Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 71 of 163
Found at i:18758908 original size:24 final size:24
Alignment explanation
Indices: 18758876--18758990 Score: 78
Period size: 24 Copynumber: 5.4 Consensus size: 24
18758866 CTTATGAGCA
*
18758876 AGCGCCGCTAAAGGTCAGAGCAAT
1 AGCGGCGCTAAAGGTCAGAGCAAT
* * *
18758900 AGCGGCGCTTATGATC--A--AAT
1 AGCGGCGCTAAAGGTCAGAGCAAT
18758920 -GC--CGCTAAAGGTCAGAGCAAT
1 AGCGGCGCTAAAGGTCAGAGCAAT
* *
18758941 AGCGGCGCTTATGGTCA-AGC---
1 AGCGGCGCTAAAGGTCAGAGCAAT
18758961 -GC--CGCTAAAGGTCAGAGCAAT
1 AGCGGCGCTAAAGGTCAGAGCAAT
18758982 AGCGGCGCT
1 AGCGGCGCT
18758991 TATGGAAAAG
Statistics
Matches: 66, Mismatches: 11, Indels: 28
0.63 0.10 0.27
Matches are distributed among these distances:
17 18 0.27
18 3 0.05
19 5 0.08
20 3 0.05
21 3 0.05
22 5 0.08
23 3 0.05
24 26 0.39
ACGTcount: A:0.29, C:0.24, G:0.30, T:0.17
Consensus pattern (24 bp):
AGCGGCGCTAAAGGTCAGAGCAAT
Found at i:18762533 original size:129 final size:129
Alignment explanation
Indices: 18762299--18762684 Score: 641
Period size: 129 Copynumber: 3.0 Consensus size: 129
18762289 TTTATTAATG
* * * * *
18762299 TTAGCGGCGTTTGTG-GAAAAAGCGCCGCTAAAGACCATGTTCTTTAGTGGCGTTTTTGG-GAAA
1 TTAGTGGCGTTTGTGTG-AAAAGCGCCGCTGAAGACCATGTTCTTTAGCGGCGTTTGTGGAAAAA
*
18762362 GCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAGAAGCAATGTTCT
65 GCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAAGCAATGTTCT
18762427 TTAGTGGCGTTTGTGTGAAAAGCGCCGCTGAAGACCATGTTCTTTAGCGGCGTTTGTGGAAAAAG
1 TTAGTGGCGTTTGTGTGAAAAGCGCCGCTGAAGACCATGTTCTTTAGCGGCGTTTGTGGAAAAAG
18762492 CGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAAGCAATGTTCT
66 CGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAAGCAATGTTCT
18762556 TTAGTGGCGTTTGTGTGAAAAGCGCCGCTGAAGACCATGTTCTTTAGCGGCGTTTGTGGAAAAAG
1 TTAGTGGCGTTTGTGTGAAAAGCGCCGCTGAAGACCATGTTCTTTAGCGGCGTTTGTGGAAAAAG
* * * * * *
18762621 CGCCGCTGAAGACCATGTTCTTTAGCGGCGTTTTTGTGAAAAGCGCCGCTAAAAACCATGTTCT
66 CGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAAGCAATGTTCT
18762685 ATAGCAGCGT
Statistics
Matches: 244, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
128 53 0.22
129 191 0.78
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (129 bp):
TTAGTGGCGTTTGTGTGAAAAGCGCCGCTGAAGACCATGTTCTTTAGCGGCGTTTGTGGAAAAAG
CGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAAGCAATGTTCT
Found at i:18762698 original size:43 final size:42
Alignment explanation
Indices: 18762299--18762696 Score: 548
Period size: 43 Copynumber: 9.3 Consensus size: 42
18762289 TTTATTAATG
18762299 TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGACCATGTTCT
* * *
18762342 TTAGTGGCGTTTTTGGGAAAGCGCCGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGACCATGTTCT
* *
18762384 TTAGCGGCGTTTGTGGGGAAAGCGCCGCTAGAAG-CAATGTTCT
1 TTAGCGGCGTTTGT-GGAAAAGCGCCGCTA-AAGACCATGTTCT
* *
18762427 TTAGTGGCGTTTGTGTGAAAAGCGCCGCTGAAGACCATGTTCT
1 TTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGACCATGTTCT
18762470 TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGACCATGTTCT
* *
18762513 TTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAA-AGCAATGTTCT
1 TTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGA-CCATGTTCT
* *
18762556 TTAGTGGCGTTTGTGTGAAAAGCGCCGCTGAAGACCATGTTCT
1 TTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGACCATGTTCT
*
18762599 TTAGCGGCGTTTGTGGAAAAAGCGCCGCTGAAGACCATGTTCT
1 TTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGACCATGTTCT
* *
18762642 TTAGCGGCGTTTTTGTGAAAAGCGCCGCTAAAAACCATGTTCT
1 TTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGACCATGTTCT
* *
18762685 ATAGCAGCGTTT
1 TTAGCGGCGTTT
18762697 TTTCTAATAA
Statistics
Matches: 320, Mismatches: 24, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
42 45 0.14
43 268 0.84
44 7 0.02
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (42 bp):
TTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGACCATGTTCT
Found at i:18763283 original size:168 final size:168
Alignment explanation
Indices: 18763004--18763339 Score: 582
Period size: 168 Copynumber: 2.0 Consensus size: 168
18762994 AACAGCTGGA
*
18763004 ACAGTAACAATGAAAATGACGCCCTCTTTAGTGAGATTATATGAACAAATGCCCGAACCTAAATA
1 ACAGTAACAATGAAAATGACGCCCTCTTTAGTGAGATTATATGAACAAATCCCCGAACCTAAATA
* * * *
18763069 TGTTATTGCTATGGGTGCGTGTACAATTGCAGAAGGGTTTTTCAGTACTGATTCTTATAGTACTG
66 TGTTATTGCTATAGGTGCGTGTACAATTACAGAAGGGATGTTCAGTACTGATTCTTATAGTACTG
* *
18763134 TTCGGGGGGTCGATAAGCTAATTCCCGTGGATGTCTAT
131 TTCGGGGGATCGATAAGCTAATTCCCGTAGATGTCTAT
*
18763172 ACAGTAACAATGAAAATGACGCCCTTTTTAGTGAGATTATATGAACAAATCCCCGAACCTAAATA
1 ACAGTAACAATGAAAATGACGCCCTCTTTAGTGAGATTATATGAACAAATCCCCGAACCTAAATA
*
18763237 TGTTATTGCTATAGGTGCGTGTACAATTACAGGAGGGATGTTCAGTACTGATTCTTATAGTACTG
66 TGTTATTGCTATAGGTGCGTGTACAATTACAGAAGGGATGTTCAGTACTGATTCTTATAGTACTG
*
18763302 TTCGGGGGATGGATAAGCTAATTCCCGTAGATGTCTAT
131 TTCGGGGGATCGATAAGCTAATTCCCGTAGATGTCTAT
18763340 TTGTCGGGCT
Statistics
Matches: 158, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
168 158 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (168 bp):
ACAGTAACAATGAAAATGACGCCCTCTTTAGTGAGATTATATGAACAAATCCCCGAACCTAAATA
TGTTATTGCTATAGGTGCGTGTACAATTACAGAAGGGATGTTCAGTACTGATTCTTATAGTACTG
TTCGGGGGATCGATAAGCTAATTCCCGTAGATGTCTAT
Found at i:18766658 original size:8 final size:8
Alignment explanation
Indices: 18766645--18766764 Score: 88
Period size: 8 Copynumber: 15.2 Consensus size: 8
18766635 AACTAACAAT
18766645 TTTAATTA
1 TTTAATTA
18766653 TTTAATTA
1 TTTAATTA
*
18766661 TTTAAATA
1 TTTAATTA
18766669 TTTAATTA
1 TTTAATTA
* *
18766677 -CTAATAACA
1 TTTAAT--TA
18766686 TTTAATTA
1 TTTAATTA
18766694 ---AA-TA
1 TTTAATTA
*
18766698 TTTAAATA
1 TTTAATTA
*
18766706 TTTAATAA
1 TTTAATTA
18766714 TTTAATTA
1 TTTAATTA
* **
18766722 TTAAAACAA
1 TT-TAATTA
*
18766731 TTTAAATA
1 TTTAATTA
*
18766739 TTTAAATA
1 TTTAATTA
18766747 TTTAATTA
1 TTTAATTA
18766755 TTTAATTA
1 TTTAATTA
18766763 TT
1 TT
18766765 AAAAATAACC
Statistics
Matches: 88, Mismatches: 16, Indels: 16
0.73 0.13 0.13
Matches are distributed among these distances:
4 2 0.02
5 2 0.02
7 6 0.07
8 68 0.77
9 6 0.07
10 4 0.05
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTAATTA
Found at i:18766748 original size:41 final size:41
Alignment explanation
Indices: 18766639--18766768 Score: 154
Period size: 41 Copynumber: 3.0 Consensus size: 41
18766629 AATTAAAACT
* * *
18766639 AACAATTTTAATTATTTAATTATTTAA-ATATTTAATTACTAA
1 AACAA-TTTAAATATTTAAATATTTAATA-ATTTAATTATTAA
*
18766681 TAACATTTAATTAAATATTTAAATATTTAATAATTTAATTATTAA
1 -AACA---ATTTAAATATTTAAATATTTAATAATTTAATTATTAA
*
18766726 AACAATTTAAATATTTAAATATTTAATTATTTAATTATTAA
1 AACAATTTAAATATTTAAATATTTAATAATTTAATTATTAA
18766767 AA
1 AA
18766769 ATAACCCAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
41 37 0.48
43 4 0.05
44 4 0.05
45 30 0.39
46 2 0.03
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (41 bp):
AACAATTTAAATATTTAAATATTTAATAATTTAATTATTAA
Found at i:18766783 original size:112 final size:107
Alignment explanation
Indices: 18766696--18767061 Score: 500
Period size: 100 Copynumber: 3.5 Consensus size: 107
18766686 TTTAATTAAA
** *
18766696 TATTTAA--ATATTTAATAATTTAATTATTAAAACAATTTAAATATTTAAATATTTAATTATTTA
1 TATTTAATTATATTTAATAATTTAATTATTAAAACAATCCAAATATTTAAATATTTAATTAATTA
18766759 ATTATTAAAAATAACCCAAATATTTAATTAAAAATATTTTAT
66 ATTATTAAAAATAACCCAAATATTTAATTAAAAATATTTTAT
* * *
18766801 TATTTAGTTATATATAATTAAATCTTTAATAATTAAAAACAATCCAAATATTTAAATATTTAATT
1 TATTTAATTATATTTAA-T-AA--TTTAATTATT-AAAACAATCCAAATATTTAAATATTTAATT
* *
18766866 AATTATTTATTAAAAATAACCCAAATATTTAATTATAAATATTTTAT
61 AATTAATTATTAAAAATAACCCAAATATTTAATTAAAAATATTTTAT
*
18766913 TAGTTAATTATA-TT--TAA--TAATTA--AAAACAATCCAAATATTTAAATATTTAATTAATTA
1 TATTTAATTATATTTAATAATTTAATTATTAAAACAATCCAAATATTTAAATATTTAATTAATTA
* * *
18766971 TTTATTAAAAACAACACAAATATTTAATTAAAAATATTTTAT
66 ATTATTAAAAATAACCCAAATATTTAATTAAAAATATTTTAT
*
18767013 TATTTAATTACATTTAAT-ATTTAATTATTAAAACAATCCAAATATTTAA
1 TATTTAATTATATTTAATAATTTAATTATTAAAACAATCCAAATATTTAA
18767062 TTAATTATTT
Statistics
Matches: 230, Mismatches: 17, Indels: 27
0.84 0.06 0.10
Matches are distributed among these distances:
100 84 0.37
101 2 0.01
102 1 0.00
103 6 0.03
104 6 0.03
105 6 0.03
106 20 0.09
107 9 0.04
108 2 0.01
109 2 0.01
111 10 0.04
112 82 0.36
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.45
Consensus pattern (107 bp):
TATTTAATTATATTTAATAATTTAATTATTAAAACAATCCAAATATTTAAATATTTAATTAATTA
ATTATTAAAAATAACCCAAATATTTAATTAAAAATATTTTAT
Found at i:18766880 original size:42 final size:42
Alignment explanation
Indices: 18766832--18766997 Score: 145
Period size: 42 Copynumber: 3.6 Consensus size: 42
18766822 ATCTTTAATA
18766832 ATTAAAAACAATCCAAATATTTAAATATTTAATTAATTATTT
1 ATTAAAAACAATCCAAATATTTAAATATTTAATTAATTATTT
* *
18766874 ATTAAAAATAACCCAAATATTTAATTATAAATATTTTATTAGTTAATTATATTT
1 ATTAAAAACAATCC-AA-A--T-ATT-TAAATA-TTTA--A-TTAA-T-TATTT
*
18766928 AATAATTAAAAACAATCCAAATATTTAAATATTTAATTAATTATTT
1 ATT----AAAAACAATCCAAATATTTAAATATTTAATTAATTATTT
18766974 ATTAAAAACAA-CACAAATATTTAA
1 ATTAAAAACAATC-CAAATATTTAA
18766998 TTAAAAATAT
Statistics
Matches: 101, Mismatches: 6, Indels: 34
0.72 0.04 0.24
Matches are distributed among these distances:
41 1 0.01
42 31 0.31
43 2 0.02
44 1 0.01
46 8 0.08
47 4 0.04
48 10 0.10
49 5 0.05
51 5 0.05
52 10 0.10
53 4 0.04
54 8 0.08
56 1 0.01
57 2 0.02
58 9 0.09
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (42 bp):
ATTAAAAACAATCCAAATATTTAAATATTTAATTAATTATTT
Found at i:18766907 original size:48 final size:47
Alignment explanation
Indices: 18766853--18767014 Score: 139
Period size: 48 Copynumber: 3.3 Consensus size: 47
18766843 TCCAAATATT
18766853 TAAATATTTAATTAATTATTTATTAAAAATAACCCAAATATTTAATTA
1 TAAATATTTAATTAATTATTTATTAAAAATAA-CCAAATATTTAATTA
* * * * ** *
18766901 TAAATATTTTATTAGTTAATTATATTTAATAATTAA--AAACAATCCAAATATT
1 TAAATATTTAATTAATT-ATT-TA-TTAA-AAATAACCAAA-TAT-TTAAT-TA
*
18766953 TAAATATTTAATTAATTATTTATTAAAAACAACACAAATATTTAATTA
1 TAAATATTTAATTAATTATTTATTAAAAATAAC-CAAATATTTAATTA
* *
18767001 AAAATATTTTATTA
1 TAAATATTTAATTA
18767015 TTTAATTACA
Statistics
Matches: 87, Mismatches: 17, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
48 32 0.37
49 13 0.15
50 8 0.09
51 13 0.15
52 21 0.24
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.44
Consensus pattern (47 bp):
TAAATATTTAATTAATTATTTATTAAAAATAACCAAATATTTAATTA
Found at i:18766920 original size:52 final size:51
Alignment explanation
Indices: 18766863--18767233 Score: 151
Period size: 50 Copynumber: 6.9 Consensus size: 51
18766853 TAAATATTTA
*
18766863 ATTAATTATTTATTAAAAATAACCCAAATATTTAATTATAAATATTTTATT
1 ATTAATTATTTATTAAAAACAACCCAAATATTTAATTATAAATATTTTATT
*
18766914 AGTTAATTATATTTAATAATTAAAAACAATCC-AA-A--T-ATT-TAAATA-TTTA--
1 A-TTAA-T-TA-TT--T-ATTAAAAACAACCCAAATATTTAATTATAAATATTTTATT
* *
18766963 ATTAATTATTTATTAAAAACAACACAAATATTTAATTAAAAATATTTTATTATTT
1 ATTAATTATTTATTAAAAACAACCCAAATATTTAATTATAAATA--TT-TTA-TT
* *
18767018 AATTACATTTAATATTTAATTATTAAAACAATCCAAATATTTAA-T-TAATTA-TTTATTT
1 -ATTA-A--T--TATTT-ATTA--AAAACAACCCAAATATTTAATTATAAATATTTTA-TT
* * * * * * * * *
18767076 AACTAGTTAATTACTAACAACAATCCAAATATTTAATTAT--TTAGTTTGATA
1 -ATTAATTATTTATTAAAAACAACCCAAATATTTAATTATAAATA-TTTTATT
* * * * *
18767127 ATTAGTTATTTATTAACAACAACCCAAATACTTATTTCA-AAATATTTAATT
1 ATTAATTATTTATTAAAAACAACCCAAATATTTAATT-ATAAATATTTTATT
*
18767178 ACTTAATTATATTTAATTATTAAAACAACCCGAAATTTTTAATTATATAATTATTT
1 A-TTAA-T-TATTT-ATTA--AAAACAACCC-AAATATTTAATTATA-AA-TATTT
18767234 ATTTATTTGT
Statistics
Matches: 244, Mismatches: 30, Indels: 83
0.68 0.08 0.23
Matches are distributed among these distances:
42 12 0.05
43 3 0.01
44 1 0.00
45 2 0.01
46 3 0.01
47 4 0.02
48 9 0.04
49 1 0.00
50 53 0.22
51 15 0.06
52 25 0.10
53 9 0.04
54 8 0.03
55 7 0.03
56 5 0.02
57 14 0.06
58 32 0.13
59 4 0.02
60 5 0.02
61 5 0.02
62 8 0.03
63 1 0.00
64 18 0.07
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (51 bp):
ATTAATTATTTATTAAAAACAACCCAAATATTTAATTATAAATATTTTATT
Found at i:18767058 original size:50 final size:51
Alignment explanation
Indices: 18767002--18767118 Score: 159
Period size: 50 Copynumber: 2.3 Consensus size: 51
18766992 ATTTAATTAA
* * *
18767002 AAATATTTTATTATTTAATTACATTTAA-TATTTAATTATTAA-AACAATCC
1 AAATATTTAATTATTTAATT-CATTTAACTAGTTAATTACTAACAACAATCC
* *
18767052 AAATATTTAATTAATT-ATTTATTTAACTAGTTAATTACTAACAACAATCC
1 AAATATTTAATTATTTAATTCATTTAACTAGTTAATTACTAACAACAATCC
18767102 AAATATTTAATTATTTA
1 AAATATTTAATTATTTA
18767119 GTTTGATAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
48 6 0.10
49 15 0.26
50 37 0.64
ACGTcount: A:0.44, C:0.09, G:0.01, T:0.46
Consensus pattern (51 bp):
AAATATTTAATTATTTAATTCATTTAACTAGTTAATTACTAACAACAATCC
Found at i:18767059 original size:42 final size:45
Alignment explanation
Indices: 18767013--18767115 Score: 113
Period size: 46 Copynumber: 2.2 Consensus size: 45
18767003 AATATTTTAT
* *
18767013 TATTTAATTA-CATTTAA-TATTTAATTATTAA-AACAATCCAAA
1 TATTTAATTATCATTTAACTAGTTAATTACTAACAACAATCCAAA
*
18767055 TATTTAATTAATTATTTATTTAACTAGTTAATTACTAACAACAATCCAAA
1 TA--T--TTAATTA-TCATTTAACTAGTTAATTACTAACAACAATCCAAA
18767105 TATTTAATTAT
1 TATTTAATTAT
18767116 TTAGTTTGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
42 2 0.04
44 1 0.02
45 1 0.02
46 14 0.28
48 7 0.14
49 12 0.24
50 13 0.26
ACGTcount: A:0.45, C:0.10, G:0.01, T:0.45
Consensus pattern (45 bp):
TATTTAATTATCATTTAACTAGTTAATTACTAACAACAATCCAAA
Found at i:18767075 original size:66 final size:66
Alignment explanation
Indices: 18766958--18767089 Score: 153
Period size: 66 Copynumber: 2.0 Consensus size: 66
18766948 ATATTTAAAT
* * * *
18766958 ATTTAATTAATTATTTATTAAAAACAACACAAATATTTAATTAAAAATATTTTATTATTTAATTA
1 ATTTAATTAATTAATTATTAAAAACAACACAAATATTTAATTAAAAATATTTAACTAGTTAATTA
18767023 C
66 C
* **
18767024 ATTTAA-TATTTAATTATT-AAAACAATC-CAAATATTTAATTAATTATTTATTTAACTAGTTAA
1 ATTTAATTAATTAATTATTAAAAACAA-CACAAATATTTAATTAA--AAATATTTAACTAGTTAA
18767086 TTAC
63 TTAC
18767090 TAACAACAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
64 22 0.39
65 11 0.20
66 23 0.41
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (66 bp):
ATTTAATTAATTAATTATTAAAAACAACACAAATATTTAATTAAAAATATTTAACTAGTTAATTA
C
Found at i:18767133 original size:50 final size:49
Alignment explanation
Indices: 18767033--18767156 Score: 162
Period size: 50 Copynumber: 2.5 Consensus size: 49
18767023 CATTTAATAT
18767033 TTAATTATTAA-AACAATCCAAATATTTAATTAATTATTTATTTAACTAG
1 TTAATTATTAACAACAATCCAAATATTTAATTAATTATTTA-TTAACTAG
* * *
18767082 TTAATTACTAACAACAATCCAAATATTTAATTATTTAGTTTGA-TAATTAG
1 TTAATTATTAACAACAATCCAAATATTTAATTAATTA-TTT-ATTAACTAG
* *
18767132 TTATTTATTAACAACAACCCAAATA
1 TTAATTATTAACAACAATCCAAATA
18767157 CTTATTTCAA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
49 10 0.15
50 52 0.79
51 3 0.05
52 1 0.02
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.41
Consensus pattern (49 bp):
TTAATTATTAACAACAATCCAAATATTTAATTAATTATTTATTAACTAG
Found at i:18767178 original size:212 final size:208
Alignment explanation
Indices: 18766734--18767156 Score: 481
Period size: 212 Copynumber: 2.0 Consensus size: 208
18766724 AAAACAATTT
* * *
18766734 AAATATTTAAATATTTAATTATTTAATTATTAAAAATAACCCAAATATTTAATTAAAAATATTTT
