Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002698.1 Hibiscus syriacus cultivar Beakdansim tig00005573_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: 144881
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Found at i:893 original size:31 final size:31
Alignment explanation
Indices: 824--919 Score: 167
Period size: 30 Copynumber: 3.1 Consensus size: 31
814 AGAGTCGAGG
824 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGGGACCTATGGACA
855 -TTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGGGACCTATGGACA
*
885 GTTTACCTAGGTTCGTCGGGACCCTATGGACA
1 GTTTACCTAGGTTCTTCGGGA-CCTATGGACA
917 GTT
1 GTT
920 GTCGAGGTTC
Statistics
Matches: 62, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
30 30 0.48
31 19 0.31
32 13 0.21
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGGGACCTATGGACA
Found at i:928 original size:31 final size:29
Alignment explanation
Indices: 830--931 Score: 125
Period size: 31 Copynumber: 3.3 Consensus size: 29
820 GAGGGTTTAC
830 CTAGGTTCTTCGGGACCTATGGACA-TTT
1 CTAGGTTCTTCGGGACCTATGGACAGTTT
858 ACCTAGGTTCTTCGGGACCTATGGACAGTTT
1 --CTAGGTTCTTCGGGACCTATGGACAGTTT
*
889 ACCTAGGTTCGTCGGGACCCTATGGACAGTTGT
1 --CTAGGTTCTTCGGGA-CCTATGGACAGTT-T
*
922 CGAGGTTCTT
1 CTAGGTTCTT
932 TATGACCTCT
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
30 25 0.38
31 27 0.41
32 13 0.20
33 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (29 bp):
CTAGGTTCTTCGGGACCTATGGACAGTTT
Found at i:939 original size:62 final size:61
Alignment explanation
Indices: 824--949 Score: 153
Period size: 62 Copynumber: 2.0 Consensus size: 61
814 AGAGTCGAGG
* * * *
824 GTTTACCTAGGTTCTTCGGGACCTATGGACATTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCGTCGGGACCTATGGACAGTTACCGAGGTTCTTCAGGACCTATGGACA
** * * * *
885 GTTTACCTAGGTTCGTCGGGACCCTATGGACAGTTGTCGAGGTTCTTTATGACCTCTGGATA
1 GTTTACCTAGGTTCGTCGGGA-CCTATGGACAGTTACCGAGGTTCTTCAGGACCTATGGACA
947 GTT
1 GTT
950 ACGGGGGTTC
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
61 20 0.37
62 34 0.63
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.34
Consensus pattern (61 bp):
GTTTACCTAGGTTCGTCGGGACCTATGGACAGTTACCGAGGTTCTTCAGGACCTATGGACA
Found at i:4995 original size:31 final size:31
Alignment explanation
Indices: 4954--5017 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
4944 AGTCGAGGGT
* * *
4954 TTTACGTAGGTTCTTCGGGACCTATGGACAG
1 TTTACCTAGGTTCATCAGGACCTATGGACAG
4985 TTTACCTAGGTTCATCAGGACCTATGGACAG
1 TTTACCTAGGTTCATCAGGACCTATGGACAG
5016 TT
1 TT
5018 GCCGAGGTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (31 bp):
TTTACCTAGGTTCATCAGGACCTATGGACAG
Found at i:5037 original size:30 final size:30
Alignment explanation
Indices: 4972--5071 Score: 94
Period size: 30 Copynumber: 3.3 Consensus size: 30
4962 GGTTCTTCGG
* * * *
4972 GACCTATGGACAGTTTACCTAGGTTCATCAG
1 GACCTATGGACAG-TTACCGAGGTTCTTTAT
*
5003 GACCTATGGACAGTTGCCGAGGTTCTTTAT
1 GACCTATGGACAGTTACCGAGGTTCTTTAT
* * * *
5033 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTATGGACAGTTACCGAGGTTCTTTAT
*
5062 GACCTCTGGA
1 GACCTATGGA
5072 TAGGTCATTC
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 18 0.31
30 28 0.47
31 13 0.22
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (30 bp):
GACCTATGGACAGTTACCGAGGTTCTTTAT
Found at i:5059 original size:29 final size:30
Alignment explanation
Indices: 5003--5074 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
4993 GGTTCATCAG
* * * *
5003 GACCTATGGACAGTTGCCGAGGTTCTTTAT
1 GACCTCTGGATAGTTACCGAGGGTCTTTAT
*
5033 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGATAGTTACCGAGGGTCTTTAT
5062 GACCTCTGGATAG
1 GACCTCTGGATAG
5075 GTCATTCGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 21 0.57
30 16 0.43
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGGTCTTTAT
Found at i:5963 original size:64 final size:64
Alignment explanation
Indices: 5889--6052 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 64
5879 CGGTGCACCA
* *
5889 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCTGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATAG
** * **
5953 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATAG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATAG
** * *
6018 AGAATGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTT
6053 CAATTAATTC
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
64 32 0.38
65 53 0.62
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATAG
Found at i:6041 original size:17 final size:19
Alignment explanation
Indices: 6003--6049 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
5993 ATATTCAGAG
6003 TGCATCGATGCATAGAGAA
1 TGCATCGATGCATAGAGAA
*
6022 TGCATCGGTGCAT-G-GAA
1 TGCATCGATGCATAGAGAA
6039 TGCATTCGATG
1 TGCA-TCGATG
6050 TTTCAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 12 0.48
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCATAGAGAA
Found at i:6093 original size:64 final size:65
Alignment explanation
Indices: 5893--6100 Score: 194
Period size: 64 Copynumber: 3.2 Consensus size: 65
5883 GCACCAAGTG
* * * ** * *
5893 TGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCTGAGTGCATCGATGCATGGCTTG
1 TGCATCGGTGCATCAAATGCATTCGATGTTTTCAAAATATTCAGAGAGCATCGATGCATGG-TTG
5957 -
65 A
