Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 55 of 126
Found at i:15993066 original size:43 final size:43
Alignment explanation
Indices: 15992971--15993222 Score: 335
Period size: 43 Copynumber: 5.9 Consensus size: 43
15992961 TTTTAGAAAT
*** * *
15992971 AAACGCCGCTATAGATCAGGACCTTTAGCGGTAATTTT-ACAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCGC
* ** *
15993013 AAACGCCGCTATAGATCAGGACCTTTAGCGGCTCTTTTTACAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCGC
* *
15993056 AAACGCCGCTATAGATCAGGACCTTTACCTGCGCTTTTCCCGC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCGC
*
15993099 AAACGCTGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCGC
* *
15993142 AAACGCTGCTATAGATCAGGACCTTTAGTGGCGCTTTTCCCGC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCGC
* * * *
15993185 AAACGCCGCTATAGATCATGACTTTTAGCAGCGTTTTT
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTT
15993223 TTAATAAATA
Statistics
Matches: 190, Mismatches: 19, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
42 35 0.18
43 155 0.82
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCGC
Found at i:15993710 original size:45 final size:46
Alignment explanation
Indices: 15993659--15993745 Score: 140
Period size: 45 Copynumber: 1.9 Consensus size: 46
15993649 AATATATATT
*
15993659 ATGTAAGTTGTGTATAATA-TGATCAAGTTACGTAAGTTGTGTATA
1 ATGTAAGTTGTGTATAATATTAATCAAGTTACGTAAGTTGTGTATA
* *
15993704 ATGTAAGTTGTGTATAATATTAATTAAGTTATGTAAGTTGTG
1 ATGTAAGTTGTGTATAATATTAATCAAGTTACGTAAGTTGTG
15993746 AGTAATAGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
45 19 0.50
46 19 0.50
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (46 bp):
ATGTAAGTTGTGTATAATATTAATCAAGTTACGTAAGTTGTGTATA
Found at i:15993711 original size:16 final size:16
Alignment explanation
Indices: 15993690--15993721 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15993680 ATCAAGTTAC
15993690 GTAAGTTGTGTATAAT
1 GTAAGTTGTGTATAAT
15993706 GTAAGTTGTGTATAAT
1 GTAAGTTGTGTATAAT
15993722 ATTAATTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (16 bp):
GTAAGTTGTGTATAAT
Found at i:15993853 original size:15 final size:16
Alignment explanation
Indices: 15993822--15993858 Score: 58
Period size: 15 Copynumber: 2.3 Consensus size: 16
15993812 TTTACATTGA
15993822 CCCAAATACAACCCTAG
1 CCCAAATAC-ACCCTAG
15993839 CCCAAATAC-CCCTAG
1 CCCAAATACACCCTAG
15993854 CCCAA
1 CCCAA
15993859 GACCACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.55
17 9 0.45
ACGTcount: A:0.38, C:0.46, G:0.05, T:0.11
Consensus pattern (16 bp):
CCCAAATACACCCTAG
Found at i:15994181 original size:12 final size:11
Alignment explanation
Indices: 15994159--15994202 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 11
15994149 GTGATTTGCA
15994159 GTTTGTTTTCTT
1 GTTT-TTTTCTT
15994171 GGTTTTTTTCTT
1 -GTTTTTTTCTT
15994183 -TTTTTTTCTCT
1 GTTTTTTTCT-T
15994194 GTTTTTTTC
1 GTTTTTTTC
15994203 CTTTCTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 9 0.31
11 1 0.03
12 15 0.52
13 4 0.14
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.77
Consensus pattern (11 bp):
GTTTTTTTCTT
Found at i:15994824 original size:18 final size:18
Alignment explanation
Indices: 15994809--15994845 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15994799 TTAGTATTAT
15994809 TATTAGTATTATTATTTA
1 TATTAGTATTATTATTTA
15994827 TATTAGT-TTATATATTTA
1 TATTAGTATTAT-TATTTA
15994845 T
1 T
15994846 TTACATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TATTAGTATTATTATTTA
Found at i:15994831 original size:12 final size:12
Alignment explanation