1 AAATATTTAAATATTTAATTAATTAATTATTAAAAACAACACAAATATTTAATTAAAAATATTTT
*
18766799 ATTATTTAGTTATATATAATTAAATCTTTAATAATTAAAAACAATCCAAATATTTAAATATTTAA
66 ATTATTTA--TATATATAATTAAATATTTAATAATTAAAAACAATCCAAATATTTAAATATTTAA
* * * * * *
18766864 TTAATTATTTATTAAAAATAACCCAAATATTTAATTATAAATATTTTATTAGTTAATTATATTTA
129 TTAACTATTAATTAAAAACAACCCAAATATTTAATTAT-AATATTTGATTAATTAAGTATATTT-
*
18766929 ATAATTAAAAACAATCC
192 ATAATTAAAAACAACCC
*
18766946 AAATATTTAAATATTTAATTAATTATTTATTAAAAACAACACAAATATTTAATTAAAAATATTTT
1 AAATATTTAAATATTTAATTAATTAATTATTAAAAACAACACAAATATTTAATTAAAAATATTTT
* * *
18767011 ATTATTTA-AT-TA-CATTTAATATTTAATTATT-AAAACAATCCAAATATTTAATTAATTATTT
66 ATTATTTATATATATAATTAAATATTTAATAATTAAAAACAATCCAAATATTT-A--AA-TATTT
* * *
18767072 ATTTAACTAGTTAATTACTAACAACAATCCAAATATTTAATTAT-TTAGTTTGA-TAATT-AGT-
127 AATTAACTA-TTAATTA--AA-AACAACCCAAATATTTAATTATAATA-TTTGATTAATTAAGTA
*
18767133 TA-TT-T-ATTAACAACAACCC
187 TATTTATAATTAAAAACAACCC
18767152 AAATA
1 AAATA
18767157 CTTATTTCAA
Statistics
Matches: 183, Mismatches: 19, Indels: 24
0.81 0.08 0.11
Matches are distributed among these distances:
206 35 0.19
207 17 0.09
208 2 0.01
209 6 0.03
210 14 0.08
211 8 0.04
212 75 0.41
213 6 0.03
214 20 0.11
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.43
Consensus pattern (208 bp):
AAATATTTAAATATTTAATTAATTAATTATTAAAAACAACACAAATATTTAATTAAAAATATTTT
ATTATTTATATATATAATTAAATATTTAATAATTAAAAACAATCCAAATATTTAAATATTTAATT
AACTATTAATTAAAAACAACCCAAATATTTAATTATAATATTTGATTAATTAAGTATATTTATAA
TTAAAAACAACCC
Found at i:18775352 original size:15 final size:15
Alignment explanation
Indices: 18775327--18775365 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
18775317 CGTTGAATTT
*
18775327 TAAAA-TGAAACAAG
1 TAAAAGTGAAACAAA
18775341 TAAAAGTGAAACAAA
1 TAAAAGTGAAACAAA
18775356 TAAAAG-GAAA
1 TAAAAGTGAAA
18775366 TATAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.67, C:0.05, G:0.15, T:0.13
Consensus pattern (15 bp):
TAAAAGTGAAACAAA
Found at i:18781379 original size:18 final size:16
Alignment explanation
Indices: 18781341--18781379 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
18781331 TAGTTAAAAC
*
18781341 TGTCAATGCAATAAGT
1 TGTCAATGCAATAAAT
18781357 TGTCAATGCAAGTTAAAT
1 TGTCAATGCAA--TAAAT
18781375 TGTCA
1 TGTCA
18781380 GAGCAACAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
18 9 0.45
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (16 bp):
TGTCAATGCAATAAAT
Found at i:18784961 original size:48 final size:48
Alignment explanation
Indices: 18784895--18785011 Score: 144
Period size: 48 Copynumber: 2.4 Consensus size: 48
18784885 TCTTTTATAG
* * * *
18784895 ATTAATCGCATAAATCACATGAGTACTTAAGCATTTAACACAACACAT
1 ATTAATCACATTAGTCACATGAATACTTAAGCATTTAACACAACACAT
* * * * *
18784943 ATTAATCACATTAGTCACATGAATATTTCAGCATTTATCACATCAGAT
1 ATTAATCACATTAGTCACATGAATACTTAAGCATTTAACACAACACAT
18784991 ATTAATCACATTTAGTCACAT
1 ATTAATCACA-TTAGTCACAT
18785012 TTAATCTCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
48 49 0.83
49 10 0.17
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (48 bp):
ATTAATCACATTAGTCACATGAATACTTAAGCATTTAACACAACACAT
Found at i:18784983 original size:23 final size:24
Alignment explanation
Indices: 18784953--18785053 Score: 74
Period size: 23 Copynumber: 4.4 Consensus size: 24
18784943 ATTAATCACA
18784953 TTAGTCACATGAATATTTCAGCAT
1 TTAGTCACATGAATATTTCAGCAT
*
18784977 TTA-TCACATCAGATATTAATCA-CAT
1 TTAGTCACATGA-ATATT--TCAGCAT
* * *
18785002 TTAGTCACAT--TTA-ATC-TCA-
1 TTAGTCACATGAATATTTCAGCAT
*
18785021 TTAGTCACGTGAATATTTCAGCAT
1 TTAGTCACATGAATATTTCAGCAT
18785045 TTA-TCACAT
1 TTAGTCACAT
18785054 CACATATTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 21
0.67 0.09 0.24
Matches are distributed among these distances:
19 9 0.15
20 4 0.07
21 2 0.03
22 2 0.03
23 16 0.27
24 11 0.19
25 6 0.10
26 9 0.15
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.39
Consensus pattern (24 bp):
TTAGTCACATGAATATTTCAGCAT
Found at i:18785023 original size:68 final size:67
Alignment explanation
Indices: 18784938--18785235 Score: 295
Period size: 59 Copynumber: 4.6 Consensus size: 67
18784928 TTTAACACAA
* * *
18784938 CACATATTAATCACATTAGTCACATGAATATTTCAGCATTTATCACATCAGATATTAATCACATT
1 CACAT-TTAATCTCATTA-TCACATGAATATTTCAACATTTATCACATCACATATTAATCACATT
18785003 TAGT
64 TAGT
* * *
18785007 CACATTTAATCTCATTAGTCACGTGAATATTTCAGCATTTATCACATCACATATTAATAACATTT
1 CACATTTAATCTCATTA-TCACATGAATATTTCAACATTTATCACATCACATATTAATCACATTT
*
18785072 AAT
65 AGT
* * *
18785075 CACA--T-A--T-A--ATCACATTAATATTTCAACATTTATCACATCACAAATTAATCACATTAA
1 CACATTTAATCTCATTATCACATGAATATTTCAACATTTATCACATCACATATTAATCACATTTA
18785132 GT
66 GT
* *
18785134 CACATTTAA--TC---AT-AC--GAATATTTCATCATTTATCACATCATATATTAATCACATTTA
1 CACATTTAATCTCATTATCACATGAATATTTCAACATTTATCACATCACATATTAATCACATTTA
18785191 GT
66 GT
* * * *
18785193 CACATTAAATCACATATAATCGCATTAATATTTCAACATTTAT
1 CACATTTAATCTCAT-T-ATCACATGAATATTTCAACATTTAT
18785236 AATATTAATA
Statistics
Matches: 193, Mismatches: 22, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
59 94 0.49
60 1 0.01
61 4 0.02
62 5 0.03
63 1 0.01
65 1 0.01
66 3 0.02
67 1 0.01
68 62 0.32
69 21 0.11
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.37
Consensus pattern (67 bp):
CACATTTAATCTCATTATCACATGAATATTTCAACATTTATCACATCACATATTAATCACATTTA
GT
Found at i:18785077 original size:21 final size:20
Alignment explanation
Indices: 18785052--18785090 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18785042 CATTTATCAC
18785052 ATCACATATTAATAACATTTA
1 ATCACATA-TAATAACATTTA
*
18785073 ATCACATATAATCACATT
1 ATCACATATAATAACATT
18785091 AATATTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (20 bp):
ATCACATATAATAACATTTA
Found at i:18785079 original size:10 final size:10
Alignment explanation
Indices: 18785052--18785090 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
18785042 CATTTATCAC
18785052 ATCACATATTA
1 ATCACAT-TTA
*
18785063 ATAACATTTA
1 ATCACATTTA
*
18785073 ATCACATATA
1 ATCACATTTA
18785083 ATCACATT
1 ATCACATT
18785091 AATATTTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 18 0.75
11 6 0.25
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (10 bp):
ATCACATTTA
Found at i:18785218 original size:20 final size:20
Alignment explanation
Indices: 18785180--18785220 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18785170 ATCATATATT
* *
18785180 AATCACATTTAGTCACATTA
1 AATCACATATAATCACATTA
*
18785200 AATCACATATAATCGCATTA
1 AATCACATATAATCACATTA
18785220 A
1 A
18785221 TATTTCAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.32
Consensus pattern (20 bp):
AATCACATATAATCACATTA
Found at i:18785263 original size:23 final size:23
Alignment explanation
Indices: 18785237--18785282 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
18785227 AACATTTATA
*
18785237 ATATTAATATTTAAGCATAAATC
1 ATATTAACATTTAAGCATAAATC
18785260 ATATTAACATTTAAGCATAAATC
1 ATATTAACATTTAAGCATAAATC
18785283 GAACCCCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (23 bp):
ATATTAACATTTAAGCATAAATC
Found at i:18786508 original size:12 final size:13
Alignment explanation
Indices: 18786465--18786513 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
18786455 ATTCTAAAAC
18786465 ATAAAATAAATAAA
1 ATAAAAT-AATAAA
* *
18786479 ACAATGATAATAAA
1 ATAA-AATAATAAA
18786493 ATAAAATAAT-AA
1 ATAAAATAATAAA
18786505 ATAAAATAA
1 ATAAAATAA
18786514 AATTAAGAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 11 0.37
13 5 0.17
14 12 0.40
15 2 0.07
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (13 bp):
ATAAAATAATAAA
Found at i:18788057 original size:36 final size:36
Alignment explanation
Indices: 18788017--18788236 Score: 314
Period size: 36 Copynumber: 6.1 Consensus size: 36
18788007 TTAGCACAAT
*
18788017 ATATTCACTGTCACATGGCATGAATAACATACCCAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
** * **
18788053 ATATTTTTTGTCTCATGGCATGAATAACATACTTAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
* * *
18788089 ATATTTATTGTCACATGGCATGAATATCATGCCCAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
** *
18788125 ATATTTACCATCTCATGGCATGAATAACATACCCAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
* *
18788161 ATATTTACTGTCACATGACATGAATAACATACCAAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
18788197 ATATTTACTGTCACATGGCATGAATAACATACCCAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
18788233 ATAT
1 ATAT
18788237 ATATTGTCTC
Statistics
Matches: 159, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 159 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.31
Consensus pattern (36 bp):
ATATTTACTGTCACATGGCATGAATAACATACCCAC
Found at i:18788765 original size:10 final size:10
Alignment explanation
Indices: 18788750--18788775 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
18788740 CTCAACCTTT
18788750 AAACTACACA
1 AAACTACACA
18788760 AAACTACACA
1 AAACTACACA
18788770 AAACTA
1 AAACTA
18788776 TACGTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.27, G:0.00, T:0.12
Consensus pattern (10 bp):
AAACTACACA
Found at i:18798193 original size:17 final size:17
Alignment explanation
Indices: 18798166--18798199 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
18798156 GTCCTTGAAA
18798166 TAATGTATTTTAAATATT
1 TAATGTATTTT-AATATT
18798184 TAAT-TATTTTAATATT
1 TAATGTATTTTAATATT
18798200 ACTGAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 6 0.38
18 4 0.25
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TAATGTATTTTAATATT
Found at i:18798445 original size:15 final size:15
Alignment explanation
Indices: 18798422--18798451 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18798412 TGTTATAACT
18798422 GTTGGAAATTTATAA
1 GTTGGAAATTTATAA
*
18798437 GTTGTAAATTTATAA
1 GTTGGAAATTTATAA
18798452 TTATTCATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (15 bp):
GTTGGAAATTTATAA
Found at i:18805514 original size:15 final size:15
Alignment explanation
Indices: 18805491--18805520 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18805481 TTTATATTAA
18805491 TTTTAATTTAATATT
1 TTTTAATTTAATATT
*
18805506 TTTTTATTTAATATT
1 TTTTAATTTAATATT
18805521 CTATATATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTAATTTAATATT
Found at i:18805631 original size:18 final size:16
Alignment explanation
Indices: 18805608--18805643 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
18805598 TATGTGTTTT
18805608 AAATAATATAATATATAA
1 AAATAATA-AA-ATATAA
18805626 AAATAATAAAATATAA
1 AAATAATAAAATATAA
18805642 AA
1 AA
18805644 CATTACAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 2 0.11
18 8 0.44
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATAATAAAATATAA
Found at i:18807005 original size:17 final size:17
Alignment explanation
Indices: 18806983--18807016 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
18806973 CTCACACTTT
18806983 TTAAATATTCTTTAACG
1 TTAAATATTCTTTAACG
18807000 TTAAATATTCTTTAACG
1 TTAAATATTCTTTAACG
18807017 AAGTTTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (17 bp):
TTAAATATTCTTTAACG
Found at i:18808794 original size:20 final size:20
Alignment explanation
Indices: 18808757--18808809 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
18808747 AAAATATAAG
* *
18808757 AAATT-TTTGGAATTTTTGA
1 AAATTATTTTGAATATTTGA
18808776 AAATTATTTTGAATATTTGA
1 AAATTATTTTGAATATTTGA
*
18808796 AATTTATTTTGAAT
1 AAATTATTTTGAAT
18808810 TGTTTTGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 5 0.17
20 25 0.83
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (20 bp):
AAATTATTTTGAATATTTGA
Found at i:18812277 original size:37 final size:37
Alignment explanation
Indices: 18812236--18812319 Score: 168
Period size: 37 Copynumber: 2.3 Consensus size: 37
18812226 ATAGGTGAAT
18812236 AAAACGACATAGTTTTGTGCCTAATGCAATAGGCATC
1 AAAACGACATAGTTTTGTGCCTAATGCAATAGGCATC
18812273 AAAACGACATAGTTTTGTGCCTAATGCAATAGGCATC
1 AAAACGACATAGTTTTGTGCCTAATGCAATAGGCATC
18812310 AAAACGACAT
1 AAAACGACAT
18812320 CGTATAAGGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (37 bp):
AAAACGACATAGTTTTGTGCCTAATGCAATAGGCATC
Found at i:18814602 original size:15 final size:15
Alignment explanation
Indices: 18814556--18814606 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
18814546 AGCAATACAT
* *
18814556 TTTTTCTGCTTTTCTC
1 TTTTTCTTCTTCT-TC
*
18814572 TTTTTCTT-TGCTTTC
1 TTTTTCTTCTTC-TTC
18814587 TTTTTCTTCTTCTTC
1 TTTTTCTTCTTCTTC
18814602 TTTTT
1 TTTTT
18814607 TATACGTGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 19 0.66
16 10 0.34
ACGTcount: A:0.00, C:0.22, G:0.04, T:0.75
Consensus pattern (15 bp):
TTTTTCTTCTTCTTC
Found at i:18828727 original size:94 final size:95
Alignment explanation
Indices: 18828562--18828754 Score: 325
Period size: 94 Copynumber: 2.0 Consensus size: 95
18828552 TTGTCAATAA
* * *
18828562 GTTTGTTGATGGTTTACTAGACATTGATTGTTGTTTTTTTGGCTATTTCATTATGTTTGTAATTG
1 GTTTGTTGATGGTTTACTAGACACTAATTGTTGTTTATTTGGCTATTTCATTATGTTTGTAATTG
*
18828627 ACTGTTAGGTTATTATTTGATGTCTTCATT
66 AATGTTAGGTTATTATTTGATGTCTTCATT
*
18828657 GTTTGTTGATGGTTTACTAGACACTAATTGTTG-TTATTTGGCTATTTCATTGTGTTTGTAATTG
1 GTTTGTTGATGGTTTACTAGACACTAATTGTTGTTTATTTGGCTATTTCATTATGTTTGTAATTG
*
18828721 AATGTTAGGTTCTTATTTGATGTCTTCATT
66 AATGTTAGGTTATTATTTGATGTCTTCATT
18828751 GTTT
1 GTTT
18828755 TCTCAACCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
94 61 0.66
95 31 0.34
ACGTcount: A:0.18, C:0.08, G:0.20, T:0.54
Consensus pattern (95 bp):
GTTTGTTGATGGTTTACTAGACACTAATTGTTGTTTATTTGGCTATTTCATTATGTTTGTAATTG
AATGTTAGGTTATTATTTGATGTCTTCATT
Found at i:18835231 original size:16 final size:16
Alignment explanation
Indices: 18835192--18835235 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
18835182 TTGACACTCC
18835192 TATTTTT-TATTTCTTT
1 TATTTTTGT-TTTCTTT
*
18835208 TAATTTTGTTTTCTTT
1 TATTTTTGTTTTCTTT
18835224 TATTTTTGTTTT
1 TATTTTTGTTTT
18835236 TCCCCAGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 24 0.96
17 1 0.04
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.80
Consensus pattern (16 bp):
TATTTTTGTTTTCTTT
Found at i:18836173 original size:35 final size:36
Alignment explanation
Indices: 18836089--18836696 Score: 494
Period size: 37 Copynumber: 16.6 Consensus size: 36
18836079 ACGACTTTAT
*
18836089 CCAAACCTTTTTAAGGTCGCCTTAGACA-GTCTA--
1 CCAAACCTTTTTAAGGTTGCCTTAGACAGGTCTATC
* * *
18836122 CCATAACTTTTTTAAGGTTGCTTTAGAC--GTGTATAC
1 CCA-AACCTTTTTAAGGTTGCCTTAGACAGGTCTAT-C
*
18836158 CCAAACCTTTTTAAGGATGCCTTAGACAGGTCTATC
1 CCAAACCTTTTTAAGGTTGCCTTAGACAGGTCTATC
* * *
18836194 CCAACCGCTTTTAAAGGTTGCTTTAGACAAGGTCTATC
1 CCAAAC-CTTTTTAAGGTTGCCTTAGAC-AGGTCTATC
*
18836232 CC-AACCTTTTTAAGGTTGCCTTAGATAGGTCTAT-
1 CCAAACCTTTTTAAGGTTGCCTTAGACAGGTCTATC
* * * * *
18836266 ACTAACCTTTTTTAAAGTTTGACTTAGACAAAGTCTATC
1 CCAAACC-TTTTT-AAGGTTGCCTTAGAC-AGGTCTATC
* * ** * *
18836305 CC-AATC-TTTTAAGGTTTCCTTAGATGGGTCAATT
1 CCAAACCTTTTTAAGGTTGCCTTAGACAGGTCTATC
*
18836339 CC-AACCTTTTTTTATAGGTTGCCTTGGACTAGGTCTATC
1 CCAAACC--TTTTTA-AGGTTGCCTTAGAC-AGGTCTATC
* *
18836378 CC-AACCTTTTTAAGGTTGCTTTAGACGGGTCTATC
1 CCAAACCTTTTTAAGGTTGCCTTAGACAGGTCTATC
* *
18836413 CC-AACCTTTTTAAAGTTGCCTTGGACAAGGTCTATC
1 CCAAACCTTTTTAAGGTTGCCTTAGAC-AGGTCTATC
* * *
18836449 CC-AACCTTTTTTAAAGTTGCCTTAGACAAGATTTATC
1 CCAAACC-TTTTTAAGGTTGCCTTAGAC-AGGTCTATC