* * * * *
5957 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATAG-AGA
1 TGCATCGGTGCATCAAATGCATTCGATGTTTTCAAAATATTCAGAGAGCATCGATGCATGGTTG-
6021 A
65 A
** * *
6022 TGCATCGGTGCATGGAATGCATTCGATG-TTTC-AATTAATTCACTA-AGCATCGATGCATGGTT
1 TGCATCGGTGCATCAAATGCATTCGATGTTTTCAAAAT-ATTCA-GAGAGCATCGATGCATGGTT
6084 GA
64 GA
6086 TGCATCGGTGCATCA
1 TGCATCGGTGCATCA
6101 CCTCAAATAA
Statistics
Matches: 121, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
63 4 0.03
64 62 0.51
65 55 0.45
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (65 bp):
TGCATCGGTGCATCAAATGCATTCGATGTTTTCAAAATATTCAGAGAGCATCGATGCATGGTTGA
Found at i:11454 original size:22 final size:21
Alignment explanation
Indices: 11412--11451 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11402 GAGTTTGTTT
*
11412 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
11433 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
11452 ACAGTTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:13445 original size:64 final size:64
Alignment explanation
Indices: 13392--13555 Score: 229
Period size: 65 Copynumber: 2.5 Consensus size: 64
13382 CGGTGCACCA
*
13392 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCTGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * **
13456 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * *
13521 AGAATGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTT
13556 CAATTAATTC
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
64 32 0.37
65 54 0.63
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:13544 original size:17 final size:19
Alignment explanation
Indices: 13506--13552 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
13496 ATATTCAGAG
13506 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
*
13525 TGCATCGGTGCAT-G-GAA
1 TGCATCGATGCATGGAGAA
13542 TGCATTCGATG
1 TGCA-TCGATG
13553 TTTCAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 12 0.48
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCATGGAGAA
Found at i:13575 original size:65 final size:62
Alignment explanation
Indices: 13396--13602 Score: 204
Period size: 65 Copynumber: 3.2 Consensus size: 62
13386 GCACCAAGTG
* *
13396 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGC-CTGAGTGCATCGATGCATGGCTTG
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAT-TCACT-AGTGCATCGATGCATGG--AG
13460 -
62 A
* *
13460 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGAGA
1 TGCATCGATGCATGAAATGCATTCGATG-TTTG-AAA-ATTCACTAGTGCATCGATGCATGGAG-
13524 A
62 A
* * * * *
13525 TGCATCGGTGCATGGAATGCATTCGATGTTTCAATTAATTCACTAATGCATCGATGCATGGTTGA
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAA--AATTCACTAGTGCATCGATGCATGG-AGA
*
13590 TGCATCGGTGCAT
1 TGCATCGATGCAT
13603 CACCTCAAAT
Statistics
Matches: 122, Mismatches: 11, Indels: 19
0.80 0.07 0.12
Matches are distributed among these distances:
63 3 0.02
64 35 0.29
65 77 0.63
66 5 0.04
67 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (62 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATTCACTAGTGCATCGATGCATGGAGA
Found at i:13792 original size:20 final size:21
Alignment explanation
Indices: 13769--13808 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
13759 GAATCGAATA
13769 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
13789 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
13809 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:20180 original size:16 final size:16
Alignment explanation
Indices: 20156--20187 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20146 TATATTATAA
20156 CCAACAATCAAAACTG
1 CCAACAATCAAAACTG
*
20172 CCAATAATCAAAACTG
1 CCAACAATCAAAACTG
20188 AAAAATTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.28, G:0.06, T:0.16
Consensus pattern (16 bp):
CCAACAATCAAAACTG
Found at i:21499 original size:2 final size:2
Alignment explanation
Indices: 21492--21525 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
21482 GTCTTAATTG
21492 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21526 GAGTATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24268 original size:2 final size:2
Alignment explanation
Indices: 24261--24285 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24251 CTTTTAAAAC
24261 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
24286 CCCCCCATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24421 original size:35 final size:35
Alignment explanation
Indices: 24345--24421 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 35
24335 CCCTGTCACA
*
24345 TCCAA-TAAGGCCCTGAGCACACAGCCGAGGAACC
1 TCCAAGTAAGGCCCTGAGCACACAGCCAAGGAACC
***
24379 AGTAAGTAAGGCCCTGAGCACACAGCCAAGGAACC
1 TCCAAGTAAGGCCCTGAGCACACAGCCAAGGAACC
24414 TCCAAGTA
1 TCCAAGTA
24422 TTCTTCCTCC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
34 2 0.06
35 33 0.94
ACGTcount: A:0.35, C:0.31, G:0.23, T:0.10
Consensus pattern (35 bp):
TCCAAGTAAGGCCCTGAGCACACAGCCAAGGAACC
Found at i:24512 original size:24 final size:24
Alignment explanation
Indices: 24502--24637 Score: 202
Period size: 24 Copynumber: 5.7 Consensus size: 24
24492 CATAATTCAC
* * *
24502 GTCAAGTATCATATCAAAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
* *
24526 GTCAAGTATCAGATCAAAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