Indices: 15994793--15994824 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
15994783 GTTATCATCG
*
15994793 TTATCATTAGTA
1 TTATTATTAGTA
15994805 TTATTATTAGTA
1 TTATTATTAGTA
15994817 TTATTATT
1 TTATTATT
15994825 TATATTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (12 bp):
TTATTATTAGTA
Found at i:15995211 original size:23 final size:24
Alignment explanation
Indices: 15995161--15995233 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 24
15995151 TCACATGTAT
* *
15995161 TATTT-ATTTAAAATTGATAT-G-
1 TATTTAATTTAAATTTTATATAGA
*
15995182 TATTTTAATTTAATTTTTATATA-A
1 TA-TTTAATTTAAATTTTATATAGA
* *
15995206 TATTTACTTTAAATTTTATTTAGA
1 TATTTAATTTAAATTTTATATAGA
15995230 TATT
1 TATT
15995234 ACTATATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
21 2 0.05
22 3 0.07
23 29 0.71
24 7 0.17
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (24 bp):
TATTTAATTTAAATTTTATATAGA
Found at i:15996306 original size:9 final size:9
Alignment explanation
Indices: 15996288--15996344 Score: 73
Period size: 9 Copynumber: 6.6 Consensus size: 9
15996278 ATTGTGTATA
15996288 ATGTAAGTT
1 ATGTAAGTT
*
15996297 ATGAAAGTT
1 ATGTAAGTT
15996306 ATGT-A-TT
1 ATGTAAGTT
15996313 ATGTAAGTT
1 ATGTAAGTT
*
15996322 ATTTAAGTT
1 ATGTAAGTT
15996331 ATGTAAGTT
1 ATGTAAGTT
*
15996340 GTGTA
1 ATGTA
15996345 TTAAAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
7 6 0.15
8 2 0.05
9 33 0.80
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:15996316 original size:25 final size:25
Alignment explanation
Indices: 15996282--15996335 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
15996272 TTCGACATTG
15996282 TGTATAATGTAAGTTATGAAAGTTA
1 TGTATAATGTAAGTTATGAAAGTTA
* **
15996307 TGTATTATGTAAGTTATTTAAGTTA
1 TGTATAATGTAAGTTATGAAAGTTA
15996332 TGTA
1 TGTA
15996336 AGTTGTGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (25 bp):
TGTATAATGTAAGTTATGAAAGTTA
Found at i:15996669 original size:24 final size:24
Alignment explanation
Indices: 15996642--15996697 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
15996632 TATATGAAAT
15996642 TATTTAATATATAAATTAAAAACA
1 TATTTAATATATAAATTAAAAACA
* *
15996666 TATTTAAAATATAAATTAAAAATA
1 TATTTAATATATAAATTAAAAACA
*
15996690 TAATTAAT
1 TATTTAAT
15996698 CTAAATCCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
TATTTAATATATAAATTAAAAACA
Found at i:15996689 original size:13 final size:12
Alignment explanation
Indices: 15996650--15996696 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
15996640 ATTATTTAAT
15996650 ATATAAATTAAAA
1 ATAT-AATTAAAA
* *
15996663 ACAT-ATTTAAA
1 ATATAATTAAAA
15996674 ATATAAATTAAAA
1 ATAT-AATTAAAA
15996687 ATATAATTAA
1 ATATAATTAA
15996697 TCTAAATCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
11 9 0.32
12 6 0.21
13 13 0.46
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (12 bp):
ATATAATTAAAA
Found at i:15996756 original size:22 final size:22
Alignment explanation
Indices: 15996731--15996773 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15996721 CCCATGAATC
15996731 CTTAAACCCTAAACCCCTAACT
1 CTTAAACCCTAAACCCCTAACT
**
15996753 CTTAGCCCCTAAACCCCTAAC
1 CTTAAACCCTAAACCCCTAAC
15996774 CACTAACCAC
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:0.44, G:0.02, T:0.21
Consensus pattern (22 bp):
CTTAAACCCTAAACCCCTAACT
Found at i:15996786 original size:22 final size:21
Alignment explanation
Indices: 15996735--15996789 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
15996725 TGAATCCTTA
*
15996735 AACCCTAAACCCCTAACTCTT
1 AACCCTAAACCCCTAACTCCT
*
15996756 AGCCCCTAAACCCCTAAC-CACT
1 A-ACCCTAAACCCCTAACTC-CT