* *
18836486 CC-AACCTTTTTTAAAGGTTGCCTTAGAGAATGTCTATC
1 CCAAACC-TTTTT-AAGGTTGCCTTAGA-CAGGTCTATC
* * *
18836524 TC-AACCTTTTTAAGGTTTCCTTAAACAAGGTCTATC
1 CCAAACCTTTTTAAGGTTGCCTTAGAC-AGGTCTATC
* * * *
18836560 CTAATCTTTTTTAAAGGTTGCCTTAAACAAGGTCTATC
1 CCAAACCTTTTT-AAGGTTGCCTTAGAC-AGGTCTATC
* *
18836598 CC-AATCTTTTTAAGGTTGCCTTAGACGGGTCTATC
1 CCAAACCTTTTTAAGGTTGCCTTAGACAGGTCTATC
*
18836633 CC-AACCTTTCTTAAAAGGTTGCCTTAGACAAGATCTATC
1 CCAAACCTTT-TT--AAGGTTGCCTTAGAC-AGGTCTATC
*
18836672 CCAACCCTTTTTAAAGGTTGGCCTT
1 CCAAACCTTTTT-AAGGTT-GCCTT
18836697 GACTAGATCT
Statistics
Matches: 471, Mismatches: 73, Indels: 56
0.79 0.12 0.09
Matches are distributed among these distances:
33 7 0.01
34 32 0.07
35 91 0.19
36 98 0.21
37 105 0.22
38 103 0.22
39 29 0.06
40 6 0.01
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (36 bp):
CCAAACCTTTTTAAGGTTGCCTTAGACAGGTCTATC
Found at i:18836383 original size:146 final size:145
Alignment explanation
Indices: 18836086--18836696 Score: 630
Period size: 146 Copynumber: 4.2 Consensus size: 145
18836076 TAAACGACTT
* * * * *
18836086 TATCCAAACCTTTTTAAGGTCGCCTTAGACA-GTCTA-CCATAA-CTTTTTTAAGGTTGCTTTAG
1 TATCCCAACCTTTTTAAGGTTGCCTTAGAAAGGTCTATCC-TAACCTTTTTTAAAGTTGCCTTAG
* * * **
18836148 AC---GTGTATACCCAAACCTTTTTAAGGATGCCTTAGACA-GGTCTATCCCAACC-GCTTTTAA
65 ACAAGGTCTAT-CCC-AATC-TTTTAAGGTTGCCTTAGA-AGGGTCTATCCCAACCTTTTTTTAA
*
18836208 AGGTTGCTTTAGACAAGGTC
126 AGGTTGCCTTAGACAAGGTC
* * *
18836228 TATCCCAACCTTTTTAAGGTTGCCTTAGATAGGTCTATACTAACCTTTTTTAAAGTTTGACTTAG
1 TATCCCAACCTTTTTAAGGTTGCCTTAGAAAGGTCTATCCTAACCTTTTTTAAAG-TTGCCTTAG
* * * * * *
18836293 ACAAAGTCTATCCCAATCTTTTAAGGTTTCCTTAGATGGGTCAATTCCAACCTTTTTTTATAGGT
65 ACAAGGTCTATCCCAATCTTTTAAGGTTGCCTTAGAAGGGTCTATCCCAACCTTTTTTTAAAGGT
* *
18836358 TGCCTTGGACTAGGTC
130 TGCCTTAGACAAGGTC
* ** * *
18836374 TATCCCAACCTTTTTAAGGTTGCTTTAGACGGGTCTATCCCAACC-TTTTTAAAGTTGCCTTGGA
1 TATCCCAACCTTTTTAAGGTTGCCTTAGAAAGGTCTATCCTAACCTTTTTTAAAGTTGCCTTAGA
* * * * *
18836438 CAAGGTCTATCCCAACCTTTTTTAAAGTTGCCTTAGACAAGATTTATCCCAACC-TTTTTTAAAG
66 CAAGGTCTATCCCAA--TCTTTTAAGGTTGCCTTAGA-AGGGTCTATCCCAACCTTTTTTTAAAG
* *
18836502 GTTGCCTTAGAGAATGTC
128 GTTGCCTTAGACAAGGTC
* * * *
18836520 TATCTCAACCTTTTTAAGGTTTCCTTAAACAAGGTCTATCCTAATCTTTTTTAAAGGTTGCCTTA
1 TATCCCAACCTTTTTAAGGTTGCCTTAGA-AAGGTCTATCCTAACCTTTTTTAAA-GTTGCCTTA
* * * *
18836585 AACAAGGTCTATCCCAATCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTCTTAAAAG
64 GACAAGGTCTATCCCAATC-TTTTAAGGTTGCCTTAGAAGGGTCTATCCCAACCTTTTTTTAAAG
*
18836650 GTTGCCTTAGACAAGATC
128 GTTGCCTTAGACAAGGTC
18836668 TATCCCAACCCTTTTTAAAGGTTGGCCTT
1 TATCCCAA-CCTTTTT-AAGGTT-GCCTT
18836697 GACTAGATCT
Statistics
Matches: 384, Mismatches: 65, Indels: 31
0.80 0.14 0.06
Matches are distributed among these distances:
142 28 0.07
143 8 0.02
144 33 0.09
145 46 0.12
146 130 0.34
147 38 0.10
148 60 0.16
149 31 0.08
150 6 0.02
151 4 0.01
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (145 bp):
TATCCCAACCTTTTTAAGGTTGCCTTAGAAAGGTCTATCCTAACCTTTTTTAAAGTTGCCTTAGA
CAAGGTCTATCCCAATCTTTTAAGGTTGCCTTAGAAGGGTCTATCCCAACCTTTTTTTAAAGGTT
GCCTTAGACAAGGTC
Found at i:18836408 original size:74 final size:73
Alignment explanation
Indices: 18836086--18836696 Score: 675
Period size: 74 Copynumber: 8.4 Consensus size: 73
18836076 TAAACGACTT
* * * *
18836086 TATCCAAACCTTTTTAAGGTCGCCTTAGACA-GTCTA--CCATAACTTTTTT-AAGGTTGCTTTA
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCA-ACCTTTTTTAAAGGTTGCCTTA
*
18836147 GAC---GTG
65 GACAAGGTC
* ** *
18836153 TATACCCAAACCTTTTTAAGGATGCCTTAGACAGGTCTATCCCAACCGCTTTTAAAGGTTGCTTT
1 TAT-CCC-AACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
18836218 AGACAAGGTC
64 AGACAAGGTC
* * * * *
18836228 TATCCCAACCTTTTTAAGGTTGCCTTAGATAGGTCTATACTAACCTTTTTTAAAGTTTGACTTAG
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAG
*
18836293 ACAAAGTC
66 ACAAGGTC
* * ** * * * *
18836301 TATCCCAATC-TTTTAAGGTTTCCTTAGATGGGTCAATTCCAACCTTTTTTTATAGGTTGCCTTG
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACC-TTTTTTAAAGGTTGCCTTA
*
18836365 GACTAGGTC
65 GACAAGGTC
* * *
18836374 TATCCCAACCTTTTTAAGGTTGCTTTAGACGGGTCTATCCCAACC-TTTTTAAA-GTTGCCTTGG
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAG
18836437 ACAAGGTC
66 ACAAGGTC
* * *
18836445 TATCCCAACCTTTTTTAAAGTTGCCTTAGACAAGATTTATCCCAACCTTTTTTAAAGGTTGCCTT
1 TATCCCAACC-TTTTTAAGGTTGCCTTAGAC-AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
* *
18836510 AGAGAATGTC
64 AGACAAGGTC
* * * * *
18836520 TATCTCAACCTTTTTAAGGTTTCCTTAAACAAGGTCTATCCTAATCTTTTTTAAAGGTTGCCTTA
1 TATCCCAACCTTTTTAAGGTTGCCTTAGAC-AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTA
*
18836585 AACAAGGTC
65 GACAAGGTC
* * *
18836594 TATCCCAATCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTCTTAAAAGGTTGCCTTA
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTT-TTTAAAGGTTGCCTTA
*
18836659 GACAAGATC
65 GACAAGGTC
18836668 TATCCCAACCCTTTTTAAAGGTTGGCCTT
1 TATCCCAA-CCTTTTT-AAGGTT-GCCTT
18836697 GACTAGATCT
Statistics
Matches: 458, Mismatches: 67, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
67 3 0.01
68 2 0.00
69 23 0.05
70 5 0.01
71 33 0.07
72 72 0.16
73 124 0.27
74 150 0.33
75 35 0.08
76 6 0.01
77 5 0.01
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (73 bp):
TATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAG
ACAAGGTC
Found at i:18836706 original size:38 final size:37
Alignment explanation
Indices: 18836086--18836696 Score: 582
Period size: 38 Copynumber: 16.7 Consensus size: 37
18836076 TAAACGACTT
* *
18836086 TATCCAAACCTTTTT-AAGGTCGCCTTAGAC-A-GTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTC
* * * *
18836120 TA--CCATAACTTTTTTAAGGTTGCTTTAGAC---GTG
1 TATCCCA-ACCTTTTTAAAGGTTGCCTTAGACAAGGTC
*
18836153 TATACCCAAACCTTTTT-AAGGATGCCTTAGAC-AGGTC
1 TAT-CCC-AACCTTTTTAAAGGTTGCCTTAGACAAGGTC
* *
18836190 TATCCCAACCGCTTTTAAAGGTTGCTTTAGACAAGGTC
1 TATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAGGTC
*
18836228 TATCCCAACCTTTTT-AAGGTTGCCTTAGA-TAGGTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTC
* * * * *
18836263 TATACTAACCTTTTTTAAAGTTTGACTTAGACAAAGTC
1 TATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAGGTC
* * **
18836301 TATCCCAATC-TTTT-AAGGTTTCCTTAGA-TGGGTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTC
* * * * *
18836335 AATTCCAACCTTTTTTTATAGGTTGCCTTGGACTAGGTC
1 TATCCCAACC--TTTTTAAAGGTTGCCTTAGACAAGGTC
* *
18836374 TATCCCAACCTTTTT-AAGGTTGCTTTAGAC-GGGTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTC
*
18836409 TATCCCAACCTTTTTAAA-GTTGCCTTGGACAAGGTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTC
* *
18836445 TATCCCAACCTTTTTTAAA-GTTGCCTTAGACAAGATT
1 TATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAGGTC
* *
18836482 TATCCCAACCTTTTTTAAAGGTTGCCTTAGAGAATGTC
1 TATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAGGTC
* * *
18836520 TATCTCAACCTTTTT-AAGGTTTCCTTAAACAAGGTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTC
* * *
18836556 TATCCTAATCTTTTTTAAAGGTTGCCTTAAACAAGGTC
1 TATCCCAA-CCTTTTTAAAGGTTGCCTTAGACAAGGTC
* *
18836594 TATCCCAATCTTTTT-AAGGTTGCCTTAGAC-GGGTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTC
*
18836629 TATCCCAACCTTTCTTAAAAGGTTGCCTTAGACAAGATC
1 TATCCCAACCTTT-TT-AAAGGTTGCCTTAGACAAGGTC
18836668 TATCCCAACCCTTTTTAAAGGTTGGCCTT
1 TATCCCAA-CCTTTTTAAAGGTT-GCCTT
18836697 GACTAGATCT
Statistics
Matches: 476, Mismatches: 70, Indels: 57
0.79 0.12 0.09
Matches are distributed among these distances:
32 2 0.00
33 11 0.02
34 25 0.05
35 86 0.18
36 105 0.22
37 102 0.21
38 109 0.23
39 31 0.07
40 5 0.01
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
TATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTC
Found at i:18842135 original size:37 final size:38
Alignment explanation
Indices: 18842055--18842151 Score: 124
Period size: 37 Copynumber: 2.6 Consensus size: 38
18842045 AACACCACTT
* * *
18842055 CATCCATCATACACACCACAATTGAGCTAAGGTAGGTC
1 CATCCACCCTACACACCACAATTGAGCTAAGGTAGGCC
* * * *
18842093 CATCCACCCTGCACACCATAA-TGGGCTATGGTAGGCC
1 CATCCACCCTACACACCACAATTGAGCTAAGGTAGGCC
18842130 CATCCACCCTACACACCACAAT
1 CATCCACCCTACACACCACAAT
18842152 AGTTGATCTA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
37 32 0.65
38 17 0.35
ACGTcount: A:0.31, C:0.36, G:0.14, T:0.19
Consensus pattern (38 bp):
CATCCACCCTACACACCACAATTGAGCTAAGGTAGGCC
Found at i:18852064 original size:19 final size:20
Alignment explanation
Indices: 18852026--18852065 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
18852016 GCAAACCCCA
18852026 AGTTGCAGTTTCAGCCTATT
1 AGTTGCAGTTTCAGCCTATT
18852046 AGTTG-AGTATTCA-CCTATT
1 AGTTGCAGT-TTCAGCCTATT
18852065 A
1 A
18852066 TACAATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.40
Consensus pattern (20 bp):
AGTTGCAGTTTCAGCCTATT
Found at i:18861434 original size:21 final size:21
Alignment explanation
Indices: 18861387--18861435 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
18861377 CAGCAAAAAA
***
18861387 AAAAAAAAAAAGAAAAAGGTT
1 AAAAAAAAAAAGAAAAAGAAG
**
18861408 CGAAAAAAAAAGAAAAAGAAG
1 AAAAAAAAAAAGAAAAAGAAG
18861429 AAAAAAA
1 AAAAAAA
18861436 CATGGTAGCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAAAGAAAAAGAAG
Found at i:18862208 original size:23 final size:23
Alignment explanation
Indices: 18862175--18862228 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
18862165 CGTGGCGTCC
* *
18862175 AGTCAGCAGCTTCTAGAAGATCT
1 AGTCAGCAGCTTCCAAAAGATCT
* *
18862198 AGTCAGTAGCTTCCAAAAGGTCT
1 AGTCAGCAGCTTCCAAAAGATCT
18862221 AGTCAGCA
1 AGTCAGCA
18862229 AGGATGGACG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (23 bp):
AGTCAGCAGCTTCCAAAAGATCT
Found at i:18885590 original size:12 final size:12
Alignment explanation
Indices: 18885562--18885596 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
18885552 GCGAAAAGAG
18885562 AAGAAAAGAAAAA
1 AAGAAAA-AAAAA
*
18885575 AAGAAAAAATAA
1 AAGAAAAAAAAA
18885587 AAGAAAAAAA
1 AAGAAAAAAA
18885597 TGAAAGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (12 bp):
AAGAAAAAAAAA
Found at i:18885594 original size:13 final size:13
Alignment explanation
Indices: 18885562--18885602 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
18885552 GCGAAAAGAG
18885562 AAGAAAAGAAA-AA
1 AAGAAAA-AAATAA
18885575 AAG-AAAAAATAA
1 AAGAAAAAAATAA
*
18885587 AAGAAAAAAATGA
1 AAGAAAAAAATAA
18885600 AAG
1 AAG
18885603 GTTGAGATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 3 0.12
12 8 0.32
13 14 0.56
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (13 bp):
AAGAAAAAAATAA
Found at i:18886555 original size:44 final size:43
Alignment explanation
Indices: 18886499--18887000 Score: 329
Period size: 44 Copynumber: 11.8 Consensus size: 43
18886489 TAAACTATCT
*
18886499 AATCTTTTACCCCAATCCAGAGGGGCAGATTGAAGCCACTATCC
1 AATCTTTTACCCC-ATCCAGAGGGGCAGATTGAAGCCACCATCC
* * *
18886543 AATCTTTTACCCCATCCAAAGGGGCAGATTGAAGTTACACCATCT
1 AATCTTTTACCCCATCCAGAGGGGCAGATTGAAG--CCACCATCC
* * * *
18886588 AATCTTTTACCCCATCTAGA-GGTCAGATTGAAGCTACCATTC
1 AATCTTTTACCCCATCCAGAGGGGCAGATTGAAGCCACCATCC
* * * *
18886630 GATCTTTTACCCTATCCA-A-GGGTAGATTGAAGCTACCATCC
1 AATCTTTTACCCCATCCAGAGGGGCAGATTGAAGCCACCATCC
* * * * * *
18886671 AATGTTTTACCCCATCCGGA-GGGTAGATTAAAGTTACACCACCC
1 AATCTTTTACCCCATCCAGAGGGGCAGATTGAAG--CCACCATCC
* * * *
18886715 AATCTTTTACCCTATCCA-AAGGGCAGATTGAAGTTACATCATCC
1 AATCTTTTACCCCATCCAGAGGGGCAGATTGAAG--CCACCATCC
* *
18886759 AATCTTTTACCCCATCC--A---G-AG---GAAGCTACCATCT
1 AATCTTTTACCCCATCCAGAGGGGCAGATTGAAGCCACCATCC
* * *
18886793 AATCTTTTACTCCCATCTAGAGGGGTAGATTAAAGCCACCAT-C
1 AATCTTTTAC-CCCATCCAGAGGGGCAGATTGAAGCCACCATCC
* * ** * * * *
18886836 ATACCTTTTACCCTATCCA-AAAGGAAAATTGAAGCTATCATCC
1 A-ATCTTTTACCCCATCCAGAGGGGCAGATTGAAGCCACCATCC
* * * * *
18886879 AACCTTTTACCCCCTTCTTAGAGAGGCAAATTGAAGCCACCATCC
1 AATCTTTTA-CCCCATC-CAGAGGGGCAGATTGAAGCCACCATCC
* ** * *
18886924 AATCTTTTGCCCC-TACCTAGAAAGGTAGATTGAAGCCACCGTCC
1 AATCTTTTACCCCAT-CC-AGAGGGGCAGATTGAAGCCACCATCC
* *
18886968 AATCTTTTACCCCCATCCAAAGGGG-AAATTGAA
1 AATCTTTTA-CCCCATCCAGAGGGGCAGATTGAA
18887001 ATATGAAAGC
Statistics
Matches: 363, Mismatches: 70, Indels: 51
0.75 0.14 0.11
Matches are distributed among these distances:
34 15 0.04
35 6 0.02
36 4 0.01
37 1 0.00
39 2 0.01
40 2 0.01
41 36 0.10
42 56 0.15
43 44 0.12
44 139 0.38
45 57 0.16
46 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (43 bp):
AATCTTTTACCCCATCCAGAGGGGCAGATTGAAGCCACCATCC
Found at i:18886844 original size:122 final size:119
Alignment explanation
Indices: 18886658--18886891 Score: 292
Period size: 122 Copynumber: 1.9 Consensus size: 119
18886648 AGGGTAGATT
* * *
18886658 GAAGCTACCATCCAATGTTTTACCCCATCCGGAGGGTAGATTAAAGTTACACCACCCAATCTTTT
1 GAAGCTACCATCCAATCTTTTACCCCATCCAGAGGGTAGATTAAAG-TACACCACCCAACCTTTT
* * * * *
18886723 ACCCTATCCAAAGGGCAGATTGAAGTTACATCATCCAATCTTTTACCCCATCCAGAG
65 ACCCTATCCAAAAGGAAAATTGAAGCT--ATCATCCAACCTTTTACCCCATCCAGAG
* * * *
18886780 GAAGCTACCATCTAATCTTTTACTCCCATCTAGAGGGGTAGATTAAAG-CCACCA-TCATACCTT
1 GAAGCTACCATCCAATCTTTTAC-CCCATCCAGA-GGGTAGATTAAAGTACACCACCCA-ACCTT
18886843 TTACCCTATCCAAAAGGAAAATTGAAGCTATCATCCAACCTTTTACCCC
63 TTACCCTATCCAAAAGGAAAATTGAAGCTATCATCCAACCTTTTACCCC
18886892 CTTCTTAGAG
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
120 19 0.20
121 2 0.02
122 55 0.57
123 8 0.08
124 13 0.13
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (119 bp):
GAAGCTACCATCCAATCTTTTACCCCATCCAGAGGGTAGATTAAAGTACACCACCCAACCTTTTA
CCCTATCCAAAAGGAAAATTGAAGCTATCATCCAACCTTTTACCCCATCCAGAG
Found at i:18892473 original size:65 final size:65
Alignment explanation
Indices: 18892402--18892596 Score: 198
Period size: 65 Copynumber: 2.9 Consensus size: 65
18892392 AAAAAAGGTG
* **
18892402 AAAAAGAAAGAGAGAAAG-AAAA-AGGTCGAGATGAAATCTTGCAAAAGGCATCTTGAAACCCCC
1 AAAAAGAAA-AGA-AAAGAAAAAGAGGTCGAGATGAAAACCCGCAAAAGGCATCTTGAAACCCCC
18892465 AA
64 AA
* * *
18892467 AAAAAGAAAAGAAAAGAAAAAGAGGTCGAGATGAAAACCCGCCAAGGGCATCTTGAAA-CCCAAG
1 AAAAAGAAAAGAAAAGAAAAAGAGGTCGAGATGAAAACCCGCAAAAGGCATCTTGAAACCCCCA-
18892531 GGA
65 --A
* * *
18892534 AGAAAAGAAAAAAAGAAAAGAAGAAAAAAGTCAAGATGAAAACCCGCAAAAGGCATCTTGAAA
1 A-AAAAG---AAAAGAAAAGAA-AAAGAGGTCGAGATGAAAACCCGCAAAAGGCATCTTGAAA
18892597 ATCTATGTAA
Statistics
Matches: 109, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
63 4 0.04
64 11 0.10
65 40 0.37
67 2 0.02
68 5 0.05
71 12 0.11
72 35 0.32
ACGTcount: A:0.54, C:0.14, G:0.22, T:0.09
Consensus pattern (65 bp):
AAAAAGAAAAGAAAAGAAAAAGAGGTCGAGATGAAAACCCGCAAAAGGCATCTTGAAACCCCCAA
Found at i:18892551 original size:13 final size:14
Alignment explanation
Indices: 18892533--18892561 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18892523 AACCCAAGGG
18892533 AAGAAAAGAA-AAA
1 AAGAAAAGAAGAAA
18892546 AAGAAAAGAAGAAA
1 AAGAAAAGAAGAAA
18892560 AA
1 AA
18892562 AGTCAAGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAGAAAAGAAGAAA
Found at i:18893400 original size:25 final size:23
Alignment explanation
Indices: 18893372--18893434 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 23
18893362 AAATTTCACC
*
18893372 AAAAAAATAGAAAAGAAGAGAAAAG
1 AAAAAAA-AGAAAA-AAGAAAAAAG
*
18893397 AAAAGATAAGGAAAAAAGAAAAAAG
1 AAAA-A-AAAGAAAAAAGAAAAAAG
18893422 AAAAAAAATGAAA
1 AAAAAAAA-GAAA
18893435 GGTTGAGATG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 2 0.06