24550 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
*
24574 GT-AAGATATCATATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
24598 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
24622 GTCAAGTATCAGATCA
1 GTCAAGTATCAGATCA
24638 AAAATCAAAT
Statistics
Matches: 105, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
23 3 0.03
24 99 0.94
25 3 0.03
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:27134 original size:18 final size:18
Alignment explanation
Indices: 27124--27182 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
27114 GTCGGGTCAG
*
27124 CGGGTCGGGTCAGCGGGT
1 CGGGTCGGGTCAACGGGT
27142 CGGGT-----CAACGGGT
1 CGGGTCGGGTCAACGGGT
*
27155 CGGGTCGGTTCAACGGGT
1 CGGGTCGGGTCAACGGGT
27173 CGGGTCGGGT
1 CGGGTCGGGT
27183 TGTGACCGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
13 12 0.35
18 22 0.65
ACGTcount: A:0.08, C:0.22, G:0.51, T:0.19
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:27175 original size:13 final size:13
Alignment explanation
Indices: 27105--27160 Score: 94
Period size: 13 Copynumber: 4.3 Consensus size: 13
27095 GCCGGTCAAC
27105 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
27118 GGTCAGCGGGTCG
1 GGTCAACGGGTCG
*
27131 GGTCAGCGGGTCG
1 GGTCAACGGGTCG
27144 GGTCAACGGGTCG
1 GGTCAACGGGTCG
27157 GGTC
1 GGTC
27161 GGTTCAACGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.11, C:0.23, G:0.50, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:31488 original size:14 final size:14
Alignment explanation
Indices: 31469--31505 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
31459 ATAACCCAAG
31469 GCTTTATCACTATT
1 GCTTTATCACTATT
31483 GCTTTATCACTATT
1 GCTTTATCACTATT
31497 GCTTTATCA
1 GCTTTATCA
31506 GCCAACAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.08, T:0.49
Consensus pattern (14 bp):
GCTTTATCACTATT
Found at i:32222 original size:138 final size:138
Alignment explanation
Indices: 32049--32327 Score: 540
Period size: 138 Copynumber: 2.0 Consensus size: 138
32039 GTACAATTTG
32049 TATGATGCACAAGAAAAACACAAAAACAAACTAGCTGCTCGATTTTCGGCTCCAGCTTGTAAGCA
1 TATGATGCACAAGAAAAACACAAAAACAAACTAGCTGCTCGATTTTCGGCTCCAGCTTGTAAGCA
*
32114 TTGCAATGACAACGTGAGCATATGGTGAAAGTTCATTTTTTCATGGAAGGACAATTTATAAATGC
66 TTGCAAGGACAACGTGAGCATATGGTGAAAGTTCATTTTTTCATGGAAGGACAATTTATAAATGC
32179 ATATGTTT
131 ATATGTTT
32187 TATGATGCACAAGAAAAACACAAAAACAAACTAGCTGCTCGATTTTCGGCTCCAGCTTGTAAGCA
1 TATGATGCACAAGAAAAACACAAAAACAAACTAGCTGCTCGATTTTCGGCTCCAGCTTGTAAGCA
*
32252 TTGCAAGGACAATGTGAGCATATGGTGAAAGTTCATTTTTTCATGGAAGGACAATTTATAAATGC
66 TTGCAAGGACAACGTGAGCATATGGTGAAAGTTCATTTTTTCATGGAAGGACAATTTATAAATGC
32317 ATATGTTT
131 ATATGTTT
32325 TAT
1 TAT
32328 TTTAAGAAAT
Statistics
Matches: 139, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 139 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (138 bp):
TATGATGCACAAGAAAAACACAAAAACAAACTAGCTGCTCGATTTTCGGCTCCAGCTTGTAAGCA
TTGCAAGGACAACGTGAGCATATGGTGAAAGTTCATTTTTTCATGGAAGGACAATTTATAAATGC
ATATGTTT
Found at i:33213 original size:55 final size:55
Alignment explanation
Indices: 33147--33264 Score: 173
Period size: 55 Copynumber: 2.1 Consensus size: 55
33137 TTGGTAATTT
* *
33147 ACATGCAATGGAAAATGAATATCATCATCTTAATGTCTAATTAACGAAACAATCA
1 ACATGCAATGGAAAATGAATATCATCATCTTAATATCTAATTAACAAAACAATCA
* * * * *
33202 ACCTGCAATGGAAAATGACTATCATTATCTTAATATTTAATTAACAAAACACTCA
1 ACATGCAATGGAAAATGAATATCATCATCTTAATATCTAATTAACAAAACAATCA
33257 ACATGCAA
1 ACATGCAA
33265 ATAATAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (55 bp):
ACATGCAATGGAAAATGAATATCATCATCTTAATATCTAATTAACAAAACAATCA
Found at i:47221 original size:20 final size:20
Alignment explanation
Indices: 47196--47246 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
47186 ATACTAATAG
*
47196 GAGTATCGATACCAAGGGTA
1 GAGTATCAATACCAAGGGTA
47216 GAGTATCAATACCAAGGGTA
1 GAGTATCAATACCAAGGGTA
47236 GAGTATCAATA
1 GAGTATCAATA
47247 ATCCCTATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (20 bp):
GAGTATCAATACCAAGGGTA
Found at i:54828 original size:2 final size:2
Alignment explanation
Indices: 54821--54858 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
54811 AATTATTAGT
54821 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
54859 AATAAATTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:60736 original size:10 final size:10
Alignment explanation
Indices: 60721--60753 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
60711 GTAAATAATG
60721 AATTTGTTTT
1 AATTTGTTTT
60731 AATTTGTTTT
1 AATTTGTTTT
*
60741 AA-TTATTTT
1 AATTTGTTTT
60750 AATT
1 AATT
60754 ATTTTACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (10 bp):
AATTTGTTTT
Found at i:66697 original size:19 final size:20
Alignment explanation
Indices: 66673--66720 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 20
66663 ATCTACATGC
66673 TTCAAA-GATAGATTCTCTT
1 TTCAAATGATAGATTCTCTT
66692 TTCAAAGATGATAGATTCTCTT
1 TTC-AA-ATGATAGATTCTCTT
66714 TTCAAAT
1 TTCAAAT
66721 ATGAAAGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.12
20 4 0.15
21 3 0.12
22 16 0.62
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (20 bp):
TTCAAATGATAGATTCTCTT
Found at i:66707 original size:22 final size:22
