTGGCTCTGAAATTGAGAA--TGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTT
* * * * *
294698 GAACTTGCATTGTCTGGAGTCCAATTTCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGA
194 GAACTTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGCAATTGAGA
* *
294763 AGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
259 AGTTGTTGTTAACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
*
294819 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
294883 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGAAGTCCAATATCCTTCATTGTGAA
66 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGAAGTCCAATATCCTTCATTGTGAA
* *
294948 GTTGAAATTGGTTCTGAAATTGAGAA-GTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGA
131 GTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
* *
295012 ACTTGCGTTGTGTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTG-AATTGAGAAG
196 ACTTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGCAATTGAGAAG
295076 TTGTTGTTAAC-AGCCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
261 TTGTTGTTAACAAG-CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
295130 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* ** * *
295195 CCAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
66 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
295232 CCTCGAGTGC
Statistics
Matches: 378, Mismatches: 27, Indels: 14
0.90 0.06 0.03
Matches are distributed among these distances:
310 37 0.10
311 112 0.30
312 131 0.35
313 2 0.01
315 96 0.25
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (314 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGAAGTCCAATATCCTTCATTGTGAA
GTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
ACTTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGCAATTGAGAAG
TTGTTGTTAACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
Found at i:296009 original size:67 final size:66
Alignment explanation
Indices: 295874--296031 Score: 194
Period size: 68 Copynumber: 2.4 Consensus size: 66
295864 AAGATATATG
* * **
295874 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTCAAAGA-
295939 TT
65 TT
* *
295941 TGTGTTTCAAGAGTAACTGTCTCAAGGGAGAA-AAAATT-TGTTTTAGGGGAAATAAATTCAAAG
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGA-AACAAAATTATGTTTTAAGGGAAATAAATTCAAAG
*
296004 GTT
64 ATT
* *
296007 TTGTTTCAAGGGAAACTATCTCAAG
1 TTGTTTCAAGAGAAACTGTCTCAAG
296032 ATAGACGAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
65 21 0.27
66 3 0.04
67 23 0.29
68 30 0.38
69 2 0.03
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (66 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTCAAAGAT
T
Found at i:296047 original size:65 final size:67
Alignment explanation
Indices: 295875--296057 Score: 174
Period size: 65 Copynumber: 2.7 Consensus size: 67
295865 AGATATATGT
* ** * ** *
295875 TGTTTCATGAGAAACGGTCTCAAGGGA-AACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGAA-AAAATT-TGTTTTAAGGGAAATAAATTCAAAGAG
295939 TTTG
64 TTTG
* * * *
295943 TGTTTCAAGAGTAACTGTCTCAAGGGAGAAAAAATTTGTTTTAGGGGAAATAAATTCAAAG-GTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAATTTGTTTTAAGGGAAATAAATTCAAAGAGTT
296007 T-
66 TG
* * ** * *
296008 TGTTTCAAGGGAAACTATCTCAAGATAGACGAAATTTGTTTCAAGAGAAA
1 TGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAATTTGTTTTAAGGGAAA
296058 CTGTCTCAAG
Statistics
Matches: 97, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
65 40 0.41
66 3 0.03
67 22 0.23
68 30 0.31
69 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (67 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAATTTGTTTTAAGGGAAATAAATTCAAAGAGTT
TG
Found at i:296058 original size:36 final size:36
Alignment explanation
Indices: 296006--296268 Score: 247
Period size: 36 Copynumber: 7.4 Consensus size: 36
295996 ATTCAAAGGT
* * * *
296006 TTTGTTTCAAGGGAAACTATCTCAAGATAGACGAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
296042 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * * *
296078 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
296115 TTTGTTTCAA-AGAAAACATAT-TC-----A-A-ATAT
1 TTTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAA
*