24 5 0.16
25 17 0.53
26 6 0.19
27 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (23 bp):
AAAAAAAAGAAAAAAGAAAAAAG
Found at i:18894417 original size:42 final size:42
Alignment explanation
Indices: 18894327--18894831 Score: 542
Period size: 42 Copynumber: 11.9 Consensus size: 42
18894317 GGTCTAGTAA
*
18894327 ACCATCCAATCTTTTACCCCGATCTAGAGGGGCAGATTGAAGCC
1 ACCATCCAATCTTTTACCCC-ATCTAGA-GGGCAGATTGAAGCT
*
18894371 ACCATCCAATCTTTTACCCCAAT-AAGAGGGCAGATTGAAGCT
1 ACCATCCAATCTTTTACCCC-ATCTAGAGGGCAGATTGAAGCT
* * * * * *
18894413 ACCATCCGATCTTTTATCCCATCTAGAGGTCAAATTGCAGTT
1 ACCATCCAATCTTTTACCCCATCTAGAGGGCAGATTGAAGCT
* * * *
18894455 ACCATCCAATCTTTTACCCCATCCAAAGGGCAGGTTAAAGCT
1 ACCATCCAATCTTTTACCCCATCTAGAGGGCAGATTGAAGCT
* * * *
18894497 ACCATCTAATCTTTTACCCCATCTAGAGGGTAGACTGAAGTT
1 ACCATCCAATCTTTTACCCCATCTAGAGGGCAGATTGAAGCT
*
18894539 ACACCATCCAATCTTTTACCCCAT-TCAGAGGTCAGATTGAAGCT
1 --ACCATCCAATCTTTTACCCCATCT-AGAGGGCAGATTGAAGCT
18894583 ACCATCCAATCTTTTACCACCATCTAGAGGGGCAGATTGAAG-T
1 ACCATCCAATCTTTTACC-CCATCTAGA-GGGCAGATTGAAGCT
* * *
18894626 CATCATCCAATCTTTTACCCCATCCAGAGGGCAGATTAAAGCT
1 -ACCATCCAATCTTTTACCCCATCTAGAGGGCAGATTGAAGCT
* * * *
18894669 ATCATCCAATCTTTTACCCTCATCCAGAGGGGCAGATTAAAGCC
1 ACCATCCAATCTTTTACCC-CATCTAGA-GGGCAGATTGAAGCT
*
18894713 ACCATCCAATCTTTTACCCCATCTAGAGGGTAGATTGAAG--
1 ACCATCCAATCTTTTACCCCATCTAGAGGGCAGATTGAAGCT
* * *
18894753 -CCAT--GATATTTTACCCCTATCCAGATGGGCAGATTGAAG-T
1 ACCATCCAATCTTTTACCCC-ATCTAGA-GGGCAGATTGAAGCT
*
18894793 CACCATCCAATCTTTTAACCCCATCCAGAGGGGCAGATT
1 -ACCATCCAATCTTTT-ACCCCATCTAGA-GGGCAGATT
18894832 TAAATATGAA
Statistics
Matches: 393, Mismatches: 49, Indels: 38
0.82 0.10 0.08
Matches are distributed among these distances:
37 11 0.03
38 6 0.02
39 16 0.04
41 2 0.01
42 176 0.45
43 36 0.09
44 141 0.36
45 5 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (42 bp):
ACCATCCAATCTTTTACCCCATCTAGAGGGCAGATTGAAGCT
Found at i:18894586 original size:86 final size:85
Alignment explanation
Indices: 18894327--18894831 Score: 621
Period size: 86 Copynumber: 5.9 Consensus size: 85
18894317 GGTCTAGTAA
*
18894327 ACCATCCAATCTTTTACCCCGATCTAGAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCA
1 ACCATCCAATCTTTTACCCC-ATCTAGAGGGGCAGATTGAAGTCACCATCCAATCTTTTACCCC-
*
18894392 AT-AAGAGGGCAGATTGAAGCT
64 ATCCAGAGGGCAGATTGAAGCT
* * * * * *
18894413 ACCATCCGATCTTTTATCCCATCTAGA-GGTCAAATTGCAGTTACCATCCAATCTTTTACCCCAT
1 ACCATCCAATCTTTTACCCCATCTAGAGGGGCAGATTGAAGTCACCATCCAATCTTTTACCCCAT
* * *
18894477 CCAAAGGGCAGGTTAAAGCT
66 CCAGAGGGCAGATTGAAGCT
* * *
18894497 ACCATCTAATCTTTTACCCCATCTAGA-GGGTAGACTGAAGTTACACCATCCAATCTTTTACCCC
1 ACCATCCAATCTTTTACCCCATCTAGAGGGGCAGATTGAAG-T-CACCATCCAATCTTTTACCCC
* *
18894561 ATTCAGAGGTCAGATTGAAGCT
64 ATCCAGAGGGCAGATTGAAGCT
*
18894583 ACCATCCAATCTTTTACCACCATCTAGAGGGGCAGATTGAAGTCATCATCCAATCTTTTACCCCA
1 ACCATCCAATCTTTTACC-CCATCTAGAGGGGCAGATTGAAGTCACCATCCAATCTTTTACCCCA
*
18894648 TCCAGAGGGCAGATTAAAGCT
65 TCCAGAGGGCAGATTGAAGCT
* * * *
18894669 ATCATCCAATCTTTTACCCTCATCCAGAGGGGCAGATTAAAGCCACCATCCAATCTTTTACCCCA
1 ACCATCCAATCTTTTACCC-CATCTAGAGGGGCAGATTGAAGTCACCATCCAATCTTTTACCCCA
* *
18894734 TCTAGAGGGTAGATTGAAG--
65 TCCAGAGGGCAGATTGAAGCT
* * * *
18894753 -CCAT--GATATTTTACCCCTATCCAGATGGGCAGATTGAAGTCACCATCCAATCTTTTAACCCC
1 ACCATCCAATCTTTTACCCC-ATCTAGAGGGGCAGATTGAAGTCACCATCCAATCTTTT-ACCCC
18894815 ATCCAGAGGGGCAGATT
64 ATCCAGA-GGGCAGATT
18894832 TAAATATGAA
Statistics
Matches: 362, Mismatches: 48, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
80 1 0.00
81 45 0.12
82 11 0.03
83 13 0.04
84 77 0.21
85 9 0.02
86 185 0.51
87 10 0.03
88 11 0.03
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (85 bp):
ACCATCCAATCTTTTACCCCATCTAGAGGGGCAGATTGAAGTCACCATCCAATCTTTTACCCCAT
CCAGAGGGCAGATTGAAGCT
Found at i:18895698 original size:21 final size:21
Alignment explanation
Indices: 18895651--18895706 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 21
18895641 GTGTATTTGG
* *
18895651 TTTGTATTTGTTTA-ATTTCA
1 TTTGTATTTATTTATTTTTCA
18895671 -TTG--TTTATTTATTTTTCA
1 TTTGTATTTATTTATTTTTCA
18895689 TTTGTATTTATTATATTT
1 TTTGTATTTATT-TATTT
18895707 ATAAATAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 7 0.24
18 5 0.17
19 6 0.21
21 6 0.21
22 5 0.17
ACGTcount: A:0.20, C:0.04, G:0.07, T:0.70
Consensus pattern (21 bp):
TTTGTATTTATTTATTTTTCA
Found at i:18898180 original size:40 final size:40
Alignment explanation
Indices: 18898100--18898311 Score: 164
Period size: 40 Copynumber: 5.3 Consensus size: 40
18898090 GCTTTAAGGA
* * * **
18898100 TAAAAGATTGGATTG-CTTCAATCTGCCC-CATGGTCGGGG
1 TAAAAGATTAGATGGTCTTCAATCTACCCTC-TGGTTAGGG
* *
18898139 TAAGAGATCAGATGGTCTTCAATCTACCCTCTGGTTAGGG
1 TAAAAGATTAGATGGTCTTCAATCTACCCTCTGGTTAGGG
* * * * **
18898179 TAAAAGATTGGATTG-CTTCAATCTGGCCC-ATGGTCGGGG
1 TAAAAGATTAGATGGTCTTCAATCT-ACCCTCTGGTTAGGG
* * * *
18898218 TAAAAAATTAGATGGTCTTAAATCTACCTTCTGATTAGGG
1 TAAAAGATTAGATGGTCTTCAATCTACCCTCTGGTTAGGG
* * **
18898258 TAAAAGATTTGATGGTCTTCAATCTGCCC-CATGGTCGGGG
1 TAAAAGATTAGATGGTCTTCAATCTACCCTC-TGGTTAGGG
*
18898298 TAAAAGATTGGATG
1 TAAAAGATTAGATG
18898312 TGGTGACTTT
Statistics
Matches: 133, Mismatches: 34, Indels: 11
0.75 0.19 0.06
Matches are distributed among these distances:
39 42 0.32
40 90 0.68
41 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (40 bp):
TAAAAGATTAGATGGTCTTCAATCTACCCTCTGGTTAGGG
Found at i:18898209 original size:79 final size:79
Alignment explanation
Indices: 18898100--18898305 Score: 322
Period size: 79 Copynumber: 2.6 Consensus size: 79
18898090 GCTTTAAGGA
* *
18898100 TAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCAGATGGTCTTCAATCTA
1 TAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAAAGATCAGATGGTCTTAAATCTA
*
18898165 CCCTCTGGTTAGGG
66 CCCTCTGATTAGGG
* * *
18898179 TAAAAGATTGGATTGCTTCAATCTGGCCCATGGTCGGGGTAAAAAATTAGATGGTCTTAAATCTA
1 TAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAAAGATCAGATGGTCTTAAATCTA
*
18898244 CCTTCTGATTAGGG
66 CCCTCTGATTAGGG
* *
18898258 TAAAAGATTTGATGGTCTTCAATCTGCCCCATGGTCGGGGTAAAAGAT
1 TAAAAGATTGGATTG-CTTCAATCTGCCCCATGGTCGGGGTAAAAGAT
18898306 TGGATGTGGT
Statistics
Matches: 115, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
79 85 0.74
80 30 0.26
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (79 bp):
TAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAAAGATCAGATGGTCTTAAATCTA
CCCTCTGATTAGGG
Found at i:18901357 original size:24 final size:24
Alignment explanation
Indices: 18901321--18901391 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
18901311 GAGCACAACA
18901321 TAGTTTCTCGATCGGTGAATATCT
1 TAGTTTCTCGATCGGTGAATATCT
* *
18901345 TAGTTTCTTGATCGGTGAATATTT
1 TAGTTTCTCGATCGGTGAATATCT
18901369 TAGTTTCTCGATCGGTGAATATC
1 TAGTTTCTCGATCGGTGAATATC
18901392 CTATCTCGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.44
Consensus pattern (24 bp):
TAGTTTCTCGATCGGTGAATATCT
Found at i:18915585 original size:446 final size:447
Alignment explanation
Indices: 18914745--18915635 Score: 1487
Period size: 446 Copynumber: 2.0 Consensus size: 447
18914735 GGGAACCTGT
18914745 ACAAGAGCTTCAACTAGAGGTATATTAATATGTAATTGTTTTAAGGTAGATACAAACTTTTGATA
1 ACAAGAGCTTCAACTAGAGGTATATTAATATGTAATTGTTTTAAGGTAGATACAAACTTTTGATA
* *
18914810 ATCTCTGTCATGATCTTTCTCCTTGAATTGCTATGGGAATAATAAAGGTATGTTCATAGTGGGTT
66 ATCTCTGTCATGATCTTTCTCCTTGAATCGCTATGGGAATAATAAAGGTATGTTCACAGTGGGTT
* * * * *
18914875 GTTGTGATATGACCGGTTGTGTCGACATGGGTAGTTGCATCGACAACTTCGCAGGGCGAATAATG
131 GTTATGATATGACCGGTTCTGTCGACATGGGCAGTTACATCGACAACTTCGCAGGACG-A-AATG
* * *
18914940 CTCAGCATAGGTGTGACTACTAGTGTCTCCTCTTCATTTACTTCTGCTATGTCTTCTTTAGTTAG
194 CTCAGCATAGGTGTGACTACTAATGTCTCCTCTTCATTTACTTCTACTATGTCTTCTTCAGTTAG
* * *
18915005 GATGAATGCTCGACTTTTGTTCGTTTGCGTCAACAGGTGCTTGGTTGGAGCTACTACTTTGTTCG
259 GACGAATGCTCGACTTTTGTTCATTTGCGTCAACAAGTGCTTGGTTGGAGCTACTACTTTGTTCG
*
18915070 GCAGTTTGCTTTCCACTCCGCAATGTAATAACCTTGCAATGCTCCTTCCCCTTTTGATTTGGATT
324 GCAATTTGCTTTCCACTCCGCAATGTAATAACCTTGCAATGCTCCTTCCCCTTTTGATTTGGATT
*
18915135 TTTAGTGTCACTAGGCAAAGTACCTGGTGGTCGTGTGCTCATGCTAGAAGCTAATCTAC
389 TTTAGTGTCACTAGGCAAAGCACCTGGTGGTCGTGTGCTCATGCTAGAAGCTAATCTAC
18915194 ACAAGAGCTTCAACTAGAGGTATATTAATATGTAATTGTTTTAAGGTAGATACAAACTTTTGATA
1 ACAAGAGCTTCAACTAGAGGTATATTAATATGTAATTGTTTTAAGGTAGATACAAACTTTTGATA
* *
18915259 ATCTCTGTCATGATCTTTCTCCTTGAATCGCTGTGGGAATGATAAAGGTATGTTCACAGTGGGTT
66 ATCTCTGTCATGATCTTTCTCCTTGAATCGCTATGGGAATAATAAAGGTATGTTCACAGTGGGTT
*
18915324 GTTATGATATGACCGGTTCTGTCGACATGGGCAGTTACATCGATAACTTCGCAGGACG-AATGCT
131 GTTATGATATGACCGGTTCTGTCGACATGGGCAGTTACATCGACAACTTCGCAGGACGAAATGCT
**
18915388 TGGCATAGGTGTGACTACTAATGTCTCCTCTTCATTTACTTCTACTATGTCTTCTTCAGTTAGGA
196 CAGCATAGGTGTGACTACTAATGTCTCCTCTTCATTTACTTCTACTATGTCTTCTTCAGTTAGGA
* * * * * *
18915453 CGAATGCTCGGCTTTTGTTCATTTGTGTCGACAAGTGCTTGGTTGGAGCTGCTATTTTGTTCGGT
261 CGAATGCTCGACTTTTGTTCATTTGCGTCAACAAGTGCTTGGTTGGAGCTACTACTTTGTTCGGC
* * *
18915518 AATTTTCTTTCCACTCCGTAATGTAATAACCTTGCAATGCTCCTTTCCCTTTTGATTTGGATTTT
326 AATTTGCTTTCCACTCCGCAATGTAATAACCTTGCAATGCTCCTTCCCCTTTTGATTTGGATTTT
*
18915583 TAGTGTCACTGGGCAAAGCACCTGGTGGTCGTGTGCTCATGCTAGAAGCTAAT
391 TAGTGTCACTAGGCAAAGCACCTGGTGGTCGTGTGCTCATGCTAGAAGCTAAT
18915636 TGTCCTAGCT
Statistics
Matches: 412, Mismatches: 30, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
446 234 0.57
449 178 0.43
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (447 bp):
ACAAGAGCTTCAACTAGAGGTATATTAATATGTAATTGTTTTAAGGTAGATACAAACTTTTGATA
ATCTCTGTCATGATCTTTCTCCTTGAATCGCTATGGGAATAATAAAGGTATGTTCACAGTGGGTT
GTTATGATATGACCGGTTCTGTCGACATGGGCAGTTACATCGACAACTTCGCAGGACGAAATGCT
CAGCATAGGTGTGACTACTAATGTCTCCTCTTCATTTACTTCTACTATGTCTTCTTCAGTTAGGA
CGAATGCTCGACTTTTGTTCATTTGCGTCAACAAGTGCTTGGTTGGAGCTACTACTTTGTTCGGC
AATTTGCTTTCCACTCCGCAATGTAATAACCTTGCAATGCTCCTTCCCCTTTTGATTTGGATTTT
TAGTGTCACTAGGCAAAGCACCTGGTGGTCGTGTGCTCATGCTAGAAGCTAATCTAC
Found at i:18929319 original size:29 final size:26
Alignment explanation
Indices: 18929276--18929523 Score: 147
Period size: 29 Copynumber: 8.5 Consensus size: 26
18929266 TGCAGGGGGC
18929276 AAAATGGTAATTTTTGGTGAAATCGGGGTT
1 AAAATGG-AA-TTTT-G-GAAATCGGGGTT
* *
18929306 AAAAATAGAATTTTGGAAAGTTCGGGGGT
1 -AAAATGGAATTTTGGAAA--TCGGGGTT
18929335 AAAATGGTAATTTTTGATGAAATC-GGGTT
1 AAAATGG-AA-TTTTG--GAAATCGGGGTT
*
18929364 AAAATGGAATTTTGGAAAGTTCGGGGGT
1 AAAATGGAATTTTGGAAA--TCGGGGTT
* *
18929392 AAAATGGTAATTTTTTGTTAAATCAGGGTT
1 AAAATGG-AA--TTTTG-GAAATCGGGGTT
* *
18929422 AAAAATGGAACTTTGGAAAGTTCGGGGGT
1 -AAAATGGAATTTTGGAAA--TCGGGGTT
18929451 AAAATGGTAATTTTTGGAGAAATCGGGGTT
1 AAAATGG-AA-TTTT-G-GAAATCGGGGTT
* * *
18929481 AAAAATGGAATTTTAGAAAGTTTGGGGGT
1 -AAAATGGAATTTTGGAAA--TCGGGGTT
18929510 AAAATGGTAATTTT
1 AAAATGG-AATTTT
18929524 TGGACAGTCT
Statistics
Matches: 176, Mismatches: 17, Indels: 50
0.72 0.07 0.21
Matches are distributed among these distances:
25 4 0.02
27 18 0.10
28 38 0.22
29 50 0.28
30 29 0.16
31 26 0.15
32 11 0.06
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (26 bp):
AAAATGGAATTTTGGAAATCGGGGTT
Found at i:18929421 original size:116 final size:118
Alignment explanation
Indices: 18929270--18929526 Score: 412
Period size: 116 Copynumber: 2.2 Consensus size: 118
18929260 ATAAAATGCA
* * *
18929270 GGGGGCAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAAAGTTCGGGGGT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATAGAACTTTGGAAAGTTCGGGGGT
*
18929335 AAAATGGTAATTTTT-GATGAAATC-GGGTT-AAAATGGAATTTTGGAAAGTTC
66 AAAATGGTAATTTTTGGA-GAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTC
* * *
18929386 GGGGGTAAAATGGTAATTTTTTGTTAAATCAGGGTTAAAAATGGAACTTTGGAAAGTTCGGGGGT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATAGAACTTTGGAAAGTTCGGGGGT
*
18929451 AAAATGGTAATTTTTGGAGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTT
66 AAAATGGTAATTTTTGGAGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTC
18929504 GGGGGTAAAATGGTAATTTTTGG
1 GGGGGTAAAATGGTAATTTTTGG
18929527 ACAGTCTAGG
Statistics
Matches: 129, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
116 80 0.62
117 7 0.05
118 42 0.33
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33
Consensus pattern (118 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATAGAACTTTGGAAAGTTCGGGGGT
AAAATGGTAATTTTTGGAGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTC
Found at i:18929456 original size:59 final size:59
Alignment explanation
Indices: 18929270--18929526 Score: 410
Period size: 59 Copynumber: 4.4 Consensus size: 59
18929260 ATAAAATGCA
* *
18929270 GGGGGCAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
*
18929329 GGGGGTAAAATGGTAATTTTTGATGAAATC-GGGTT-AAAATGGAATTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
* * * *
18929386 GGGGGTAAAATGGTAATTTTTTGTTAAATCAGGGTTAAAAATGGAACTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
* * *
18929445 GGGGGTAAAATGGTAATTTTTGGAGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
18929504 GGGGGTAAAATGGTAATTTTTGG
1 GGGGGTAAAATGGTAATTTTTGG
18929527 ACAGTCTAGG
Statistics
Matches: 182, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
57 48 0.26
58 10 0.05
59 124 0.68
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33
Consensus pattern (59 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
Found at i:18929785 original size:162 final size:162
Alignment explanation
Indices: 18929593--18930096 Score: 812
Period size: 162 Copynumber: 3.1 Consensus size: 162
18929583 CACAGGCATC
** * *
18929593 CAAA-AGTCAAAGGACGAATTTGTAAATCTTGAAAAATTCTCGGGCCAATTTTGTAATTAAGCAG
1 CAAACAGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAGCAG
18929657 AAGTTGATTTGAAGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAACC
66 AAGTTGATTTGAAGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAACC
* * *
18929722 AAAAAGTGACACATGGCGGCCTCTGGTGCATT
131 AAAAAGTGACACGTGGCAGCCTCTGGTGCAGT
*
18929754 CAAACAGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTATAATTAAGCAG
1 CAAACAGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAGCAG
*
18929819 AAGTTGATTTGAAGATTAAATTAAAACAAATTAAAAATGACAGGGACCAGATACATAAATAAACC
66 AAGTTGATTTGAAGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAACC
18929884 AAAAAGTGACACGTGGCAGCCTCTGGTGCAGT
131 AAAAAGTGACACGTGGCAGCCTCTGGTGCAGT
*
18929916 CAAACAGTCAAAGGATTAATTTATAAATCTTAAAAAATTCTTGGGCCAATTTTGTAATTAAGCAG
1 CAAACAGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAGCAG
* * * * * * * *
18929981 AAGTTTATTTGAGGATTAAATTAAAACAAATTAAAAATAAAAAGGATTAAATGCATAAATAAACC
66 AAGTTGATTTGAAGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAACC
* *
18930046 AGAAAGTGACACGTGGCAGCCTCCGGTGCAGT
131 AAAAAGTGACACGTGGCAGCCTCTGGTGCAGT
*
18930078 CCAACAGTCAAAGGATTAA
1 CAAACAGTCAAAGGATTAA
18930097 ATTGAAAACC
Statistics
Matches: 319, Mismatches: 23, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
161 4 0.01
162 315 0.99
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.26
Consensus pattern (162 bp):
CAAACAGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAGCAG
AAGTTGATTTGAAGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAACC
AAAAAGTGACACGTGGCAGCCTCTGGTGCAGT
Found at i:18931739 original size:17 final size:16
Alignment explanation
Indices: 18931713--18931790 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 16
18931703 AATTTAATTT