Alignment explanation
Indices: 66679--66724 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
66669 ATGCTTCAAA
66679 GATAGATTCTCTTTTCAAAGAT
1 GATAGATTCTCTTTTCAAAGAT
*
66701 GATAGATTCTCTTTTCAAATAT
1 GATAGATTCTCTTTTCAAAGAT
66723 GA
1 GA
66725 AAGCTTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (22 bp):
GATAGATTCTCTTTTCAAAGAT
Found at i:67678 original size:127 final size:127
Alignment explanation
Indices: 67439--67716 Score: 459
Period size: 127 Copynumber: 2.2 Consensus size: 127
67429 GTCAATCATT
*
67439 TTCAGTCTTCACAAAAAGAGTAGTGAAGCAAGAACAAGATCAAAATTCGCTCTCCACGGAAGAGT
1 TTCAGCCTTCACAAAAAGAGTAGTGAAGCAAGAACAAGATCAAAATTCGCTCTCCACGGAAGAGT
67504 AGTGGAAAGGATTTTTCAGCAAAGTATGAAGCCTTCACGAGAAAGTAGTGGAGTAATGAAAA
66 AGTGGAAAGGATTTTTCAGCAAAGTATGAAGCCTTCACGAGAAAGTAGTGGAGTAATGAAAA
* * *
67566 TTCATCCTTCACAAAAAGAGTAGTGAAGCAAGAACAAGATTAAAATTCGCTCTCCATGGAAGAGT
1 TTCAGCCTTCACAAAAAGAGTAGTGAAGCAAGAACAAGATCAAAATTCGCTCTCCACGGAAGAGT
* * * *
67631 AGTGGAACGGATTTTTCAGCAAAGTATGAAGCCTTCATGAGAGAGTAGTGGAGTAATGTAAA
66 AGTGGAAAGGATTTTTCAGCAAAGTATGAAGCCTTCACGAGAAAGTAGTGGAGTAATGAAAA
* *
67693 TTTAGCCTTCAC-AGAAGAGTAGTG
1 TTCAGCCTTCACAAAAAGAGTAGTG
67717 GGGCAAATCA
Statistics
Matches: 140, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
126 11 0.08
127 129 0.92
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (127 bp):
TTCAGCCTTCACAAAAAGAGTAGTGAAGCAAGAACAAGATCAAAATTCGCTCTCCACGGAAGAGT
AGTGGAAAGGATTTTTCAGCAAAGTATGAAGCCTTCACGAGAAAGTAGTGGAGTAATGAAAA
Found at i:76639 original size:13 final size:14
Alignment explanation
Indices: 76621--76650 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
76611 ACACACATAA
76621 AAATGT-AAAATGC
1 AAATGTAAAAATGC
76634 AAATGTAAAAATGC
1 AAATGTAAAAATGC
76648 AAA
1 AAA
76651 ATGTGTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (14 bp):
AAATGTAAAAATGC
Found at i:77186 original size:17 final size:17
Alignment explanation
Indices: 77164--77199 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
77154 CAACATCTCT
*
77164 ATGTCATGATGATGCAA
1 ATGTCATGAGGATGCAA
77181 ATGTCATGAGGATGCAA
1 ATGTCATGAGGATGCAA
77198 AT
1 AT
77200 TCAAGAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (17 bp):
ATGTCATGAGGATGCAA
Found at i:80039 original size:37 final size:37
Alignment explanation
Indices: 79978--80511 Score: 599
Period size: 39 Copynumber: 14.2 Consensus size: 37
79968 TGAGTTTTAT
* *
79978 TTTTG-AAATATTTTTAAAAAATATATATAATATATAG
1 TTTTGAAAACATTTTT-GAAAATATATATAATATATAG
* *
80015 TTTTTG-AAACA-TTTT-AAAAAATATATAGTATATAG
1 -TTTTGAAAACATTTTTGAAAATATATATAATATATAG
80050 TTTTTG-AAACATTTTTTTGAAAATATATATAATATATAG
1 -TTTTGAAAACA--TTTTTGAAAATATATATAATATATAG
*
80089 TTTTTG-AAACATTTTTTGAAAATATATATAGTATATAG
1 -TTTTGAAAACA-TTTTTGAAAATATATATAATATATAG
80127 TTTTGAAAACATTTTTGAAAATATATATAATATATAG
1 TTTTGAAAACATTTTTGAAAATATATATAATATATAG
**
80164 TTTTGGAAAACATTTTTCGAAAACGTATATAATATATAG
1 TTTT-GAAAACATTTTT-GAAAATATATATAATATATAG
* *
80203 TTTTGAAAAACTTTTTTTTGGAAATATATATAATATATAG
1 TTTTG-AAAAC--ATTTTTGAAAATATATATAATATATAG
*
80243 TTTTGAAAAC-GTTTTGAAAATATATATATATAATATATAG
1 TTTTGAAAACATTTTTG--AA-A-ATATATATAATATATAG
*
80283 TTTAGAAAACATTTTTGAAAACATATATATAATATATAG
1 TTTTGAAAACATTTTTG-AAA-ATATATATAATATATAG
* *
80322 TTTTGAAAATATTTTTAAAAATATATATAATATATAG
1 TTTTGAAAACATTTTTGAAAATATATATAATATATAG
80359 TTTTGGAAAACATTTATTGAAAATATATATAATATATAG
1 TTTT-GAAAACATTT-TTGAAAATATATATAATATATAG
* * *
80398 TTTTGAAAAC-GTTTTGAATATATATATAATACATAG
1 TTTTGAAAACATTTTTGAAAATATATATAATATATAG
*
80434 TTTTGAAAACGTTTTTG-AAA-ATATATAATATATA-
1 TTTTGAAAACATTTTTGAAAATATATATAATATATAG
* * **
80468 ATTT-AGAATTTTTTTGAAAATATATATAATATAT-G
1 TTTTGAAAACATTTTTGAAAATATATATAATATATAG
*
80503 TTTTTAAAA
1 TTTTGAAAA
80512 AAATACAGTT
Statistics
Matches: 439, Mismatches: 35, Indels: 46
0.84 0.07 0.09
Matches are distributed among these distances:
33 9 0.02
34 6 0.01
35 58 0.13
36 41 0.09
37 66 0.15
38 76 0.17
39 121 0.28
40 52 0.12
41 10 0.02
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (37 bp):
TTTTGAAAACATTTTTGAAAATATATATAATATATAG
Found at i:80571 original size:17 final size:16
Alignment explanation
Indices: 80520--80594 Score: 53
Period size: 17 Copynumber: 4.3 Consensus size: 16
80510 AAAAATACAG
80520 TTTTATTTACATTATATTT
1 TTTTATTT--ATT-TATTT
*
80539 TTTTATTTATTCATTT
1 TTTTATTTATTTATTT
*
80555 TGTTTATTTCTTTATTT
1 T-TTTATTTATTTATTT
*
80572 TAATTCTATTT-TTTCTTT
1 T--TT-TATTTATTTATTT
80590 TTTTA
1 TTTTA
80595 AGGTTCAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
15 2 0.04
16 7 0.15
17 17 0.35
18 9 0.19
19 13 0.27
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.73
Consensus pattern (16 bp):
TTTTATTTATTTATTT
Found at i:80857 original size:183 final size:183
Alignment explanation
Indices: 80549--80915 Score: 725
Period size: 183 Copynumber: 2.0 Consensus size: 183
80539 TTTTATTTAT
80549 TCATTTTGTTTATTTCTTTATTTTAATTCTATTTTTTCTTTTTTTAAGGTTCAATAAGTACGGGT
1 TCATTTTGTTTATTTCTTTATTTTAATTCTATTTTTTCTTTTTTTAAGGTTCAATAAGTACGGGT
*
80614 CCAGCAGAAGTCCAATCGGGAGAAGAGACTGACCCAACCCTAATCTGATTAGGATTTAACGTTTA
66 CCAACAGAAGTCCAATCGGGAGAAGAGACTGACCCAACCCTAATCTGATTAGGATTTAACGTTTA
80679 TCTACCGTGCCGCACAGAAAGGAGCTATTTGGTGCATGTGAACCTTGCTGTCG
131 TCTACCGTGCCGCACAGAAAGGAGCTATTTGGTGCATGTGAACCTTGCTGTCG