296144 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
296180 TTTATTTCAAGAGAAACTGTCTCAAGAGATACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
296216 TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
296253 TTTATTTCAAGGGAAA
1 TTTGTTTCAAGAGAAA
296269 TGTTTTCAAT
Statistics
Matches: 186, Mismatches: 28, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
28 2 0.01
29 17 0.09
30 2 0.01
31 1 0.01
34 1 0.01
35 3 0.02
36 96 0.52
37 64 0.34
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:296119 original size:138 final size:137
Alignment explanation
Indices: 295955--296334 Score: 474
Period size: 138 Copynumber: 2.8 Consensus size: 137
295945 TTTCAAGAGT
** * * * *
295955 AACTGTCTCAAGGGAGAAAAAATTTGTTTTAGGGGAAATAAATTCAAAGGTTTTGTTTCAAGGGA
1 AACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAATGTTTTGTTTCAAGGGA
* *
296020 AACTATCTCAAGATAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTT
66 AACTGTCTCAAGAGAGAC-AAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTT
296085 CCAAAAGA
130 CCAAAAGA
* * * *
296093 AACTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATTTTGTTTCAAGGGA
1 AACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAATGTTTTGTTTCAAGGGA
* * * *
296158 AACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGATACAAAATTTTGTT
66 AACTGTCTCAAGAGAGAC-AAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTT
* **
296223 TCAAGGGA
130 CCAAAAGA
* * * * * *
296231 AACTATCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTTTTC-AATGTTTATGTTTCAAGAG
1 AACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAATGTTT-TGTTTCAAGGG
* *
296295 AAACTGTCTCAAGAGAGACAAATCTTGTTTTAAGAAAAAC
65 AAACTGTCTCAAGAGAGACAAAT-TTGTTTCAAGAGAAAC
296335 AATCATGAGT
Statistics
Matches: 207, Mismatches: 33, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
137 10 0.05
138 197 0.95
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (137 bp):
AACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAATGTTTTGTTTCAAGGGA
AACTGTCTCAAGAGAGACAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTC
CAAAAGA
Found at i:296221 original size:102 final size:102
Alignment explanation
Indices: 296042--296226 Score: 291
Period size: 102 Copynumber: 1.8 Consensus size: 102
296032 ATAGACGAAA
*
296042 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAG
*
296107 AGACGAAATTTGTTTCAAAGAAAACATATTCAAATAT
66 AGACAAAATTTGTTTCAAAGAAAACATATTCAAATAT
* * * *
296144 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTA-TTTCAAGAGAAACTGTCTCAAGAG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAG
*
296208 ATACAAAATTTTGTTTCAA
66 AGACAAAA-TTTGTTTCAA
296227 GGGAAACTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
101 27 0.36
102 48 0.64
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29
Consensus pattern (102 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAG
AGACAAAATTTGTTTCAAAGAAAACATATTCAAATAT
Found at i:297274 original size:22 final size:22
Alignment explanation
Indices: 297234--297277 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
297224 CATTTTTGTT
*
297234 CATTTGATGCTAAATGGTTTGA
1 CATTTGATGCCAAATGGTTTGA
297256 CATTTGATGCCCAAA-GGTTTGA
1 CATTTGATG-CCAAATGGTTTGA
297278 TGGGGTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (22 bp):
CATTTGATGCCAAATGGTTTGA
Found at i:297899 original size:9 final size:8
Alignment explanation
Indices: 297877--297914 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
297867 TTTTTGTCCC
297877 TTTTTC-T
1 TTTTTCTT
297884 TTTTTCTT
1 TTTTTCTT
297892 TTTGTTCTT
1 TTT-TTCTT
297901 TTTTTGCTT
1 TTTTT-CTT
297910 TTTTT
1 TTTTT
297915 TTCTCTTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 6 0.21
8 6 0.21
9 16 0.57
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:299123 original size:8 final size:8
Alignment explanation
Indices: 299107--299145 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
299097 ATTGTAGATG
299107 AAAATGCA
1 AAAATGCA
*
299115 AAAAGGCA
1 AAAATGCA
299123 AAAATGC-
1 AAAATGCA
299130 AAAATGCA
1 AAAATGCA
*
299138 AGAATGCA
1 AAAATGCA
299146 TGAAATGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (8 bp):
AAAATGCA
Done.