18931713 ATAAATTTAAATTTATA
1 ATAAA-TTAAATTTATA
*
18931730 ATAAACTTAAATTTTTA
1 ATAAA-TTAAATTTATA
*
18931747 AGTAAATTTAAATTTAAA
1 A-TAAA-TTAAATTTATA
*
18931765 ATAAATTTAATTT-TA
1 ATAAATTAAATTTATA
18931780 A-AAATTAAATT
1 ATAAATTAAATT
18931791 ATCTCATTGG
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
14 9 0.17
15 2 0.04
16 7 0.13
17 20 0.38
18 14 0.27
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (16 bp):
ATAAATTAAATTTATA
Found at i:18932261 original size:76 final size:76
Alignment explanation
Indices: 18932135--18932760 Score: 1002
Period size: 76 Copynumber: 8.2 Consensus size: 76
18932125 GCTTTGTCTA
* *
18932135 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
18932200 GAAATGATGTT
66 GAAATGATGTT
* *
18932211 GCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
*
18932276 GAAATGACGTT
66 GAAATGATGTT
* *
18932287 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
18932352 GAAATGATGTT
66 GAAATGATGTT
* * *
18932363 GTTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
*
18932428 GAAATGACGTT
66 GAAATGATGTT
* *
18932439 GCTCTTACTTAAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
* *
18932504 GAAATGATCTG
66 GAAATGATGTT
* * *
18932515 GCTCTTACTTCAATTTCAGAGGTAAAGACTTGATATTCAGCT-TGACTTCAATTTCAAGAGGATA
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCT-ACTTCAATTTCAAGAGGATA
18932579 GGAAATGATGTT
65 GGAAATGATGTT
* * * *
18932591 GCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTTAATTTCAAGCGAATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
*
18932656 GAAATGACGTT
66 GAAATGATGTT
* *
18932667 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
*
18932732 GAAATGATCTT
66 GAAATGATGTT
18932743 GCTCTTACTTCAATTTCA
1 GCTCTTACTTCAATTTCA
18932761 AGAGGATAGG
Statistics
Matches: 503, Mismatches: 45, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
75 1 0.00
76 501 1.00
77 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Consensus pattern (76 bp):
GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
GAAATGATGTT
Found at i:18932755 original size:32 final size:34
Alignment explanation
Indices: 18932719--18932787 Score: 102
Period size: 38 Copynumber: 1.9 Consensus size: 34
18932709 TTACTTCAAT
18932719 TTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAA
1 TTCAAGAGGATAGGAAATGATCTTGCTCTTA--TC-A
18932756 TTTCAAGAGGATAGGAAATGATCTTGCTCTTA
1 -TTCAAGAGGATAGGAAATGATCTTGCTCTTA
18932788 CTTCAATTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.33
Consensus pattern (34 bp):
TTCAAGAGGATAGGAAATGATCTTGCTCTTATCA
Found at i:18932828 original size:152 final size:149
Alignment explanation
Indices: 18932135--18932836 Score: 756
Period size: 152 Copynumber: 4.6 Consensus size: 149
18932125 GCTTTGTCTA
*
18932135 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCT-TTACTTCAATTTCAAGAGGATA
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTG-TATCCAGCTCTTACTTCAATTTC-AGA-GAAA
* * * * * *
18932199 GGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATT
63 AGAAATGAT-ATCCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATT
*
18932264 TCAAGCGGATAGGAAATGA-CGTT
127 TCAAGAGGATAGGAAATGATC-TT
*
18932287 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCT-TTACTTCAATTTCAAGAGGATA
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTG-TATCCAGCTCTTACTTCAATTTC-AGA-GAAA
* * ** * * *
18932351 GGAAATGATGTTGTTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATT
63 AGAAATGAT-ATCCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATT
*
18932416 TCAAGCGGATAGGAAATGA-CGTT
127 TCAAGAGGATAGGAAATGATC-TT
* * *
18932439 GCTCTTACTTAAATTTCAGAGATAAAGACTTGTTATCCAACTC-TACTTCAATTTCAAGAGGATA
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTG-TATCCAGCTCTTACTTCAATTTC-AGA-GAAA
* * * * * *
18932503 GGAAATGATCTGGCTCTTACTTCAATTTCAGAGGTAAAGACTTGATATTCAGCTTGACTTCAATT
63 AGAAATGATAT-CCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATT
*
18932568 TCAAGAGGATAGGAAATGATGTT
127 TCAAGAGGATAGGAAATGATCTT
* * *
18932591 GCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTC-TACTTTAATTTCAAGCGAATA
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTG-TATCCAGCTCTTACTTCAATTTC-AGAGAA-A
* *
18932655 GGAAATGACGT-TGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAAT
63 AGAAATGA--TATCCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAAT
18932719 TTCAAGAGGATAGGAAATGATCTT
126 TTCAAGAGGATAGGAAATGATCTT
* ** **
18932743 GCTCTTACTTCAATTTCAAGAGGAT-AGGAAATG-ATCTTGCTCTTACTTCAATTTCAGAGACAA
1 GCTCTTACTTCAATTTC-AGA-GATAAAGACTTGTATCCAGCTCTTACTTCAATTTCAGAGA-AA
** * *
18932806 AGACCTGATATCCAATCCTACTTCAACTTCA
63 AGAAATGATATCC--TCTTACTTCAATTTCA
18932837 AGAGGATAGG
Statistics
Matches: 501, Mismatches: 36, Indels: 26
0.89 0.06 0.05
Matches are distributed among these distances:
149 1 0.00
150 2 0.00
151 19 0.04
152 466 0.93
153 9 0.02
154 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (149 bp):
GCTCTTACTTCAATTTCAGAGATAAAGACTTGTATCCAGCTCTTACTTCAATTTCAGAGAAAAGA
AATGATATCCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAA
GAGGATAGGAAATGATCTT
Found at i:18932874 original size:228 final size:227
Alignment explanation
Indices: 18932137--18932836 Score: 851
Period size: 228 Copynumber: 3.1 Consensus size: 227
18932127 TTTGTCTAGC
** * *
18932137 TCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGA
1 TCTTACTTCAATTTCAGAGATAAAGAAATG-TATCCAACTCTACTTCAATTTCAAGAGGATAGGA
*
18932202 AATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCA
65 AATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCA
* ** **
18932267 AGCGGATAGGAAATGA-CGTTGCTCTTACTTCAATTTCAGA-GATAAAGACTTGATATCCAGCTT
130 AGAGGATAGGAAATGATC-TTGCTCTTACTTCAATTTCAGAGGATAAAGAAATG--ATCTTGCTT
* * * ***
18932330 TACTTCAATTTCAAGAGGATAGGAAATGATGT-TGT
192 TACTTCAATTTCAAGAGGAAAAGAAATGATATCCAA
** *
18932365 TCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGA
1 TCTTACTTCAATTTCAGAGATAAAGAAATG-TATCCAACTCTACTTCAATTTCAAGAGGATAGGA
*
18932430 AATGACGTTGCTCTTACTTAAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCA
65 AATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCA
* ** * *
18932495 AGAGGATAGGAAATGATCTGGCTCTTACTTCAATTTCAGAGG-TAAAGACTTGATATTCAGCTTG
130 AGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGGATAAAGAAATGATCTT--GCTTT
* * * *
18932559 ACTTCAATTTCAAGAGGATAGGAAATGATGTTGC--
193 ACTTCAATTTCAAGAGGAAAAGAAATGAT-ATCCAA
** * * *
18932593 TCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTTAATTTCAAGCGAATAGGA
1 TCTTACTTCAATTTCAGAGATAAAGAAATG-TATCCAACTCTACTTCAATTTCAAGAGGATAGGA
* * *
18932658 AATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCA
65 AATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCA
*
18932723 AGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAAGAGGAT-AGGAAATGATCTTGCTCTT
130 AGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTC-AGAGGATAAAGAAATGATCTTGCT-TT
**
18932787 ACTTCAATTTC-AGA-GACAAAGACCTGATATCCAA
193 ACTTCAATTTCAAGAGGA-AAAGAAATGATATCCAA
* *
18932821 TCCTACTTCAACTTCA
1 TCTTACTTCAATTTCA
18932837 AGAGGATAGG
Statistics
Matches: 426, Mismatches: 34, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
226 6 0.01
227 13 0.03
228 389 0.91
229 17 0.04
230 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (227 bp):
TCTTACTTCAATTTCAGAGATAAAGAAATGTATCCAACTCTACTTCAATTTCAAGAGGATAGGAA
ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAA
GAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGGATAAAGAAATGATCTTGCTTTACT
TCAATTTCAAGAGGAAAAGAAATGATATCCAA
Found at i:18932932 original size:151 final size:151
Alignment explanation
Indices: 18932748--18933082 Score: 557
Period size: 151 Copynumber: 2.2 Consensus size: 151
18932738 ATCTTGCTCT
18932748 TACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGACAAAGACCTG
1 TACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGACAAAGACCTG
18932813 ATATCCAATCCTACTTCAACTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAG
66 ATATCCAAT-CTACTTCAACTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAG
18932878 ATAAAGACGT-GTTATCC-ACTC
130 ATAAAGACGTAG-TATCCAACTC
* *
18932899 TACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTG
1 TACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGACAAAGACCTG
* * * *
18932964 TTATCCACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGTTCTTACTTCAATTTCAGAGA
66 ATATCCAATCTACTTCAACTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGA
* *
18933029 TAAAGACTTAGTATCCAACTT
131 TAAAGACGTAGTATCCAACTC
*
18933050 TACTTCAATTTCAAGAGGATAGGAAAGGATCTT
1 TACTTCAATTTCAAGAGGATAGGAAATGATCTT
18933083 AGTACGGTCT
Statistics
Matches: 173, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
150 67 0.39
151 106 0.61
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (151 bp):
TACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGACAAAGACCTG
ATATCCAATCTACTTCAACTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGA
TAAAGACGTAGTATCCAACTC
Found at i:18932939 original size:75 final size:75
Alignment explanation
Indices: 18932748--18933082 Score: 537
Period size: 75 Copynumber: 4.4 Consensus size: 75
18932738 ATCTTGCTCT
* * *
18932748 TACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGACAAAGACCTG
1 TACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTG
* *
18932813 ATATCCAATCC
66 TTATCCACT-C
*
18932824 TACTTCAACTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTG
1 TACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTG
18932889 TTATCCACTC
66 TTATCCACTC
*
18932899 TACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTG
1 TACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTG
18932964 TTATCCACTC
66 TTATCCACTC
* *
18932974 TACTTCAATTTCAAGAGGATAGGAAAAGATCTTGTTCTTACTTCAATTTCAGAGATAAAGACTTA
1 TACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGT-
*
18933039 G-TATCCAACTT
65 GTTATCC-ACTC
*
18933050 TACTTCAATTTCAAGAGGATAGGAAAGGATCTT
1 TACTTCAATTTCAAGAGGATAGGAAAAGATCTT
18933083 AGTACGGTCT
Statistics
Matches: 244, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
75 140 0.57
76 104 0.43
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (75 bp):
TACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTG
TTATCCACTC
Found at i:18941038 original size:38 final size:38
Alignment explanation
Indices: 18940976--18941374 Score: 119
Period size: 38 Copynumber: 10.7 Consensus size: 38
18940966 ATAAGCAATA
* * *
18940976 TAAGTCAACCTTTATTAAAGGGTTGGAAAAGATCTAGTC
1 TAAGGCAACCTTTA-AAAAGGGTTGGAAAAGATATAGTC
* * *
18941015 -AAGGCCAACCTTTAAAAAGGGTTGGGATAGATATTGTC
1 TAAGG-CAACCTTTAAAAAGGGTTGGAAAAGATATAGTC
* * ***
18941053 TAAGGCAACCTTTTAAGAAA-GGTTGGGATAGA-CCCGTC
1 TAAGGCAACC-TTTAA-AAAGGGTTGGAAAAGATATAGTC
* * * ** * *
18941091 TAAGGCAACC-TTAAAAA-GATTGGGATAGACCTTGTT
1 TAAGGCAACCTTTAAAAAGGGTTGGAAAAGATATAGTC
* * * ** * *
18941127 TAAGGCAACCTTTAAAAAAGATTAGG-ATAGACCTTGTT
1 TAAGGCAACCTTTAAAAAGGGTT-GGAAAAGATATAGTC
* * * **
18941165 TAAGGAAACC-TTAAAAA-GGTT-GAGATAGACATTCTC
1 TAAGGCAACCTTTAAAAAGGGTTGGA-AAAGATATAGTC
* * * *
18941201 TAAGGCAACCTTTAAAAAAGGTTGGGATAA-ATCTTGTC
1 TAAGGCAACCTTTAAAAAGGGTT-GGAAAAGATATAGTC
* * * * ** *
18941239 TATGGCAA-CTTTAAAAAAGGTTGGGATAGACCTTGTC
1 TAAGGCAACCTTTAAAAAGGGTTGGAAAAGATATAGTC
* * * ***
18941276 CAAGGCAA-CTTTAAAAA-GGTTGGGATAGA-CCCGTC
1 TAAGGCAACCTTTAAAAAGGGTTGGAAAAGATATAGTC
* * * **
18941311 TAAAGCAACC-TTAAAAA-GGTTGGGATAGACCTAGTC
1 TAAGGCAACCTTTAAAAAGGGTTGGAAAAGATATAGTC
* * *
18941347 CAAGGCAACCTATAAAAAAAGGTTGGAA
1 TAAGGCAACCT-TTAAAAAGGGTTGGAA
18941375 TTGACCCATC
Statistics
Matches: 299, Mismatches: 41, Indels: 40
0.79 0.11 0.11
Matches are distributed among these distances:
34 1 0.00
35 43 0.14
36 66 0.22
37 57 0.19
38 87 0.29
39 40 0.13
40 5 0.02
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26
Consensus pattern (38 bp):
TAAGGCAACCTTTAAAAAGGGTTGGAAAAGATATAGTC
Found at i:18941135 original size:74 final size:73
Alignment explanation
Indices: 18941015--18941625 Score: 648
Period size: 74 Copynumber: 8.4 Consensus size: 73
18941005 AGATCTAGTC
** *
18941015 AAGGCCAACCTTTAAAAAGGGTTGGGATAGATATTGTCTAAGGCAACCTTTTAAGAAAGGTTGGG
1 AAGG-CAACC-TTAAAAA-GGTTGGGATAGACCTTGTCTAAGGCAACC-TTTAAAAAAGGTTGGG
*
18941080 ATAGACCCGTCT
62 ATAGACCTGTCT
* * * *
18941092 AAGGCAACCTTAAAAAGATTGGGATAGACCTTGTTTAAGGCAACCTTTAAAAAAGATTAGGATAG
1 AAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAG
*
18941157 ACCTTGTTT
66 ACC-TGTCT
* * * * *
18941166 AAGGAAACCTTAAAAAGGTTGAGATAGACATTCTCTAAGGCAACCTTTAAAAAAGGTTGGGATAA
1 AAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAG
*
18941231 ATCTTGTCT
66 A-CCTGTCT
* * *
18941240 ATGGCAACTTTAAAAAAGGTTGGGATAGACCTTGTCCAAGGCAA-CTTT-AAAAAGGTTGGGATA
1 AAGGCAACCTT-AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATA
*
18941303 GACCCGTCT
65 GACCTGTCT
* * * * * *
18941312 AAAGCAACCTTAAAAAGGTTGGGATAGACCTAGTCCAAGGCAACCTATAAAAAAAGGTTGGAATT
1 AAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCT-TTAAAAAAGGTTGGGATA
**
18941377 GACCCATCT
65 GACCTGTCT
* * * * * * *
18941386 AAGGAAACCCTAAAAAGATTGGGATAGA-CTTGTCTAAGTCAAACTTTAAAAAAGGTTAGTATAG
1 AAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAG
*
18941450 ACCTATCT
66 ACCTGTCT
* ** *
18941458 AAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTTTAAAAGCGGTTCGGATAG
1 AAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAG
18941523 ACCTGTCT
66 ACCTGTCT
* * * *
18941531 AAGGCATCCTTAAAAAGGTTTGGG-TATACAC--GTCTAAAGCAACC-TTAAAAAA-GTTATGG-
1 AAGGCAACCTTAAAAAGG-TTGGGATAGAC-CTTGTCTAAGGCAACCTTTAAAAAAGGTT-GGGA
18941590 TAGA-CTGTCT
63 TAGACCTGTCT
* *
18941600 AAGGCGACCTTAAAAAGGTTTGGATA
1 AAGGCAACCTTAAAAAGGTTGGGATA
18941626 AAGTCGTTTA
Statistics
Matches: 453, Mismatches: 70, Indels: 30
0.82 0.13 0.05
Matches are distributed among these distances:
68 4 0.01
69 24 0.05
70 7 0.02
71 39 0.09
72 75 0.17
73 107 0.24
74 152 0.34
75 36 0.08
76 5 0.01
77 4 0.01
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (73 bp):
AAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAG
ACCTGTCT
Found at i:18941138 original size:36 final size:36
Alignment explanation
Indices: 18941015--18941625 Score: 553
Period size: 35 Copynumber: 16.7 Consensus size: 36
18941005 AGATCTAGTC
**
18941015 AAGGCCAACCTTTAAAAAGGGTTGGGATAGATATTGTCT
1 AAGG-CAACC-TTAAAAA-GGTTGGGATAGACCTTGTCT
*
18941054 AAGGCAACCTTTTAAGAAAGGTTGGGATAGACC-CGTCT
1 AAGGCAACC--TTAA-AAAGGTTGGGATAGACCTTGTCT
* *
18941092 AAGGCAACCTTAAAAAGATTGGGATAGACCTTGTTT
1 AAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCT
* * *
18941128 AAGGCAACCTTTAAAAAAGATTAGGATAGACCTTGTTT
1 AAGGCAACC-TT-AAAAAGGTTGGGATAGACCTTGTCT
* * * *
18941166 AAGGAAACCTTAAAAAGGTTGAGATAGACATTCTCT
1 AAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCT
* *
18941202 AAGGCAACCTTTAAAAAAGGTTGGGATAAATCTTGTCT
1 AAGGCAACC-TT-AAAAAGGTTGGGATAGACCTTGTCT
* * *
18941240 ATGGCAACTTTAAAAAAGGTTGGGATAGACCTTGTCC
1 AAGGCAACCTT-AAAAAGGTTGGGATAGACCTTGTCT
* *
18941277 AAGGCAACTTTAAAAAGGTTGGGATAGACC-CGTCT
1 AAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCT
* * *
18941312 AAAGCAACCTTAAAAAGGTTGGGATAGACCTAGTCC
1 AAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCT
* * **
18941348 AAGGCAACCTATAAAAAAAGGTTGGAATTGACC-CATCT
1 AAGGCAACCT-T--AAAAAGGTTGGGATAGACCTTGTCT
* * *
18941386 AAGGAAACCCTAAAAAGATTGGGATAGA-CTTGTCT
1 AAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCT
* * * * *
18941421 AAGTCAAACTTTAAAAAAGGTTAGTATAGACC-TATCT
1 AAGGC-AACCTT-AAAAAGGTTGGGATAGACCTTGTCT
18941458 AAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCT
1 AAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCT
* * *
18941494 AAAGCAACCTTTAAAAGCGGTTCGGATAGACC-TGTCT
1 AAGGCAACC-TTAAAA-AGGTTGGGATAGACCTTGTCT
* *
18941531 AAGGCATCCTTAAAAAGGTTTGGG-TATACAC--GTCT
1 AAGGCAACCTTAAAAAGG-TTGGGATAGAC-CTTGTCT
* * *
18941566 AAAGCAACCTTAAAAAAGTTATGG-TAGA-C-TGTCT
1 AAGGCAACCTTAAAAAGGTT-GGGATAGACCTTGTCT
* *
18941600 AAGGCGACCTTAAAAAGGTTTGGATA
1 AAGGCAACCTTAAAAAGGTTGGGATA
18941626 AAGTCGTTTA
Statistics
Matches: 475, Mismatches: 74, Indels: 51
0.79 0.12 0.09
Matches are distributed among these distances:
33 4 0.01
34 26 0.05
35 114 0.24
36 106 0.22
37 83 0.17
38 101 0.21
39 38 0.08
40 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (36 bp):
AAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCT
Found at i:18941363 original size:146 final size:145
Alignment explanation
Indices: 18941015--18941625 Score: 662
Period size: 146 Copynumber: 4.2 Consensus size: 145
18941005 AGATCTAGTC
* *
18941015 AAGGCCAACCTTTAAAAAGGGTTGGGATAGATATTGTCTAAGGCAACCTTTTAAGAAAGGTTGGG
1 AAGG-CAACC-TTAAAAA-GGTTGGGATAGACATTGTCTAAGGCAACC-TTTAAAAAAGGTTGGG
*
18941080 ATAGACCCGTCTAAGGCAACCTTAAAAAGATTGGGATAGACCTTGTTTAAGGCAACCTTTAAAAA
62 ATAGACCCGTCTAAGGCAACCTTAAAAAGATTGGGATAGACCTTGTCTAAGGCAA-CTTTAAAAA
* *
18941145 AGATTAGGATAGACCTTGTTT
126 AGGTTAGGATAGACC-TGTCT
* * * *
18941166 AAGGAAACCTTAAAAAGGTTGAGATAGACATTCTCTAAGGCAACCTTTAAAAAAGGTTGGGATAA
1 AAGGCAACCTTAAAAAGGTTGGGATAGACATTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAG
** * * * *
18941231 ATCTTGTCTATGGCAACTTTAAAAAAGGTTGGGATAGACCTTGTCCAAGGCAACTTT-AAAAAGG
66 A-CCCGTCTAAGGCAACCTT-AAAAAGATTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAAGG
* *
18941295 TTGGGATAGACCCGTCT
129 TTAGGATAGACCTGTCT
* * * * * * *
18941312 AAAGCAACCTTAAAAAGGTTGGGATAGACCTAGTCCAAGGCAACCTATAAAAAAAGGTTGGAATT
1 AAGGCAACCTTAAAAAGGTTGGGATAGACATTGTCTAAGGCAACCT-TTAAAAAAGGTTGGGATA
* * * *
18941377 GACCCATCTAAGGAAACCCTAAAAAGATTGGGATAGA-CTTGTCTAAGTCAAACTTTAAAAAAGG
65 GACCCGTCTAAGGCAACCTTAAAAAGATTGGGATAGACCTTGTCTAAGGC-AACTTTAAAAAAGG
* *
18941441 TTAGTATAGACCTATCT
129 TTAGGATAGACCTGTCT
* * ** *
18941458 AAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTTTAAAAGCGGTTCGGATAG
1 AAGGCAACCTTAAAAAGGTTGGGATAGACATTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAG
* * * * * *
18941523 ACCTGTCTAAGGCATCCTTAAAAAGGTTTGGG-TATACAC--GTCTAAAGCAACCTTAAAAAA-G
66 ACCCGTCTAAGGCAACCTTAAAAA-GATTGGGATAGAC-CTTGTCTAAGGCAACTTTAAAAAAGG
18941584 TTATGG-TAGA-CTGTCT
129 TTA-GGATAGACCTGTCT
* *
18941600 AAGGCGACCTTAAAAAGGTTTGGATA
1 AAGGCAACCTTAAAAAGGTTGGGATA
18941626 AAGTCGTTTA
Statistics
Matches: 385, Mismatches: 66, Indels: 27
0.81 0.14 0.06
Matches are distributed among these distances:
142 29 0.08
143 8 0.02
144 22 0.06
145 64 0.17
146 121 0.31
147 53 0.14
148 44 0.11
149 36 0.09
150 4 0.01
151 4 0.01
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (145 bp):
AAGGCAACCTTAAAAAGGTTGGGATAGACATTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAG
ACCCGTCTAAGGCAACCTTAAAAAGATTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAAGGTT
AGGATAGACCTGTCT
Found at i:18941648 original size:69 final size:70
Alignment explanation
Indices: 18941447--18941649 Score: 164
Period size: 69 Copynumber: 2.9 Consensus size: 70
18941437 AAGGTTAGTA
* * * * **
18941447 TAGACCTATCTAAGGCAACCTTAAAAAGGTTGGGATAGAC-CTTGTCTAAAGCAACCTTTAAAAG
1 TAGACCTGTCTAAGGCATCCTTAAAAAGGTTTGGATAAACAC--GTCTAAAGCAA-AATTAAAA-
** *
18941511 CGGTT-CGG
62 AAGTTATGG
* * **
18941519 ATAGACCTGTCTAAGGCATCCTTAAAAAGGTTTGGGTATACACGTCTAAAGCAACCTTAAAAAAG
1 -TAGACCTGTCTAAGGCATCCTTAAAAAGGTTTGGATAAACACGTCTAAAGCAAAATTAAAAAAG
18941584 TTATGG
65 TTATGG
** *
18941590 TAGA-CTGTCTAAGGCGA-CCTTAAAAAGGTTTGGATAAAGTCGTTTATAA-CAAAATTAAAA
1 TAGACCTGTCTAAGGC-ATCCTTAAAAAGGTTTGGATAAACACGTCTA-AAGCAAAATTAAAA
18941650 GGTTGGGATA
Statistics
Matches: 110, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
69 44 0.40
70 10 0.09
71 9 0.08
72 11 0.10
73 35 0.32
74 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (70 bp):
TAGACCTGTCTAAGGCATCCTTAAAAAGGTTTGGATAAACACGTCTAAAGCAAAATTAAAAAAGT
TATGG
Found at i:18942506 original size:16 final size:16
Alignment explanation
Indices: 18942485--18942528 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
18942475 GATCTGGGGA
18942485 AAAACAAAAATAAAAG
1 AAAACAAAAATAAAAG
*
18942501 AAAACAAAATTAAAAG
1 AAAACAAAAATAAAAG
18942517 AAATA-AAAAATA
1 AAA-ACAAAAATA
18942529 GGAGTGTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 24 0.96
17 1 0.04
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.11
Consensus pattern (16 bp):
AAAACAAAAATAAAAG
Found at i:18966822 original size:59 final size:57
Alignment explanation
Indices: 18966747--18966858 Score: 161
Period size: 59 Copynumber: 1.9 Consensus size: 57
18966737 ATCAATTTAA
18966747 TATTAAATTAATATAATACTTATCAAGAAAAATATAAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATATAATACTTATCAA-AAAAATA-AAGATTAAATTTAATATTAAATCT
* * * * *
18966806 TATTGAATTAATATAATATTTATCTACAAAATAAATATTAAATTTAATATTAA
1 TATTAAATTAATATAATACTTATCAAAAAAATAAAGATTAAATTTAATATTAA
18966859 GACAATCACT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
57 19 0.40
58 6 0.12
59 23 0.48
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (57 bp):
TATTAAATTAATATAATACTTATCAAAAAAATAAAGATTAAATTTAATATTAAATCT
Found at i:18978670 original size:7 final size:7
Alignment explanation
Indices: 18978660--18978696 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
18978650 CTTGAATCTT
18978660 AAACCTC
1 AAACCTC
18978667 AAACCTC
1 AAACCTC
18978674 AAACCTC
1 AAACCTC
18978681 AAACCTC
1 AAACCTC
18978688 AAACCTC
1 AAACCTC
18978695 AA
1 AA
18978697 TGTTTAAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.14
Consensus pattern (7 bp):
AAACCTC
Found at i:18980650 original size:35 final size:37
Alignment explanation
Indices: 18980575--18980696 Score: 103
Period size: 36 Copynumber: 3.4 Consensus size: 37
18980565 GATAGACCTG
** * * *
18980575 TTTAAGGTAATCATAAAAAAAT-T-GAGATTGATTTTG
1 TTTAAGGTAATC-TTTAAAAATGTGGAGATAGATTGTA
*
18980611 TTTAAGGTAATC-TTAAAAATGTGGGGATAGA-TGTA
1 TTTAAGGTAATCTTTAAAAATGTGGAGATAGATTGTA
* * *
18980646 TTTAAAGTAA-CTTTAAAAATGTTGAGATAGATTTTA
1 TTTAAGGTAATCTTTAAAAATGTGGAGATAGATTGTA
*
18980682 TTTAAGATAAT-TTTA
1 TTTAAGGTAATCTTTA
18980697 GATTTTGTTT
Statistics
Matches: 69, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
34 7 0.10
35 29 0.42
36 33 0.48
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.40
Consensus pattern (37 bp):
TTTAAGGTAATCTTTAAAAATGTGGAGATAGATTGTA
Found at i:18980699 original size:22 final size:22
Alignment explanation
Indices: 18980673--18980715 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
18980663 AATGTTGAGA
18980673 TAGATTTTATTTAAGATAATTT
1 TAGATTTTATTTAAGATAATTT
* *
18980695 TAGATTTTGTTTAAGGTAATT
1 TAGATTTTATTTAAGATAATT
18980716 ATAAAAAGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (22 bp):
TAGATTTTATTTAAGATAATTT
Found at i:18980763 original size:93 final size:93
Alignment explanation
Indices: 18980604--18980780 Score: 250
Period size: 93 Copynumber: 1.9 Consensus size: 93
18980594 AATTGAGATT
* * *
18980604 GATTTTGTTTAAGGTAATCTTAAAAATGTGGGGATAGATGTATTTAAAGTAACTTTAAAAATGTT
1 GATTTTGTTTAAGGTAATCTTAAAAAGGTGGGGATAGATGTATTTAAAGCAACTTTAAAAAAGTT
18980669 GAGATAGATTTTATTTAAGATAATTTTA
66 GAGATAGATTTTATTTAAGATAATTTTA
* * * *
18980697 GATTTTGTTTAAGGTAAT-TATAAAAAGGTTGGGATAAGCT-TATTTAATGCAATTTTAAAAAAG
1 GATTTTGTTTAAGGTAATCT-TAAAAAGGTGGGGAT-AGATGTATTTAAAGCAACTTTAAAAAAG
*
18980760 TTGAGATAGATTTTGTTTAAG
64 TTGAGATAGATTTTATTTAAG
18980781 GTATTCTTGA
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 1 0.01
93 70 0.95
94 3 0.04
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.41
Consensus pattern (93 bp):
GATTTTGTTTAAGGTAATCTTAAAAAGGTGGGGATAGATGTATTTAAAGCAACTTTAAAAAAGTT
GAGATAGATTTTATTTAAGATAATTTTA
Found at i:18980779 original size:36 final size:36
Alignment explanation
Indices: 18980695--18980950 Score: 189
Period size: 36 Copynumber: 7.1 Consensus size: 36
18980685 AAGATAATTT
* *
18980695 TAGATTTTGTTTAAGGTAATTATAAAAAGGTTGGGA
1 TAGATTTTGTTTAAGGTAATTTTAAAAAGGTTGAGA
** * * * *
18980731 TA-AGCTTATTTAATGCAATTTTAAAAAAGTTGAGA
1 TAGATTTTGTTTAAGGTAATTTTAAAAAGGTTGAGA
* * *
18980766 TAGATTTTGTTTAAGGT-ATTCTTGAAAAGGTTGGGG
1 TAGATTTTGTTTAAGGTAATT-TTAAAAAGGTTGAGA
** * *
18980802 TAGGGTTTGTTTAAGGTAATTTTTAAAAAGGTTGGGG
1 TAGATTTTGTTTAAGGTAA-TTTTAAAAAGGTTGAGA
* * * * *
18980839 TTGTTTTTGTTTAAAGTAACTTTAAAAATGTTTG-GA
1 TAGATTTTGTTTAAGGTAATTTTAAAAA-GGTTGAGA
* * * *
18980875 TAAATTTTGTCTAAGGCAATTTT-AAAAGGATTGAGT
1 TAGATTTTGTTTAAGGTAATTTTAAAAAGG-TTGAGA
* * *
18980911 TAGATTTTGTTTGAGGTAACTTTCAAAAA-CTTGAGA
1 TAGATTTTGTTTAAGGTAA-TTTTAAAAAGGTTGAGA
18980947 TAGA
1 TAGA
18980951 CCTATCTAAG
Statistics
Matches: 168, Mismatches: 43, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
34 1 0.01
35 37 0.22
36 87 0.52
37 37 0.22
38 6 0.04
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.41
Consensus pattern (36 bp):
TAGATTTTGTTTAAGGTAATTTTAAAAAGGTTGAGA
Found at i:18980920 original size:109 final size:107
Alignment explanation
Indices: 18980694--18980939 Score: 239
Period size: 109 Copynumber: 2.3 Consensus size: 107
18980684 TAAGATAATT
* * *
18980694 TTAGATTTTGTTTAAGGTAATTATAAAAAGGTTGGGATAAGCTTATTTAATGCAATTTTAAAAAA
1 TTAGATTTTGTTTAAGGTAATTTTAAAAAGGTTGGGATAAGCTTATTTAAAGCAACTTTAAAAAA
* * * *
18980759 GTTGAGATAGATTTTGTTTAAGGTATTCTTGAAAAGGTTGGG
66 GTTGAGATAAATTTTGTCTAAGGAATTCTTGAAAAGGTTGAG
* ** * * * * *
18980801 GTAGGGTTTGTTTAAGGTAATTTTTAAAAAGGTTGGGGT-TGTTTTTGTTTAAAGTAACTTTAAA
1 TTAGATTTTGTTTAAGGTAA-TTTTAAAAAGGTTGGGATAAG--CTTATTTAAAGCAACTTTAAA
*
18980865 AATGTTTG-GATAAATTTTGTCTAAGGCAATT-TT-AAAAGGATTGAG
63 AAAG-TTGAGATAAATTTTGTCTAAGG-AATTCTTGAAAAGG-TTGAG
* *
18980910 TTAGATTTTGTTTGAGGTAACTTTCAAAAA
1 TTAGATTTTGTTTAAGGTAA-TTTTAAAAA
18980940 CTTGAGATAG
Statistics
Matches: 111, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
107 18 0.16
108 22 0.20
109 65 0.59
110 6 0.05
ACGTcount: A:0.33, C:0.03, G:0.22, T:0.41
Consensus pattern (107 bp):
TTAGATTTTGTTTAAGGTAATTTTAAAAAGGTTGGGATAAGCTTATTTAAAGCAACTTTAAAAAA
GTTGAGATAAATTTTGTCTAAGGAATTCTTGAAAAGGTTGAG
Found at i:18981725 original size:13 final size:13
Alignment explanation
Indices: 18981689--18981733 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
18981679 TATTTATGGT
*
18981689 TTTAAGATTTAAGG
1 TTTAAG-TTAAAGG
18981703 TTATAAGTTAAAGG
1 TT-TAAGTTAAAGG
*
18981717 TTTATGTTAAAGG
1 TTTAAGTTAAAGG
18981730 TTTA
1 TTTA
18981734 GAATATTAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 14 0.50
14 10 0.36
15 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (13 bp):
TTTAAGTTAAAGG
Found at i:18982620 original size:126 final size:126
Alignment explanation
Indices: 18982393--18982632 Score: 284
Period size: 126 Copynumber: 1.9 Consensus size: 126
18982383 AAGTGTCTGC
** ** * * * * *
18982393 ATAGTGTTGGGTAAAGTCGACTCTTATTTAAGTGTTGTCTTAAGCATGCATATCTCAATCCTTAT
1 ATAGTGTTGGACAAAGTAAACTCTTATTTAAGGGTTGTATTAAGCATGCAAATCACAACCCTTAT
* * * * * *
18982458 ATAAAGAGTTTATCAAAGCGTTTGTCAGCAACTTTATCTCAACACTTAGAAAAGTATCGAA
66 ACAAAGAGTTGACCAAAACGTATGTCAGCAACTTTATCCCAACACTTAGAAAAGTATCGAA
* *
18982519 ATAGTGTTGGACAAAGTAAACTCTTATTTAGGGGTTGTATTAGGCATGCAAATCACAACCCTTAT
1 ATAGTGTTGGACAAAGTAAACTCTTATTTAAGGGTTGTATTAAGCATGCAAATCACAACCCTTAT
* * *
18982584 ACAAAGAGTTGACCAAAACGTATG-CTGATAAGTTTATCCCAACACTTAG
66 ACAAAGAGTTGACCAAAACGTATGTCAG-CAACTTTATCCCAACACTTAG
18982633 GAGGAAAGTG
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
125 2 0.02
126 91 0.98
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (126 bp):
ATAGTGTTGGACAAAGTAAACTCTTATTTAAGGGTTGTATTAAGCATGCAAATCACAACCCTTAT
ACAAAGAGTTGACCAAAACGTATGTCAGCAACTTTATCCCAACACTTAGAAAAGTATCGAA
Found at i:18985430 original size:17 final size:16
Alignment explanation
Indices: 18985408--18985462 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 16
18985398 AATAATTTAA
*
18985408 AAAATTATAAATCTATT
1 AAAATTATAAA-ATATT
18985425 AAAATTATTAAAATATT
1 AAAATTA-TAAAATATT
18985442 AAAATTATAGAAA-ATT
1 AAAATTATA-AAATATT
18985458 AAAAT
1 AAAAT
18985463 ATGTCAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
16 10 0.29
17 21 0.60
18 4 0.11
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (16 bp):
AAAATTATAAAATATT
Found at i:18985443 original size:8 final size:8
Alignment explanation
Indices: 18985393--18985464 Score: 51
Period size: 8 Copynumber: 8.5 Consensus size: 8
18985383 ATATATTGTC
18985393 ATATTAATA
1 ATATTAA-A
18985402 AT-TTAAA
1 ATATTAAA
*
18985409 AAATTATAA
1 ATATTA-AA
18985418 ATCTATTAAA
1 A--TATTAAA
18985428 ATTATTAAA
1 A-TATTAAA
18985437 ATATTAAA
1 ATATTAAA
18985445 AT-TATAGAA
1 ATAT-TA-AA
18985454 A-ATTAAA
1 ATATTAAA
18985461 ATAT
1 ATAT
18985465 GTCAAAAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 17
0.72 0.04 0.24
Matches are distributed among these distances:
7 6 0.12
8 22 0.42
9 17 0.33
10 3 0.06
11 4 0.08
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (8 bp):
ATATTAAA
Found at i:18985463 original size:24 final size:25
Alignment explanation
Indices: 18985431--18985483 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 25
18985421 TATTAAAATT
18985431 ATTAAAATAT-T-AAAATTATAGAAA
1 ATTAAAATATGTAAAAATTATA-AAA
18985455 ATTAAAATATGTCAAAAATTATAAAA
1 ATTAAAATATGT-AAAAATTATAAAA
18985481 ATT
1 ATT
18985484 TATTAAGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 10 0.38
25 1 0.04
26 6 0.23
27 9 0.35
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (25 bp):
ATTAAAATATGTAAAAATTATAAAA
Found at i:18985482 original size:9 final size:9
Alignment explanation
Indices: 18985407--18985510 Score: 58
Period size: 9 Copynumber: 11.6 Consensus size: 9
18985397 TAATAATTTA
18985407 AAAAATTAT
1 AAAAATTAT
18985416 --AAATCTAT
1 AAAAAT-TAT
*
18985424 TAAAATTAT
1 AAAAATTAT
*
18985433 TAAAA-TAT
1 AAAAATTAT
*
18985441 TAAAATTAT
1 AAAAATTAT
18985450 AGAAAATTA-
1 A-AAAATTAT
* *
18985459 AAATATGT-C
1 AAAAAT-TAT
18985468 AAAAATTAT
1 AAAAATTAT
18985477 AAAAATTTATT
1 AAAAA-TTA-T
*
18985488 AAGAATT-T
1 AAAAATTAT
18985496 ATAAAATTAT
1 A-AAAATTAT
18985506 AAAAA
1 AAAAA
18985511 AACCATTAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
7 4 0.05
8 18 0.23
9 32 0.42
10 18 0.23
11 5 0.06
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.36
Consensus pattern (9 bp):
AAAAATTAT
Found at i:18985507 original size:8 final size:8
Alignment explanation
Indices: 18985408--18985509 Score: 50
Period size: 10 Copynumber: 11.5 Consensus size: 8
18985398 AATAATTTAA
18985408 AAAATTAT
1 AAAATTAT
18985416 -AAATCTATT
1 AAAAT-TA-T
18985425 AAAATTATT
1 AAAATTA-T
18985434 AAAA-TATT
1 AAAATTA-T
18985442 AAAATTAT
1 AAAATTAT
18985450 AGAAAATTA-
1 --AAAATTAT
18985459 AAATATGTCA-
1 AAA-AT-T-AT
18985469 AAAATTAT
1 AAAATTAT
18985477 AAAAATTTATT
1 -AAAA-TTA-T
18985488 AAGAATTTAT
1 AA-AA-TTAT
18985498 AAAATTAT
1 AAAATTAT
18985506 AAAA
1 AAAA
18985510 AAACCATTAA
Statistics
Matches: 80, Mismatches: 0, Indels: 28
0.74 0.00 0.26
Matches are distributed among these distances:
7 8 0.10
8 22 0.28
9 20 0.25
10 23 0.29
11 7 0.09
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (8 bp):
AAAATTAT
Found at i:18985761 original size:10 final size:10
Alignment explanation
Indices: 18985727--18985777 Score: 52
Period size: 9 Copynumber: 5.2 Consensus size: 10
18985717 ATTACGAAAC
18985727 TATAAAAAT-
1 TATAAAAATA
* *
18985736 TATTAAAATT
1 TATAAAAATA
18985746 TGATAAAAATA
1 T-ATAAAAATA
18985757 TATAAAAATA
1 TATAAAAATA
*
18985767 TA-AATAATA
1 TATAAAAATA
18985776 TA
1 TA
18985778 AACTTATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
9 16 0.44
10 12 0.33
11 8 0.22
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (10 bp):
TATAAAAATA
Found at i:18985928 original size:8 final size:9
Alignment explanation
Indices: 18985899--18985949 Score: 52
Period size: 8 Copynumber: 5.6 Consensus size: 9
18985889 TTTTACAAAA
18985899 TTTT-ATAT
1 TTTTAATAT
*
18985907 TTTTAAGAT
1 TTTTAATAT
18985916 CTTTTAATAT
1 -TTTTAATAT
18985926 TTTTATTATAT
1 TTTTA--ATAT
18985937 TTTT-ATAT
1 TTTTAATAT
18985945 TTTTA
1 TTTTA
18985950 TAAATTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
8 12 0.33
9 8 0.22
10 8 0.22
11 8 0.22
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTTAATAT
Found at i:18985950 original size:19 final size:19
Alignment explanation
Indices: 18985899--18985950 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
18985889 TTTTACAAAA
* *
18985899 TTTTATATTTTTAAGATCT
1 TTTTATATTTTTATGATAT
* *
18985918 TTTAATATTTTTATTATAT
1 TTTTATATTTTTATGATAT
18985937 TTTTATATTTTTAT
1 TTTTATATTTTTAT
18985951 AAATTTTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTATATTTTTATGATAT
Found at i:18994048 original size:21 final size:21
Alignment explanation
Indices: 18994022--18994073 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
18994012 TGAGACAAAA
18994022 CTACCGATACAAGT-ATGACTT
1 CTACCGATACAAGTAATG-CTT
* *
18994043 CTACCGAAACATGTAATGCTT
1 CTACCGATACAAGTAATGCTT
18994064 CTACCGATAC
1 CTACCGATAC
18994074 TAAAAACTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (21 bp):
CTACCGATACAAGTAATGCTT
Found at i:18995256 original size:194 final size:193
Alignment explanation
Indices: 18994827--18995263 Score: 576
Period size: 195 Copynumber: 2.2 Consensus size: 193
18994817 ACCAGTACTC
* * * * *
18994827 GATGCTACTCACACGAGCTATCGAGGACTCGCAACATATGCGATACCCTAGCCATCGGTACGATG
1 GATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTTAGCCATCGATACGA-G
* * *
18994892 CCCATCTGTACTATAAACTGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAGTATGCAATA
65 -CCATCTATACTATAAACTGTTCCCTAACGATGCTGCTCACAAGAGCTGTCGAGAATATGCAATA
*
18994957 AGCATAGTCCCAACCATCATAGGGCCTGTAATCCATTTAGGATCCATATCTCATTCTCGAGTCAA
129 AGCATAATCCCAACCATCATAGGGCCTGTAATCCATTTAGGATCCATATCTCATTCTCGAGTCAA
* *
18995022 GATGCTGCTCACACGAGCTGTCGGGGACTCGTAACATATGCGGTACCTTAGCCATCGATACG-G-
1 GATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTTAGCCATCGATACGAGC
* * * *
18995085 TATCTATGC-ATATAACTGTTCCCTAACGATGCTGCTTACAAGAGCTGTCGAGAATATGCACTTA
66 CATCTATACTATA-AACTGTTCCCTAACGATGCTGCTCACAAGAGCTGTCGAGAATATGCA-ATA
* * * * * *
18995149 TGCATAAATCTCAACCATCGTAGGGCCTGTAATCCATTTAGGATCCATATTTCTTTTCTC-ATTT
129 AGCAT-AATCCCAACCATCATAGGGCCTGTAATCCATTTAGGATCCATATCTC-ATTCTCGA-GT
*
18995213 CAT
191 CAA
*
18995216 GATGCTGCTCACACAAGCTGTCGAGGACTCGCAACATATGCGGTACCT
1 GATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCT
18995264 CAGCTATCAC
Statistics
Matches: 212, Mismatches: 25, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
190 3 0.01
191 50 0.24
192 6 0.03
193 45 0.21
194 53 0.25
195 55 0.26
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (193 bp):
GATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTTAGCCATCGATACGAGC
CATCTATACTATAAACTGTTCCCTAACGATGCTGCTCACAAGAGCTGTCGAGAATATGCAATAAG
CATAATCCCAACCATCATAGGGCCTGTAATCCATTTAGGATCCATATCTCATTCTCGAGTCAA
Found at i:18996112 original size:18 final size:18
Alignment explanation
Indices: 18996076--18996114 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18996066 CATTTCTTTC
*
18996076 ACTTTAATTTTTGTTTTT
1 ACTTTAATTTTTGTATTT
18996094 ACTTTAATTTATT-TATTT
1 ACTTTAATTT-TTGTATTT
18996112 ACT
1 ACT
18996115 CTTTTGCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.67
Consensus pattern (18 bp):
ACTTTAATTTTTGTATTT
Found at i:18999192 original size:5 final size:5
Alignment explanation
Indices: 18999182--18999221 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
18999172 GCAGCCCAAA
*
18999182 TTAAT TTAAT TTAAT TTAATT TTGAAT TTATT TTAAT TTA
1 TTAAT TTAAT TTAAT TTAA-T TT-AAT TTAAT TTAAT TTA
18999222 GGATGAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 23 0.74
6 6 0.19
7 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (5 bp):
TTAAT
Found at i:19002831 original size:29 final size:29
Alignment explanation
Indices: 19002798--19002886 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 29
19002788 TGCTACAATC
19002798 AAAGTACAGAGTCAAGGAAACAATACCTG
1 AAAGTACAGAGTCAAGGAAACAATACCTG
* * * *** *
19002827 AAAGTATCACA--AAAGGGAATTGTTCC--
1 AAAGTA-CAGAGTCAAGGAAACAATACCTG
19002853 -AAGTACAGAGTCAAGGAAACAATACCTG
1 AAAGTACAGAGTCAAGGAAACAATACCTG
19002881 AAAGTA
1 AAAGTA
19002887 TCACAAAAGG
Statistics
Matches: 40, Mismatches: 14, Indels: 12
0.61 0.21 0.18
Matches are distributed among these distances:
24 3 0.08
25 5 0.12
26 9 0.22
28 9 0.22
29 11 0.28
30 3 0.08
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.17
Consensus pattern (29 bp):
AAAGTACAGAGTCAAGGAAACAATACCTG
Found at i:19002863 original size:54 final size:54
Alignment explanation
Indices: 19002799--19002907 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
19002789 GCTACAATCA
19002799 AAGTACAGAGTCAAGGAAACAATACCTGAAAGTATCACAAAAGGGAATTGTTCC
1 AAGTACAGAGTCAAGGAAACAATACCTGAAAGTATCACAAAAGGGAATTGTTCC
19002853 AAGTACAGAGTCAAGGAAACAATACCTGAAAGTATCACAAAAGGGAATTGTTCC
1 AAGTACAGAGTCAAGGAAACAATACCTGAAAGTATCACAAAAGGGAATTGTTCC
19002907 A
1 A
19002908 GTCTATGGCG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.18
Consensus pattern (54 bp):
AAGTACAGAGTCAAGGAAACAATACCTGAAAGTATCACAAAAGGGAATTGTTCC
Found at i:19007197 original size:15 final size:15
Alignment explanation
Indices: 19007177--19007207 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19007167 GCCCTTTAAG
19007177 AAGGGTTCGAGGCTT
1 AAGGGTTCGAGGCTT
*
19007192 AAGGGTTTGAGGCTT
1 AAGGGTTCGAGGCTT
19007207 A
1 A
19007208 CACCCCTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.10, G:0.39, T:0.29
Consensus pattern (15 bp):
AAGGGTTCGAGGCTT
Found at i:19018402 original size:29 final size:30
Alignment explanation
Indices: 19018390--19018791 Score: 393
Period size: 30 Copynumber: 13.7 Consensus size: 30
19018380 TTTGCCCCCG
* *
19018390 AACTTCTTAAAAATTACATTTTTGCCCTCA
1 AACTTCTCAAAAATTACATTTTTACCCTCA
19018420 AACTTCTCAAAAATTACA-TTTT-CCCTCA
1 AACTTCTCAAAAATTACATTTTTACCCTCA
* *
19018448 ACCTTC-CAAAAATTACATTTTTACCCCCA
1 AACTTCTCAAAAATTACATTTTTACCCTCA
* *
19018477 TACTTCTCTAAAATTACATTTTTACCCTCA
1 AACTTCTCAAAAATTACATTTTTACCCTCA
19018507 AACTTCTCAAAAATTACATTTTTAACCCT-A
1 AACTTCTCAAAAATTACATTTTT-ACCCTCA
* *
19018537 AACTT-TCAAAAATTATATTTTTACCCTCG
1 AACTTCTCAAAAATTACATTTTTACCCTCA
* *
19018566 AACTTC-CAAAAATCACATTTTTACCCTCG
1 AACTTCTCAAAAATTACATTTTTACCCTCA
* ** *
19018595 AGCTTCTTTAAAATTACATTTTTA-CCTCTG
1 AACTTCTCAAAAATTACATTTTTACCCTC-A
* *
19018625 AACTTCTCTAAAATTACATTTTTTCCCTCA
1 AACTTCTCAAAAATTACATTTTTACCCTCA
* *
19018655 AACTTCT-AAAAATCACATTTTTACCC-CG
1 AACTTCTCAAAAATTACATTTTTACCCTCA
* *
19018683 AATTTC-CAAAAATTACCA-TTTTACCC-CG
1 AACTTCTCAAAAATTA-CATTTTTACCCTCA
* * *
19018711 AACATC-CAAAAATTACCATTTTTACCTTGA
1 AACTTCTCAAAAATTA-CATTTTTACCCTCA
** * * *
19018741 ATTTTC-CCAAAATGACATTTTTACCCTTAA
1 AACTTCTCAAAAATTACATTTTTACCC-TCA
*
19018771 AACTT-TCCAAAATTACATTTT
1 AACTTCTCAAAAATTACATTTT
19018792 AACCTCGAAC
Statistics
Matches: 315, Mismatches: 42, Indels: 30
0.81 0.11 0.08
Matches are distributed among these distances:
27 11 0.03
28 59 0.19
29 99 0.31
30 137 0.43
31 9 0.03
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (30 bp):
AACTTCTCAAAAATTACATTTTTACCCTCA
Found at i:19030174 original size:39 final size:38
Alignment explanation
Indices: 19030129--19030884 Score: 459
Period size: 39 Copynumber: 19.4 Consensus size: 38
19030119 GATTGAAGAT
19030129 TCAATCTCTTACCCCGAGTCTGGGGCAGATCACCATCAA
1 TCAATCTCTTACCCCGAG-CTGGGGCAGATCACCATCAA
* * * *
19030168 TCAATCTCTTACCTCGAGCCTAGGGCAGATTA-CAGCAA
1 TCAATCTCTTACCCCGAG-CTGGGGCAGATCACCATCAA
* * * *
19030206 TCCAATCTTTTACCCCGAGCTTGGGGTAGATCATCATCAG
1 T-CAATCTCTTACCCCGAGC-TGGGGCAGATCACCATCAA
* * * * *
19030246 TAAATCTCTTACCCCGAGCCTAGGGCAGATTA-CAGCCA
1 TCAATCTCTTACCCCGAG-CTGGGGCAGATCACCATCAA
* * *
19030284 TCTGATCTTTTACCCCGAGCCTGGGGCAGATCATCATCAA
1 TC-AATCTCTTACCCCGAG-CTGGGGCAGATCACCATCAA
* * * * * *
19030324 TAAATCTTTTACCCCGAGTCTGGGGTAGATTA-CAGCCA
1 TCAATCTCTTACCCCGAG-CTGGGGCAGATCACCATCAA
* * * *
19030362 TACGATCTCTTACCCCGAGCTTGGGGCAAATCATCATCAG
1 T-CAATCTCTTACCCCGAGC-TGGGGCAGATCACCATCAA
* *
19030402 TAAATCTCTTACCCCGAGCCTAGGGCAGATTGCAACCATC--
1 TCAATCTCTTACCCCGAG-CTGGGGCAGA-T-C-ACCATCAA
* * * ** * *
19030442 -CGATCTCTTTCCCCGAGCCTAGGGCAGATCATTATTAG
1 TCAATCTCTTACCCCGAG-CTGGGGCAGATCACCATCAA
* * * * *
19030480 TAAATCTCTTACCCCGATCATAGGGCAGATTA-CAGCAA
1 TCAATCTCTTACCCCGAGC-TGGGGCAGATCACCATCAA
* * *
19030518 TTCGATCCCTTACCCCGAGCTTGAGGCAGATCACCAT-AA
1 -TCAATCTCTTACCCCGAGC-TGGGGCAGATCACCATCAA
* *
19030557 GTAAATCTCTTACCCCGAGCTAGGGGCAGATCACCATTAA
1 -TCAATCTCTTACCCCGAGCT-GGGGCAGATCACCATCAA
* *
19030597 -CAAATCTTTTACCCCGATCATGGGGCAGATTGCAGCCAT---
1 TC-AATCTCTTACCCCGAGC-TGGGGCAGA-T-CA-CCATCAA
* *
19030636 TCGATCTCTTACCCCGAGCTTGAGGCAGATCACCATCAA
1 TCAATCTCTTACCCCGAGC-TGGGGCAGATCACCATCAA
*
19030675 -CAAATCTCTTACCCC-AGGCTAAGGGCAGATCACCATC-A
1 TC-AATCTCTTACCCCGA-GCT-GGGGCAGATCACCATCAA
* * * *
19030713 GCAAATCTCTTACCCCGATCATGGGGCAGATTGCAGC-T-AT
1 TC-AATCTCTTACCCCGAGC-TGGGGCAGA-T-CACCATCAA
* * *
19030753 TCGATCTCTTACCCCGAGCCTGAGGCAGATCACCATCAG
1 TCAATCTCTTACCCCGAG-CTGGGGCAGATCACCATCAA
** *
19030792 TCAATCTCTTACCCCGAGCTTGGGGCAGAT-TGCAGTCAT
1 TCAATCTCTTACCCCGAGC-TGGGGCAGATCACCA-TCAA
* * * * *
19030831 TCGATCTTTTACCCCGAGCTTAGGGCAGATCATCATCAG
1 TCAATCTCTTACCCCGAGC-TGGGGCAGATCACCATCAA
*
19030870 CCAATCTCTTACCCC
1 TCAATCTCTTACCCC
19030885 TATCATGGGG
Statistics
Matches: 560, Mismatches: 112, Indels: 90
0.73 0.15 0.12
Matches are distributed among these distances:
36 7 0.01
37 6 0.01
38 32 0.06
39 468 0.84
40 32 0.06
41 6 0.01
42 9 0.02
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (38 bp):
TCAATCTCTTACCCCGAGCTGGGGCAGATCACCATCAA
Found at i:19030213 original size:78 final size:78
Alignment explanation
Indices: 19030132--19030884 Score: 700
Period size: 78 Copynumber: 9.7 Consensus size: 78
19030122 TGAAGATTCA
* * *
19030132 ATCTCTTACCCCGAG-TCTGGGGCAGATCACCATCAATCAATCTCTTACCTCGAGCCTAGGGCAG
1 ATCTCTTACCCCGAGCT-TGGGGCAGATCACCATCAGTAAATCTCTTACCCCGAGCCTAGGGCAG
*
19030196 ATTACAGCAATCCA
65 ATTACAGCAATCCG
* * *
19030210 ATCTTTTACCCCGAGCTTGGGGTAGATCATCATCAGTAAATCTCTTACCCCGAGCCTAGGGCAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGTAAATCTCTTACCCCGAGCCTAGGGCAGA
* *
19030275 TTACAGCCATCTG
66 TTACAGCAATCCG
* * * * * * * *
19030288 ATCTTTTACCCCGAGCCTGGGGCAGATCATCATCAATAAATCTTTTACCCCGAGTCTGGGGTAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGTAAATCTCTTACCCCGAGCCTAGGGCAGA
* *
19030353 TTACAGCCATACG
66 TTACAGCAATCCG
* *
19030366 ATCTCTTACCCCGAGCTTGGGGCAAATCATCATCAGTAAATCTCTTACCCCGAGCCTAGGGCAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGTAAATCTCTTACCCCGAGCCTAGGGCAGA
* * *
19030431 TTGCAACCATCCG
66 TTACAGCAATCCG
* * * ** * * *
19030444 ATCTCTTTCCCCGAGCCTAGGGCAGATCATTATTAGTAAATCTCTTACCCCGATCATAGGGCAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGTAAATCTCTTACCCCGAGCCTAGGGCAGA
*
19030509 TTACAGCAATTCG
66 TTACAGCAATCCG
* * *
19030522 ATCCCTTACCCCGAGCTTGAGGCAGATCACCATAAGTAAATCTCTTACCCCGAG-CTAGGGGCAG
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGTAAATCTCTTACCCCGAGCCTA-GGGCAG
* ** **
19030586 ATCACCATTAA-CAA
65 ATTA-CAGCAATCCG
* * * *
19030600 ATCTTTTACCCCGATCATGGGGCAGATTGCAGCCATTC-G---ATCTCTTACCCCGAG-CTTGAG
1 ATCTCTTACCCCGAGCTTGGGGCAGA-T-CA-CCA-TCAGTAAATCTCTTACCCCGAGCCTAG-G
* * **
19030660 GCAGATCACCATCAA-CAA
61 GCAGATTA-CAGCAATCCG
** * * * *
19030678 ATCTCTTACCCC-AGGCTAAGGGCAGATCACCATCAGCAAATCTCTTACCCCGATCATGGGGCAG
1 ATCTCTTACCCCGA-GCTTGGGGCAGATCACCATCAGTAAATCTCTTACCCCGAGCCTAGGGCAG
* * *
19030742 ATTGCAGCTATTCG
65 ATTACAGCAATCCG
* * * * *
19030756 ATCTCTTACCCCGAGCCTGAGGCAGATCACCATCAGTCAATCTCTTACCCCGAGCTTGGGGCAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGTAAATCTCTTACCCCGAGCCTAGGGCAGA
* *
19030821 TTGCAGTC-ATTCG
66 TTACAG-CAATCCG
* * * **
19030834 ATCTTTTACCCCGAGCTTAGGGCAGATCATCATCAGCCAATCTCTTACCCC
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGTAAATCTCTTACCCC
19030885 TATCATGGGG
Statistics
Matches: 564, Mismatches: 94, Indels: 34
0.82 0.14 0.05
Matches are distributed among these distances:
74 2 0.00
75 4 0.01
76 2 0.00
77 9 0.02
78 530 0.94
79 10 0.02
80 2 0.00
81 4 0.01
82 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGTAAATCTCTTACCCCGAGCCTAGGGCAGA
TTACAGCAATCCG
Found at i:19030337 original size:117 final size:117
Alignment explanation
Indices: 19030131--19030821 Score: 620
Period size: 117 Copynumber: 5.9 Consensus size: 117
19030121 TTGAAGATTC
* * * * *
19030131 AATCTCTTACCCCGAGTC-TGGGGCAGATCACCA-TCAATCAATCTCTTACCTCGAGCCT-AGGG
1 AATCTCTTACCCCGAG-CATGGGGCAGATTA-CAGCCATTCGATCTCTTACCCCGAGCCTGA-GG
* * * * *
19030193 CAGATTA-CAGCAATCCAATCTTTTACCCCGAGCTTGGGGTAGATCATCATCAGTA
63 CAGATCACCATCAAT-AAATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAGTA
* * * *
19030248 AATCTCTTACCCCGAGCCTAGGGCAGATTACAGCCA-TCTGATCTTTTACCCCGAGCCTGGGGCA
1 AATCTCTTACCCCGAGCATGGGGCAGATTACAGCCATTC-GATCTCTTACCCCGAGCCTGAGGCA
* * * * *
19030312 GATCATCATCAATAAATCTTTTACCCCGAG-TCTGGGGTAGATTA-CAGCCA-TA
65 GATCACCATCAATAAATCTCTTACCCCGAGCT-TGGGGCAGATCATCA-TCAGTA
* * * * * * **
19030364 CGATCTCTTACCCCGAGCTTGGGGCAAATCATCA-TCAGTAAATCTCTTACCCCGAGCCT-AGGG
1 -AATCTCTTACCCCGAGCATGGGGCAGATTA-CAGCCATTCGATCTCTTACCCCGAGCCTGA-GG
** * * * * *
19030427 CAGATTGCAACCATC---CGATCTCTTTCCCCGAGCCTAGGGCAGATCATTATTAGTA
63 CAGA-T-C-ACCATCAATAAATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAGTA
* * * * *
19030482 AATCTCTTACCCCGATCATAGGGCAGATTACAGCAATTCGATCCCTTACCCCGAGCTTGAGGCAG
1 AATCTCTTACCCCGAGCATGGGGCAGATTACAGCCATTCGATCTCTTACCCCGAGCCTGAGGCAG
* * * **
19030547 ATCACCAT-AAGTAAATCTCTTACCCCGAGCTAGGGGCAGATCACCATTAACA
66 ATCACCATCAA-TAAATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAGTA
* * * *
19030599 AATCTTTTACCCCGATCATGGGGCAGATTGCAGCCATTCGATCTCTTACCCCGAGCTTGAGGCAG
1 AATCTCTTACCCCGAGCATGGGGCAGATTACAGCCATTCGATCTCTTACCCCGAGCCTGAGGCAG
* ** * *
19030664 ATCACCATCAACAAATCTCTTACCCC-AGGCTAAGGGCAGATCACCATCAGCA
66 ATCACCATCAATAAATCTCTTACCCCGA-GCTTGGGGCAGATCATCATCAGTA
* * *
19030716 AATCTCTTACCCCGATCATGGGGCAGATTGCAGCTATTCGATCTCTTACCCCGAGCCTGAGGCAG
1 AATCTCTTACCCCGAGCATGGGGCAGATTACAGCCATTCGATCTCTTACCCCGAGCCTGAGGCAG
* *
19030781 ATCACCATCAGTCAATCTCTTACCCCGAGCTTGGGGCAGAT
66 ATCACCATCAATAAATCTCTTACCCCGAGCTTGGGGCAGAT
19030822 TGCAGTCATT
Statistics
Matches: 474, Mismatches: 74, Indels: 52