80732 TCATTTTGTTTATTTCTTTATTTTAATTCTATTTTTTCTTTTTTTAAGGTTCAATAAGTACGGGT
1 TCATTTTGTTTATTTCTTTATTTTAATTCTATTTTTTCTTTTTTTAAGGTTCAATAAGTACGGGT
80797 CCAACAGAAGTCCAATCGGGAGAAGAGACTGACCCAACCCTAATCTGATTAGGATTTAACGTTTA
66 CCAACAGAAGTCCAATCGGGAGAAGAGACTGACCCAACCCTAATCTGATTAGGATTTAACGTTTA
80862 TCTACCGTGCCGCACAGAAAGGAGCTATTTGGTGCATGTGAACCTTGCTGTCG
131 TCTACCGTGCCGCACAGAAAGGAGCTATTTGGTGCATGTGAACCTTGCTGTCG
80915 T
1 T
80916 GGCTGCTTGG
Statistics
Matches: 183, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
183 183 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (183 bp):
TCATTTTGTTTATTTCTTTATTTTAATTCTATTTTTTCTTTTTTTAAGGTTCAATAAGTACGGGT
CCAACAGAAGTCCAATCGGGAGAAGAGACTGACCCAACCCTAATCTGATTAGGATTTAACGTTTA
TCTACCGTGCCGCACAGAAAGGAGCTATTTGGTGCATGTGAACCTTGCTGTCG
Found at i:81631 original size:2 final size:2
Alignment explanation
Indices: 81624--81654 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
81614 TCAGGTAGAT
81624 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
81655 TTATTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87406 original size:32 final size:31
Alignment explanation
Indices: 87352--87413 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
87342 TTGTTGACGT
*
87352 GACATATGCCACATTACAAAAGTAATGATGC
1 GACATATGCCACAATACAAAAGTAATGATGC
* * *
87383 GACATGTGTCACAATACACAAAGTGATGATG
1 GACATATGCCACAATACA-AAAGTAATGATG
87414 TAATATATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (31 bp):
GACATATGCCACAATACAAAAGTAATGATGC
Found at i:87476 original size:35 final size:32
Alignment explanation
Indices: 87425--87511 Score: 156
Period size: 32 Copynumber: 2.7 Consensus size: 32
87415 AATATATGTC
* *
87425 ACATCATCTAAAATGATGATGTGTAATGCGTT
1 ACATCATCCAATATGATGATGTGTAATGCGTT
87457 ACATCATCCAATATGATGATGTGTAATGCGTT
1 ACATCATCCAATATGATGATGTGTAATGCGTT
87489 ACATCATCCAATATGATGATGTG
1 ACATCATCCAATATGATGATGTG
87512 CATATGTTAC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (32 bp):
ACATCATCCAATATGATGATGTGTAATGCGTT
Found at i:90299 original size:20 final size:20
Alignment explanation
Indices: 90274--90316 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
90264 TCTAAGAGCT
90274 CATTTAGGACCATATAGATG
1 CATTTAGGACCATATAGATG
* *
90294 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
90314 CAT
1 CAT
90317 GTGGTGGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:98035 original size:12 final size:13
Alignment explanation
Indices: 98008--98038 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
97998 TTCTTATCTG
98008 CTTTACTTTTTCA
1 CTTTACTTTTTCA
98021 CTTTACTTTTT-A
1 CTTTACTTTTTCA
98033 CTTTAC
1 CTTTAC
98039 CTTCTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.16, C:0.23, G:0.00, T:0.61
Consensus pattern (13 bp):
CTTTACTTTTTCA
Found at i:100688 original size:20 final size:20
Alignment explanation
Indices: 100663--100705 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
100653 TCTAAGAGCT
100663 CATTTAGGACCATATAGATG
1 CATTTAGGACCATATAGATG
* *
100683 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
100703 CAT
1 CAT
100706 GTGGTGGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:102204 original size:23 final size:23
Alignment explanation
Indices: 102177--102241 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
102167 CACAATTTAA
102177 TTTGCCACGACATTTCCATCTGT
1 TTTGCCACGACATTTCCATCTGT
*
102200 TTTGCCACGACATTTACATCTGT
1 TTTGCCACGACATTTCCATCTGT
*
102223 TTTGCCACGACATATCCAT
1 TTTGCCACGACATTTCCAT
102242 TTGCTACCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.37
Consensus pattern (23 bp):
TTTGCCACGACATTTCCATCTGT
Found at i:105458 original size:45 final size:45
Alignment explanation
Indices: 105402--105509 Score: 191
Period size: 45 Copynumber: 2.4 Consensus size: 45
105392 ATCCGTATAC
105402 TTAATTTCTATAGAAGCCACTTTGA-CTCAATACCCGAATACTTGA
1 TTAATTTCTATAGAAGCCACTTT-ATCTCAATACCCGAATACTTGA
*
105447 TTAATTTCTATAGAAGCCACTTTATCTCGATACCCGAATACTTGA
1 TTAATTTCTATAGAAGCCACTTTATCTCAATACCCGAATACTTGA
105492 TTAATTTCTATAGAAGCC
1 TTAATTTCTATAGAAGCC
105510 TAAGAGAAAG
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
44 1 0.02
45 60 0.98
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (45 bp):
TTAATTTCTATAGAAGCCACTTTATCTCAATACCCGAATACTTGA
Found at i:108808 original size:18 final size:17
Alignment explanation
Indices: 108754--108802 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
108744 TTGGACCCTT
* *
108754 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
108772 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
108790 AGTGCATTCGATG
1 AGTGCA-TCGATG
108803 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:108972 original size:65 final size:64
Alignment explanation
Indices: 108774--108983 Score: 230
Period size: 65 Copynumber: 3.2 Consensus size: 64
108764 TGCACTAAGA
* * ** *
108774 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAAT-AGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAG-GTGCATCGATGCATGGTTG
* *
108838 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAATCCTCA-GTGCATCGGTGCATGGT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAATATAAT--TCAGGTGCATCGATGCATGGT
**
108901 AA
63 TG
* *
108903 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCA-GGTGCATCGATGCATGG-TT
108967 G
64 G
*
108968 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
108984 CTCTGAAAAA
Statistics
Matches: 121, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 50 0.41
65 63 0.52
67 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAGGTGCATCGATGCATGGTTG
Found at i:110074 original size:21 final size:21
Alignment explanation
Indices: 110037--110080 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
110027 GAGCTGGAGG
*
110037 AGGAGGAGCATGAGAGGAGCT
1 AGGAGGAGCATGAGAGGAACT
*
110058 AGGAGGAGC-TCGTGAGGAACT
1 AGGAGGAGCAT-GAGAGGAACT
110079 AG
1 AG
110081 CTCCCGGAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.32, C:0.11, G:0.45, T:0.11
Consensus pattern (21 bp):
AGGAGGAGCATGAGAGGAACT
Found at i:111121 original size:13 final size:13
Alignment explanation
Indices: 111093--111131 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
111083 TGGGCAATGT
*
111093 TTTGAAAA-ACTA
1 TTTGAAAATAATA
111105 TTTGAAAATAATA
1 TTTGAAAATAATA
*
111118 TTTGTAAATAATA
1 TTTGAAAATAATA
111131 T
1 T
111132 GTATAGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (13 bp):
TTTGAAAATAATA
Found at i:116021 original size:6 final size:6
Alignment explanation
Indices: 116010--116049 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
116000 ACGTATTACT
116010 ACGACC ACGACC ACGACC ACGACC ACGACC -CGACC -CGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
116050 CGAGACGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.29
6 24 0.71
ACGTcount: A:0.30, C:0.53, G:0.17, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:116586 original size:6 final size:5
Alignment explanation
Indices: 116549--116582 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
116539 GCCGTCCGTC
*
116549 TCGGG TCGAG TCGGG TCGGG TCGGG TCGTGG TCG
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCG-GG TCG
116583 TGGTAATACG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.03, C:0.21, G:0.53, T:0.24
Consensus pattern (5 bp):
TCGGG
Found at i:116769 original size:41 final size:41
Alignment explanation
Indices: 116724--116989 Score: 444
Period size: 41 Copynumber: 6.5 Consensus size: 41
116714 ATAGTCCAAG
*
116724 TTCGCATTGCGATAGTCGACTATCGCATTACGATTTACATA
1 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
* *
116765 TTCGCATTGCGATAGTCGACTATCGCATTACAATTTACATA
1 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
116806 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
1 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
116847 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
1 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
*
116888 TTCGCATTGCGATAGTCGATTATCGCATTGCGATTTACATA
1 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
* *
116929 TTCGCATTGCGATAGTCGACTATCGCATTGCGATAGTCCA-A
1 TTCGCATTGCGATAGTCGACTATCGCATTGCGAT-TTACATA
*
116970 GTTCGTATTGCGATAGTCGA
1 -TTCGCATTGCGATAGTCGA
116990 AGTTCGCGTT
Statistics
Matches: 215, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
41 194 0.90
42 21 0.10
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (41 bp):
TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
Found at i:117504 original size:18 final size:17
Alignment explanation
Indices: 117450--117498 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
117440 TTGGACCCTT
* *
117450 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
117468 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
117486 AGTGCATTCGATG
1 AGTGCA-TCGATG
117499 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:117603 original size:65 final size:65
Alignment explanation
Indices: 117450--117629 Score: 217
Period size: 65 Copynumber: 2.8 Consensus size: 65
117440 TTGGACCCTT
*
117450 AGTGCATCGGTGCACT-A-AGAGTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCC
1 AGTGCATCGGTGCA-TGATA-AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCC
*
117512 AG
64 AC
* * * *
117514 AGTGCATCGATGCATGGCT-GGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCC
1 AGTGCATCGGTGCAT-GATAAGTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCC
*
117577 TC
64 AC
*
117579 AGTGCATCGGTGCATGATAAGTGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGCATCGGTGCATGATAAGTGCATCGATGCATCAAATGCATTCGATGTT
117630 CAATTTAATT
Statistics
Matches: 99, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
63 1 0.01
64 43 0.43
65 52 0.53
66 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (65 bp):
AGTGCATCGGTGCATGATAAGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCAC
Found at i:117627 original size:18 final size:19
Alignment explanation
Indices: 117579--117627 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
117569 TAAAATCCTC
*
117579 AGTGCATCGGTGCATGATA
1 AGTGCATCGATGCATGATA
117598 AGTGCATCGATGCATGA-A
1 AGTGCATCGATGCATGATA
117616 A-TGCATTCGATG
1 AGTGCA-TCGATG
117628 TTCAATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 4 0.14
18 8 0.29
19 16 0.57
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (19 bp):
AGTGCATCGATGCATGATA
Found at i:117677 original size:65 final size:64
Alignment explanation
Indices: 117470--117679 Score: 207
Period size: 65 Copynumber: 3.2 Consensus size: 64
117460 TGCACTAAGA
* * *