0.79 0.12 0.09
Matches are distributed among these distances:
114 5 0.01
115 1 0.00
116 14 0.03
117 431 0.91
118 17 0.04
119 1 0.00
120 5 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.24
Consensus pattern (117 bp):
AATCTCTTACCCCGAGCATGGGGCAGATTACAGCCATTCGATCTCTTACCCCGAGCCTGAGGCAG
ATCACCATCAATAAATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAGTA
Found at i:19031360 original size:6 final size:6
Alignment explanation
Indices: 19031330--19031445 Score: 87
Period size: 6 Copynumber: 19.7 Consensus size: 6
19031320 TCCAATTTTA
* * * *
19031330 AAATTT AAAATTT TAATTT -ATTTT AAGTTT AAATTT -ATTTT AAATTT
1 AAATTT -AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
** * * * *
19031377 AAATTT ATTTTT GAGTTT AAA-TT AATTTT AAATTT AAATTT -ATTTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
*
19031423 GAATTT AAATTT AAAATTT AAAT
1 AAATTT AAATTT -AAATTT AAAT
19031446 AAAAAGTCCA
Statistics
Matches: 86, Mismatches: 18, Indels: 11
0.75 0.16 0.10
Matches are distributed among these distances:
5 16 0.19
6 58 0.67
7 12 0.14
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (6 bp):
AAATTT
Found at i:19031364 original size:17 final size:17
Alignment explanation
Indices: 19031332--19031435 Score: 136
Period size: 17 Copynumber: 6.1 Consensus size: 17
19031322 CAATTTTAAA
* *
19031332 ATTTAAAATTTTAATTT
1 ATTTTAAATTTAAATTT
*
19031349 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTT
19031366 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
* * *
19031383 ATTTTTGAGTTTAAATTA
1 A-TTTTAAATTTAAATTT
19031401 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
*
19031418 ATTTTGAATTTAAATTT
1 ATTTTAAATTTAAATTT
19031435 A
1 A
19031436 AAATTTAAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
17 61 0.81
18 14 0.19
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:19031373 original size:35 final size:34
Alignment explanation
Indices: 19031332--19031435 Score: 147
Period size: 35 Copynumber: 3.0 Consensus size: 34
19031322 CAATTTTAAA
* *
19031332 ATTTAAAATTTTAATTTATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTTATTTTAAGTTTAAATTT
* *
19031366 ATTTTAAATTTAAATTTATTTTTGAGTTTAAATTA
1 ATTTTAAATTTAAATTTA-TTTTAAGTTTAAATTT
19031401 ATTTTAAATTTAAATTTATTTTGAA-TTTAAATTT
1 ATTTTAAATTTAAATTTATTTT-AAGTTTAAATTT
19031435 A
1 A
19031436 AAATTTAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
34 29 0.47
35 33 0.53
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (34 bp):
ATTTTAAATTTAAATTTATTTTAAGTTTAAATTT
Found at i:19033145 original size:30 final size:30
Alignment explanation
Indices: 19033111--19033169 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
19033101 TTGAACTATC
19033111 CAAAACCATATTTTAACCCCTAAACTTTTT
1 CAAAACCATATTTTAACCCCTAAACTTTTT
** * *
19033141 CAAAATTATATTTTGACCCTTAAACTTTT
1 CAAAACCATATTTTAACCCCTAAACTTTT
19033170 CTAAAATTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.41
Consensus pattern (30 bp):
CAAAACCATATTTTAACCCCTAAACTTTTT
Found at i:19033225 original size:59 final size:60
Alignment explanation
Indices: 19033142--19033570 Score: 375
Period size: 59 Copynumber: 7.3 Consensus size: 60
19033132 AAACTTTTTC
* ** * *
19033142 AAAATTATATTTTGACCCTTAAACTTTTCTAAAATTACATTTTT-CCCTTGAACTTCTCA
1 AAAATTATATTTTTACCCTCGAACTTTTCAAAAATTACATTTTTACCCTCGAACTTCTCA
* * *
19033201 AAAATTATATTTTTACCCTCAAACTTTTCAAAACTTACATTTTTGCCCTCGAACTTCT-A
1 AAAATTATATTTTTACCCTCGAACTTTTCAAAAATTACATTTTTACCCTCGAACTTCTCA
* * **
19033260 AAAATTATATTTTTACCCAT-GAACTTCTCCAAAATTACATTTTTACCCTTAAACTTCTCA
1 AAAATTATATTTTTACCC-TCGAACTTTTCAAAAATTACATTTTTACCCTCGAACTTCTCA
* * ** * *
19033320 AAACTTATATTTTTACCCTCGAAC-TTCCAAAAATCGCATTTTTACCC-CCAAGCTTCTCT
1 AAAATTATATTTTTACCCTCGAACTTTTCAAAAATTACATTTTTACCCTCGAA-CTTCTCA
* * * * * **
19033379 ATAATTACATTTTTACCATTGAACTTTTCCAAAATTACATTTTTACCCTTAAACTT-TCA
1 AAAATTATATTTTTACCCTCGAACTTTTCAAAAATTACATTTTTACCCTCGAACTTCTCA
** * *
19033438 AAAATCGTATTTTTGCCC-CGAA-TTTTCAAAAATTACCA-TTTTACCC-CGAACAT-TCA
1 AAAATTATATTTTTACCCTCGAACTTTTCAAAAATTA-CATTTTTACCCTCGAACTTCTCA
* * * * *
19033494 AAAATTACCA-TTTTATCCCT-GAAC-ATCCAAAAATTACCATTTTTACCC-CGAACTTTTCC
1 AAAATTA-TATTTTTA-CCCTCGAACTTTTCAAAAATTA-CATTTTTACCCTCGAACTTCTCA
* *
19033553 AAAATGACATTTTTACCC
1 AAAATTATATTTTTACCC
19033571 CTAAAACTTT
Statistics
Matches: 302, Mismatches: 53, Indels: 31
0.78 0.14 0.08
Matches are distributed among these distances:
56 16 0.05
57 40 0.13
58 26 0.09
59 161 0.53
60 57 0.19
61 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (60 bp):
AAAATTATATTTTTACCCTCGAACTTTTCAAAAATTACATTTTTACCCTCGAACTTCTCA
Found at i:19033226 original size:89 final size:88
Alignment explanation
Indices: 19033128--19033595 Score: 323
Period size: 89 Copynumber: 5.3 Consensus size: 88
19033118 ATATTTTAAC
* *
19033128 CCCT-AAACTTTTTCAAAA-TTATATTTTGACCCTTAAACTTTTCTAAAATTACATTTTT-CCCT
1 CCCTCAAAC-TTTTCAAAACTTACATTTTGACCCTCAAAC-TTTCTAAAATTACATTTTTACCC-
*
19033190 TGAACTTCTCAAAAATTATATTTTTA
63 TGAACTTCTCAAAAATTACATTTTTA
* *
19033216 CCCTCAAACTTTTCAAAACTTACATTTTTG-CCCTCGAAC-TTCTAAAAATTATATTTTTACCCA
1 CCCTCAAACTTTTCAAAACTTACA-TTTTGACCCTCAAACTTTCT-AAAATTACATTTTTACCC-
*
19033279 TGAACTTCTCCAAAATTACATTTTTA
63 TGAACTTCTCAAAAATTACATTTTTA
* * * * * * * ** **
19033305 CCCTTAAACTTCTCAAAACTTATATTTTTACCCTCGAACTTCCAAAAATCGCATTTTTACCCCCA
1 CCCTCAAACTTTTCAAAACTTACATTTTGACCCTCAAACTTTCTAAAATTACATTTTTACCCTGA
* *
19033370 AGCTTCTCTATAATTACATTTTTA
66 A-CTTCTCAAAAATTACATTTTTA
* ** * * * *** * *
19033394 CCATTGAACTTTTCCAAAA-TTACATTTTTACCCTTAAACTTTCAAAAATCGTATTTTTGCCCCG
1 CCCTCAAACTTTT-CAAAACTTACATTTTGACCCTCAAACTTTCTAAAATTACATTTTTACCCTG
*
19033458 AA-TTTTCAAAAATTACCA-TTTTA
65 AACTTCTCAAAAATTA-CATTTTTA
* * * * * * *
19033481 CCC-CGAAC-ATTCAAAAATTACCATTTT-ATCCCT-GAACATCCAAAAATTACCATTTTTACCC
1 CCCTCAAACTTTTCAAAACTTA-CATTTTGA-CCCTCAAACTTTCTAAAATTA-CATTTTTACCC
* * * *
19033542 CGAACTTTTCCAAAATGACATTTTTA
63 TGAACTTCTCAAAAATTACATTTTTA
* * *
19033568 CCCCTAAAACTTTCCAAAA-TTACGTTTT
1 -CCCTCAAACTTTTCAAAACTTACATTTT
19033596 AACCTTGAAC
Statistics
Matches: 311, Mismatches: 50, Indels: 38
0.78 0.13 0.10
Matches are distributed among these distances:
84 5 0.02
85 17 0.05
86 29 0.09
87 37 0.12
88 42 0.14
89 163 0.52
90 18 0.06
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.39
Consensus pattern (88 bp):
CCCTCAAACTTTTCAAAACTTACATTTTGACCCTCAAACTTTCTAAAATTACATTTTTACCCTGA
ACTTCTCAAAAATTACATTTTTA
Found at i:19033479 original size:28 final size:28
Alignment explanation
Indices: 19033448--19033546 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
19033438 AAAATCGTAT
* **
19033448 TTTTGCCCCGAATTTTCAAAAATTACCA
1 TTTTACCCCGAACATTCAAAAATTACCA
19033476 TTTTACCCCGAACATTCAAAAATTACCA
1 TTTTACCCCGAACATTCAAAAATTACCA
* *
19033504 TTTTATCCCTGAACATCCAAAAATTACCA
1 TTTTA-CCCCGAACATTCAAAAATTACCA
19033533 TTTTTACCCCGAAC
1 -TTTTACCCCGAAC
19033547 TTTTCCAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
28 30 0.48
29 28 0.44
30 5 0.08
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.32
Consensus pattern (28 bp):
TTTTACCCCGAACATTCAAAAATTACCA
Found at i:19033557 original size:30 final size:30
Alignment explanation
Indices: 19033133--19033595 Score: 300
Period size: 30 Copynumber: 15.7 Consensus size: 30
19033123 TTAACCCCTA
* * * **
19033133 AACTTTTTCAAAATTATATTTTGACCCTTA
1 AACTTTTCCAAAATTACATTTTTACCCTCG
* *
19033163 AACTTTTCTAAAATTACATTTTT-CCCTTG
1 AACTTTTCCAAAATTACATTTTTACCCTCG
* * * *
19033192 AACTTCTCAAAAATTATATTTTTACCCTCA
1 AACTTTTCCAAAATTACATTTTTACCCTCG
*
19033222 AACTTTT-CAAAACTTACATTTTTGCCCTCG
1 AACTTTTCCAAAA-TTACATTTTTACCCTCG
* * *
19033252 AACTTCT-AAAAATTATATTTTTACCCAT-G
1 AACTTTTCCAAAATTACATTTTTACCC-TCG
* **
19033281 AACTTCTCCAAAATTACATTTTTACCCTTA
1 AACTTTTCCAAAATTACATTTTTACCCTCG
* *
19033311 AACTTCT-CAAAACTTATATTTTTACCCTCG
1 AACTTTTCCAAAA-TTACATTTTTACCCTCG
** *
19033341 AAC--TTCCAAAAATCGCATTTTTACCC-CC
1 AACTTTTCC-AAAATTACATTTTTACCCTCG
* * * * *
19033369 AAGCTTCTCTATAATTACATTTTTACCATTG
1 AA-CTTTTCCAAAATTACATTTTTACCCTCG
**
19033400 AACTTTTCCAAAATTACATTTTTACCCTTA
1 AACTTTTCCAAAATTACATTTTTACCCTCG
* *** *
19033430 AAC-TTTCAAAAATCGTATTTTTGCCC-CG
1 AACTTTTCCAAAATTACATTTTTACCCTCG
*
19033458 AA-TTTTCAAAAATTACCA-TTTTACCC-CG
1 AACTTTTCCAAAATTA-CATTTTTACCCTCG
* *
19033486 AAC-ATTCAAAAATTACCA-TTTTATCCCT-G
1 AACTTTTCCAAAATTA-CATTTTTA-CCCTCG
*
19033515 AAC--ATCCAAAAATTACCATTTTTACCC-CG
1 AACTTTTCC-AAAATTA-CATTTTTACCCTCG
* **
19033544 AACTTTTCCAAAATGACATTTTTACCCCTAA
1 AACTTTTCCAAAATTACATTTTTA-CCCTCG
*
19033575 AAC-TTTCCAAAATTACGTTTT
1 AACTTTTCCAAAATTACATTTT
19033596 AACCTTGAAC
Statistics
Matches: 346, Mismatches: 63, Indels: 48
0.76 0.14 0.11
Matches are distributed among these distances:
28 48 0.14
29 119 0.34
30 169 0.49
31 10 0.03
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (30 bp):
AACTTTTCCAAAATTACATTTTTACCCTCG
Found at i:19040605 original size:27 final size:26
Alignment explanation
Indices: 19040574--19040637 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 26
19040564 TTTTTCGAGA
* *
19040574 TTATTATTTTATTGATAAATGAATATT
1 TTATTAATTTATCGATAAATGAATA-T
*
19040601 TTATTAATTTATCGATAAATTAATAT
1 TTATTAATTTATCGATAAATGAATAT
19040627 TTATTAATTTA
1 TTATTAATTTA
19040638 GAGAATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 12 0.35
27 22 0.65
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (26 bp):
TTATTAATTTATCGATAAATGAATAT
Found at i:19042651 original size:17 final size:17
Alignment explanation
Indices: 19042629--19042678 Score: 61
Period size: 15 Copynumber: 3.1 Consensus size: 17
19042619 AGAGACCAAA
19042629 AAATTATT-ATTTAATCG
1 AAATTATTAATTT-ATCG
19042646 AAATTATTAATTTATCG
1 AAATTATTAATTTATCG
*
19042663 -AA-TATTTATTTATCG
1 AAATTATTAATTTATCG
19042678 A
1 A
19042679 GATTTTACTG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 12 0.40
16 2 0.07
17 12 0.40
18 4 0.13
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
AAATTATTAATTTATCG
Found at i:19052321 original size:30 final size:30
Alignment explanation
Indices: 19052285--19052516 Score: 220
Period size: 30 Copynumber: 7.8 Consensus size: 30
19052275 CATTAAAACC
* *
19052285 GGGTCAAATTTGAATTTTAAAAAAGTTT-A
1 GGGTCAAATTTGAATTTTTAGAAAGTTTAA
* *
19052314 GGAGTCAAATTGGAAATTTTAGAAAGTTT-A
1 GG-GTCAAATTTGAATTTTTAGAAAGTTTAA
* * * *
19052344 GAGGTCAAATTTAAATCTTTGGAAAGTTTGA
1 G-GGTCAAATTTGAATTTTTAGAAAGTTTAA
* * * * **
19052375 GGGTCATATTTAAATTTTTGGAAAATTTGG
1 GGGTCAAATTTGAATTTTTAGAAAGTTTAA
* * *
19052405 GGGTC--ATTTAAATTTTTGGAAAGTTTGA
1 GGGTCAAATTTGAATTTTTAGAAAGTTTAA
*
19052433 GGGTCAAATTTGAATTTTTTGAAAGTTTAA
1 GGGTCAAATTTGAATTTTTAGAAAGTTTAA
* * *
19052463 GGGTTAAATTTGAATTTTTAAAAATTTTAA
1 GGGTCAAATTTGAATTTTTAGAAAGTTTAA
*
19052493 GGGCCAAATTTGAATTTTTAGAAA
1 GGGTCAAATTTGAATTTTTAGAAA
19052517 ATTCGAGGGT
Statistics
Matches: 173, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
28 26 0.15
29 2 0.01
30 142 0.82
31 3 0.02
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (30 bp):
GGGTCAAATTTGAATTTTTAGAAAGTTTAA
Found at i:19052439 original size:88 final size:87
Alignment explanation
Indices: 19052285--19052489 Score: 216
Period size: 88 Copynumber: 2.3 Consensus size: 87
19052275 CATTAAAACC
* * * * *
19052285 GGGTCAAATTTGAATTTTAAAAAAGTTTAGGAGTCAAATTGGAAA-TTTTAGAAAGTTTAGAGGT
1 GGGTCAAATTTAAATTTTTAAAAA-TTTGGGGGTC--ATT-TAAATTTTTAGAAAGTTTAGAGGT
*
19052349 CAAATTTAAATCTTTGGAAAGTTTGA
62 CAAATTTAAATCTTTGGAAAGTTTAA
* * *
19052375 GGGTCATATTTAAATTTTTGGAAAATTTGGGGGTCATTTAAATTTTTGGAAAGTTT-GAGGGTCA
1 GGGTCAAATTTAAATTTTT-AAAAATTTGGGGGTCATTTAAATTTTTAGAAAGTTTAGA-GGTCA
* * *
19052439 AATTTGAATTTTTTGAAAGTTTAA
64 AATTTAAATCTTTGGAAAGTTTAA
* *
19052463 GGGTTAAATTTGAATTTTTAAAAATTT
1 GGGTCAAATTTAAATTTTTAAAAATTT
19052490 TAAGGGCCAA
Statistics
Matches: 96, Mismatches: 16, Indels: 9
0.79 0.13 0.07
Matches are distributed among these distances:
87 12 0.12
88 56 0.58
90 24 0.25
91 4 0.04
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.40
Consensus pattern (87 bp):
GGGTCAAATTTAAATTTTTAAAAATTTGGGGGTCATTTAAATTTTTAGAAAGTTTAGAGGTCAAA
TTTAAATCTTTGGAAAGTTTAA
Found at i:19052457 original size:118 final size:118
Alignment explanation
Indices: 19052306--19052519 Score: 270
Period size: 118 Copynumber: 1.8 Consensus size: 118
19052296 GAATTTTAAA
**
19052306 AAAGTTTAGGAGTCAAATTGGAAATTTTAGAAAGTTT-AGAGGTCAAATTTAAATCTTTGGAAAG
1 AAAGTTTAGGAGTCAAATTGGAAATTTTAGAAAGTTTAAG-GGTCAAATTTAAATCTTTAAAAAG
* * * *
19052370 TTTGAGGGTCATATTTAAATTTTTGGAAAATTTGGGGGTCATTTAAATTTTTGG
65 TTTAAGGGCCAAATTTAAATTTTTAGAAAATTTGGGGGTCATTTAAATTTTTGG
* * * * * * *
19052424 AAAGTTTGAGG-GTCAAATTTGAATTTTTTGAAAGTTTAAGGGTTAAATTTGAATTTTTAAAAAT
1 AAAGTTT-AGGAGTCAAATTGGAAATTTTAGAAAGTTTAAGGGTCAAATTTAAATCTTTAAAAAG
*
19052488 TTTAAGGGCCAAATTTGAATTTTTAGAAAATT
65 TTTAAGGGCCAAATTTAAATTTTTAGAAAATT
19052520 CGAGGGTAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
118 75 0.94
119 5 0.06
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (118 bp):
AAAGTTTAGGAGTCAAATTGGAAATTTTAGAAAGTTTAAGGGTCAAATTTAAATCTTTAAAAAGT
TTAAGGGCCAAATTTAAATTTTTAGAAAATTTGGGGGTCATTTAAATTTTTGG
Found at i:19053581 original size:51 final size:51
Alignment explanation
Indices: 19053515--19053618 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
19053505 TTATGGGTTT
* *
19053515 GTAAGGTTGGGCTTAAGTTTGGGCTGTTTGGTTTTGTTTAGGTATTGGATA
1 GTAAAGTTGGACTTAAGTTTGGGCTGTTTGGTTTTGTTTAGGTATTGGATA
*
19053566 GTAAAGTTGGACTTAAGTTTGGGCTGTTTGGTTTTGTTTAGGTATTGGGTA
1 GTAAAGTTGGACTTAAGTTTGGGCTGTTTGGTTTTGTTTAGGTATTGGATA
19053617 GT
1 GT
19053619 TAGATTTGAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.16, C:0.04, G:0.35, T:0.45
Consensus pattern (51 bp):
GTAAAGTTGGACTTAAGTTTGGGCTGTTTGGTTTTGTTTAGGTATTGGATA
Found at i:19054489 original size:50 final size:48
Alignment explanation
Indices: 19054347--19054491 Score: 123
Period size: 51 Copynumber: 2.9 Consensus size: 48
19054337 CCAACCTACT
* * * * *
19054347 GGATATAAAATTTGATGTTGTAGCTTCATCTTGCTCCACTGCAGCTTTAG
1 GGATATAAGATTTGTTCTTGTA-CTTCATCTTGCT-CACTGTAACTTTAG
* * *
19054397 GGAGATAAAGATTTGCTTTCATG-ACTTTAAT-TTGACTCACTGTAACTTTAG
1 GGATAT-AAGATTTG--TTCTTGTAC-TTCATCTTG-CTCACTGTAACTTTAG
19054448 GGATATAAGATTTGTTCTTGTATCTTCATCTTGCTCTACTGTAA
1 GGATATAAGATTTGTTCTTGTA-CTTCATCTTGCTC-ACTGTAA
19054492 TTTTCATTGA
Statistics
Matches: 75, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
48 5 0.07
49 8 0.11
50 24 0.32
51 28 0.37
52 7 0.09
53 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.41
Consensus pattern (48 bp):
GGATATAAGATTTGTTCTTGTACTTCATCTTGCTCACTGTAACTTTAG
Found at i:19054684 original size:50 final size:49
Alignment explanation
Indices: 19054577--19054712 Score: 123
Period size: 50 Copynumber: 2.7 Consensus size: 49
19054567 TACTGGGAGT
* * * *
19054577 TTTAATCCACCCCTGTACAACTTTAGGGGTATAGGATTTGCTTCTGTAGC
1 TTTAATCTACCCCTCTACAACTTTAGGGGTAAAAGATTTGCTTCTG-AGC
* * *
19054627 TTCAATCTACCCCTTTATAACTTTAGGGGTAAAAGATTTGCCATTAC-G-GC
1 TTTAATCTACCCCTCTACAACTTTAGGGGTAAAAGATTTG-C-TT-CTGAGC
* * * *
19054677 TTTAATCTGCACCTCTACAGCTTTAGGTGTAAAAGA
1 TTTAATCTACCCCTCTACAACTTTAGGGGTAAAAGA
19054713 ATGCACTGCC
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
50 65 0.93
51 1 0.01
52 3 0.04
53 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (49 bp):
TTTAATCTACCCCTCTACAACTTTAGGGGTAAAAGATTTGCTTCTGAGC
Done.