117470 GTGCATCGATGCATCAAGTGCATTCGATGTTTCA-AAATAGC-CAGAGTGCATCGATGCATGG-C
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGGAT
117532 TG
63 TG
* *
117534 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCAT-GATA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGATT
*
117598 A
64 G
* **
117599 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGGAT
117662 TG
63 TG
* *
117664 GTGTATCGGTGCATCA
1 GTGCATCGATGCATCA
117680 CTCTGAAAAA
Statistics
Matches: 122, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 47 0.39
65 64 0.52
66 4 0.03
67 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGATTG
Found at i:120090 original size:23 final size:24
Alignment explanation
Indices: 120037--120092 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
120027 ATAAGGAACG
120037 TGTCACAAGAGCAAAGAAAAAGCA
1 TGTCACAAGAGCAAAGAAAAAGCA
* * * *
120061 TGCCACAAGAGTAGAGAAAAA-CT
1 TGTCACAAGAGCAAAGAAAAAGCA
120084 TGTCACAAG
1 TGTCACAAG
120093 GATAAAGATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.48, C:0.18, G:0.21, T:0.12
Consensus pattern (24 bp):
TGTCACAAGAGCAAAGAAAAAGCA
Found at i:120603 original size:11 final size:10
Alignment explanation
Indices: 120589--120631 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
120579 TATTTCTTTC
120589 TTATTTCATTA
1 TTATTT-ATTA
120600 TTA-TTATTA
1 TTATTTATTA
120609 TTTATTTATTA
1 -TTATTTATTA
*
120620 TTATTTTTTA
1 TTATTTATTA
120630 TT
1 TT
120632 TTTTGCAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 4 0.14
10 16 0.55
11 9 0.31
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (10 bp):
TTATTTATTA
Found at i:120611 original size:17 final size:17
Alignment explanation
Indices: 120597--120632 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
120587 TCTTATTTCA
120597 TTATTATTATTATTTAT
1 TTATTATTATTATTTAT
*
120614 TTATTATTATTTTTTAT
1 TTATTATTATTATTTAT
120631 TT
1 TT
120633 TTTGCAAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TTATTATTATTATTTAT
Found at i:120617 original size:14 final size:13
Alignment explanation
Indices: 120600--120631 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
120590 TATTTCATTA
120600 TTATTATTATTTAT
1 TTATTATTATTT-T
120614 TTATTATTATTTT
1 TTATTATTATTTT
120627 TTATT
1 TTATT
120632 TTTTGCAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTATTATTATTTT
Found at i:126339 original size:320 final size:320
Alignment explanation
Indices: 125745--126393 Score: 1253
Period size: 320 Copynumber: 2.0 Consensus size: 320
125735 TGATTCACCA
*
125745 GGAAGCTTTAGCAATAAAAATCAAGGGAAAGATATTACGAGATATAGAAAAGCTTAAGATGTTAC
1 GGAAGTTTTAGCAATAAAAATCAAGGGAAAGATATTACGAGATATAGAAAAGCTTAAGATGTTAC
125810 TCAAGAAATAGAAAAACTTCAAAATGTGTGAATAAACTCCCCAGAAAGAGGCACGTGTAAGAAAA
66 TCAAGAAATAGAAAAACTTCAAAATGTGTGAATAAACTCCCCAGAAAGAGGCACGTGTAAGAAAA
*
125875 CCCAATAAGAAATCAGCAAAATCTTACAAAACCCAACTCGAGTCGAGAAGGTTCAATGCCTTGAA
131 CCCAATAAGAAATCAGCAAAATCTTACAAAACCCAACTCCAGTCGAGAAGGTTCAATGCCTTGAA
125940 TATTCAGAGTAATAATCGTAAGTTATGGCTTAAACTACGCCACTATAACCACTATAACCAGCAAC
196 TATTCAGAGTAATAATCGTAAGTTATGGCTTAAACTACGCCACTATAACCACTATAACCAGCAAC
126005 CCTTAGGGGTTTCTTAGGTCATTACTGTAACATCCCAAAATCAGGGCTAGTGACTAAAAT
261 CCTTAGGGGTTTCTTAGGTCATTACTGTAACATCCCAAAATCAGGGCTAGTGACTAAAAT
*
126065 GGAAGTTTTAGTAATAAAAATCAAGGGAAAGATATTACGAGATATAGAAAAGCTTAAGATGTTAC
1 GGAAGTTTTAGCAATAAAAATCAAGGGAAAGATATTACGAGATATAGAAAAGCTTAAGATGTTAC
*
126130 TCTAGAAATAGAAAAACTTCAAAATGTGTGAATAAACTCCCCAGAAAGAGGCACGTGTAAGAAAA
66 TCAAGAAATAGAAAAACTTCAAAATGTGTGAATAAACTCCCCAGAAAGAGGCACGTGTAAGAAAA
126195 CCCAATAAGAAATCAGCAAAATCTTACAAAACCCAACTCCAGTCGAGAAGGTTCAATGCCTTGAA
131 CCCAATAAGAAATCAGCAAAATCTTACAAAACCCAACTCCAGTCGAGAAGGTTCAATGCCTTGAA
126260 TATTCAGAGTAATAATCGTAAGTTATGGCTTAAACTACGCCACTATAACCACTATAACCAGCAAC
196 TATTCAGAGTAATAATCGTAAGTTATGGCTTAAACTACGCCACTATAACCACTATAACCAGCAAC
126325 CCTTAGGGGTTTCTTAGGTCATTACTGTAACATCCCAAAATCAGGGCTAGTGACTAAAAT
261 CCTTAGGGGTTTCTTAGGTCATTACTGTAACATCCCAAAATCAGGGCTAGTGACTAAAAT
*
126385 GAAAGTTTT
1 GGAAGTTTT
126394 GAAACTTTGA
Statistics
Matches: 324, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
320 324 1.00
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (320 bp):
GGAAGTTTTAGCAATAAAAATCAAGGGAAAGATATTACGAGATATAGAAAAGCTTAAGATGTTAC
TCAAGAAATAGAAAAACTTCAAAATGTGTGAATAAACTCCCCAGAAAGAGGCACGTGTAAGAAAA
CCCAATAAGAAATCAGCAAAATCTTACAAAACCCAACTCCAGTCGAGAAGGTTCAATGCCTTGAA
TATTCAGAGTAATAATCGTAAGTTATGGCTTAAACTACGCCACTATAACCACTATAACCAGCAAC
CCTTAGGGGTTTCTTAGGTCATTACTGTAACATCCCAAAATCAGGGCTAGTGACTAAAAT
Found at i:134886 original size:25 final size:25
Alignment explanation
Indices: 134856--134911 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
134846 TTAATGGTTG
134856 ACTTTACCCTCTTATATTATATTTT
1 ACTTTACCCTCTTATATTATATTTT
134881 ACTTTACCCTCTTATATTATATTTT
1 ACTTTACCCTCTTATATTATATTTT
134906 ACTTTA
1 ACTTTA
134912 TTAGATAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (25 bp):
ACTTTACCCTCTTATATTATATTTT
Found at i:136059 original size:2 final size:2
Alignment explanation
Indices: 136052--136086 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
136042 AAATTCGGAA
136052 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
136087 GGACTAAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:137322 original size:31 final size:32
Alignment explanation
Indices: 137284--137355 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
137274 CTGAAAAAAC
*
137284 AAAATAAATAA-AATAAAT-AAAACGAATAATA
1 AAAATAAATAATAA-AAATAAAAACAAATAATA
137315 AAAATAAA-AATAAAAATAAAAACAAATAATA
1 AAAATAAATAATAAAAATAAAAACAAATAATA
*
137346 AAAACAAATA
1 AAAATAAATA
137356 TATATTATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
30 6 0.17
31 29 0.81
32 1 0.03
ACGTcount: A:0.78, C:0.04, G:0.01, T:0.17
Consensus pattern (32 bp):
AAAATAAATAATAAAAATAAAAACAAATAATA
Found at i:137330 original size:13 final size:12
Alignment explanation
Indices: 137314--137353 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
137304 AACGAATAAT
*
137314 AAAAATAAAAAT
1 AAAAATAAAAAC
137326 AAAAATAAAAAC
1 AAAAATAAAAAC
137338 AAATAATAAAAAC
1 AAA-AATAAAAAC
137351 AAA
1 AAA
137354 TATATATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 14 0.54
13 12 0.46
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAAATAAAAAC
Found at i:137332 original size:18 final size:18
Alignment explanation
Indices: 137284--137349 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
137274 CTGAAAAAAC
137284 AAAATAAATAA-AATAAATA
1 AAAATAAA-AATAA-AAATA
** *
137303 AAACGAATAATAAAAATA
1 AAAATAAAAATAAAAATA
*
137321 AAAATAAAAATAAAAACA
1 AAAATAAAAATAAAAATA
137339 AATAATAAAAA
1 AA-AATAAAAA
137350 CAAATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 23 0.61
19 15 0.39
ACGTcount: A:0.79, C:0.03, G:0.02, T:0.17
Consensus pattern (18 bp):
AAAATAAAAATAAAAATA
Found at i:137354 original size:13 final size:13
Alignment explanation
Indices: 137317--137355 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
137307 GAATAATAAA
*
137317 AATAAAAATAAA-
1 AATAAAAACAAAT
137329 AATAAAAACAAAT
1 AATAAAAACAAAT
137342 AATAAAAACAAAT
1 AATAAAAACAAAT
137355 A
1 A
137356 TATATTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.15
Consensus pattern (13 bp):
AATAAAAACAAAT
Found at i:137554 original size:38 final size:36
Alignment explanation
Indices: 137408--137633 Score: 176
Period size: 38 Copynumber: 6.2 Consensus size: 36
137398 TTTTTCAAAC
* * **
137408 TATATAACATATATATTTTAAAAATGTTTT---TTT
1 TATATAATATATATATTTTCAAAATGTTTTAAAAAT
* * *
137441 TAAAAAAT-TATATATTTTCAAAAATACTTTTAAAAAT
1 TATATAATATATATATTTTC-AAAAT-GTTTTAAAAAT
* *
137478 TATAT-AT-TATATGTTTTCAAAATGTTTTAAAAAC
1 TATATAATATATATATTTTCAAAATGTTTTAAAAAT
*
137512 TATATAATATATAATATTTTCAAACATGTTTTCAAAAT
1 TATATAATATAT-ATATTTTCAAA-ATGTTTTAAAAAT
* * * *
137550 TATATATTATATATATATTTAAAAATGATTTCAAAAAC
1 TATATAATATATATAT-TTTCAAAATG-TTTTAAAAAT
* *
137588 TATATAATATATTTATTTTCGAAAATTGATTTCTGAAAAT
1 TATATAATATATATATTTTC-AAAA-TG-TTT-TAAAAAT
137628 TATATA
1 TATATA
137634 CCATATTTTT
Statistics
Matches: 153, Mismatches: 26, Indels: 21
0.76 0.13 0.10
Matches are distributed among these distances:
32 10 0.07
33 10 0.07
34 18 0.12
35 7 0.05
36 15 0.10
37 24 0.16
38 53 0.35
39 6 0.04
40 10 0.07
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (36 bp):
TATATAATATATATATTTTCAAAATGTTTTAAAAAT
Found at i:137640 original size:40 final size:37
Alignment explanation
Indices: 137453--137676 Score: 138
Period size: 38 Copynumber: 6.0 Consensus size: 37
137443 AAAAATTATA
* *
137453 TATTTTCAAAAAT-ACTTTTAAAAATTATAT-AT-TATA
1 TATTTT-AAAAATGA-TTTCAAAAATTATATAATATATT
* * * * *
137489 TGTTTTCAAAATG-TTTTAAAAACTATATAATATATAA
1 TATTTTAAAAATGATTTCAAAAATTATATAATATAT-T
* * * *
137526 TATTTTCAAACATGTTTTC-AAAATTATATATTATATA
1 TATTTT-AAAAATGATTTCAAAAATTATATAATATATT
*
137563 TATATTTAAAAATGATTTCAAAAACTATATAATATATT
1 TAT-TTTAAAAATGATTTCAAAAATTATATAATATATT
* * **
137601 TATTTTCGAAAATTGATTTCTGAAAATTATATACCATATT
1 TATTTT--AAAAATGATTTC-AAAAATTATATAATATATT
* * * *
137641 TTTTTTAAAACCT--TTTCAAAGATTATATTATATATT
1 TATTTTAAAA-ATGATTTCAAAAATTATATAATATATT
137677 ATATATATAT
Statistics
Matches: 150, Mismatches: 26, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
34 14 0.09
35 7 0.05
36 22 0.15
37 27 0.18
38 45 0.30
39 15 0.10
40 20 0.13
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (37 bp):
TATTTTAAAAATGATTTCAAAAATTATATAATATATT
Found at i:137658 original size:76 final size:73
Alignment explanation
Indices: 137453--137676 Score: 170
Period size: 76 Copynumber: 3.0 Consensus size: 73
137443 AAAAATTATA
* * * * * * *
137453 TATTTTCAAAAATACTTTTAAAAATTATATA--TTATATGT-TTTCAAAATGTTTTAAAAACTAT
1 TATTTTCAAACAT-GTTTTCAAAATTATATACCATATATATATTTAAAAAT-TTTCAAAAACTAT
*
137515 ATAATATATAA
64 ATAATATAT-T
**
137526 TATTTTCAAACATGTTTTCAAAATTATATATTATATATATATTTAAAAATGATTTCAAAAACTAT
1 TATTTTCAAACATGTTTTCAAAATTATATACCATATATATATTTAAAAAT--TTTCAAAAACTAT
137591 ATAATATATT
64 ATAATATATT
* * * * * *
137601 TATTTTCGAAA-ATTGATTTCTGAAAATTATATACCATAT-TTTTTTTAAAACCTTTTCAAAGAT
1 TATTTTC-AAACA-TG-TTT-TCAAAATTATATACCATATATATATTTAAAA-ATTTTCAAAAAC
*
137664 TATATTATATATT
61 TATATAATATATT
137677 ATATATATAT
Statistics
Matches: 124, Mismatches: 18, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
72 15 0.12
73 12 0.10
74 6 0.05
75 16 0.13
76 46 0.37
77 12 0.10
78 17 0.14
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (73 bp):
TATTTTCAAACATGTTTTCAAAATTATATACCATATATATATTTAAAAATTTTCAAAAACTATAT
AATATATT
Done.