15996778 AACCACTAAACC
1 AACC-CTAAACC
15996790 TTATATCCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.36, C:0.45, G:0.02, T:0.16
Consensus pattern (21 bp):
AACCCTAAACCCCTAACTCCT
Found at i:15996810 original size:21 final size:21
Alignment explanation
Indices: 15996784--15996829 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
15996774 CACTAACCAC
*
15996784 TAAACCTTATATCCC-AAACCT
1 TAAACCATA-ATCCCTAAACCT
15996805 TAAACCATAATCCCTAAACCT
1 TAAACCATAATCCCTAAACCT
15996826 TAAA
1 TAAA
15996830 ATGTAACTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAACCATAATCCCTAAACCT
Found at i:15997287 original size:41 final size:41
Alignment explanation
Indices: 15997183--15997382 Score: 150
Period size: 41 Copynumber: 4.9 Consensus size: 41
15997173 CGACGCTTTT
* * ** * *
15997183 TTAGCGGCACTTTTCCTGAAACGCCGCTAAAGCCTCAAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCA
* * * *
15997224 TTAGCGGCAC-ATTTCTAGAAACGCCGCTAAAGCCCCCCGCA
1 TTAGCGGCGCTTTTTC-AAAAACGCCGCTAAAGCCCCCAGCA
* * * * * *
15997265 TTAGCAGCGCTTTTTCAAAAACGCTGCGATATCCCCCATCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCA
* * * * * **
15997306 TTAGCGGTGCTTTTTAAAAAACGCTGCTAAATCTCTGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCA
** *
15997347 TTAGCGGCGCTTTTTTGAAAACGCCGCTAAAACCCC
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCC
15997383 GAAAGGTAAG
Statistics
Matches: 125, Mismatches: 32, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
40 3 0.02
41 118 0.94
42 4 0.03
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCA
Found at i:16002171 original size:57 final size:55
Alignment explanation
Indices: 16002088--16002403 Score: 193
Period size: 51 Copynumber: 5.6 Consensus size: 55
16002078 AAAAAAAAAG
* *
16002088 AAAAAAAATTGTTTGGGTGCTAGCCTGTCAATGGCCAGCACCACCTTTACGAGAAA
1 AAAAAAAATT-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACGAGAAA
* * * * * *
16002144 AAAAACAAATTTTTCGGGTGCTGGCCTGTTAATGGTCGGCACCA-ATATATGAAAAA
1 AAAAA-AAATTTTT-GGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACGAGAAA
** * * *
16002200 ATTAAAAAATATTTTTTTTGTGGTGGCCTGTCAATGGCCGGCAACACCTTTACG-G--G
1 A--AAAAAA-A-TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACGAGAAA
* ** * *
16002256 AAAAAAAA-TTTCGGGTATTGGCCTGTCAATGGCCGGCACCA-GTATACGAAAAAAATTGAAAAA
1 AAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACG------A--G---AA
16002319 CA
55 -A
* * *
16002321 AAAAAAAATTTTT-GGTGTTGGCCTGTTAATGGCCGGCACCACCTTTACG-G--G
1 AAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACGAGAAA
*
16002372 AAAAAAAATTTTCGGGTGCTGGCCTGTCAATG
1 AAAAAAAATTTTTGGGTGCTGGCCTGTCAATG
16002404 TATGTGTCTC
Statistics
Matches: 198, Mismatches: 37, Indels: 54
0.69 0.13 0.19
Matches are distributed among these distances:
50 5 0.03
51 39 0.20
52 16 0.08
53 1 0.01
54 6 0.03
56 18 0.09
57 33 0.17
58 28 0.14
59 10 0.05
65 34 0.17
66 8 0.04
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (55 bp):
AAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACGAGAAA
Found at i:16002230 original size:115 final size:113
Alignment explanation
Indices: 16002088--16002403 Score: 352
Period size: 116 Copynumber: 2.7 Consensus size: 113
16002078 AAAAAAAAAG
* * * *
16002088 AAAAAAAATTGTTTGGGTGCTAGCCTGTCAATGGCCAGCACCACCTTTACGAGAAAAAAAACAAA
1 AAAAAAAATT-TTT-GGTGGTGGCCTGTCAATGGCCGGCACCACCTTTACG-G--GAAAAA-AAA
* * *
16002153 TTTTTCGGGTGCTGGCCTGTTAATGGTCGGCACCAATATATG-AAAAAATT-A-A
60 -TTTTCGGGTGCTGGCCTGTCAATGGCCGGCACCAATATACGAAAAAAATTAACA
* ** * *
16002205 AAAATATTTTTTTTGTGGTGGCCTGTCAATGGCCGGCAACACCTTTACGGGAAAAAAAA-TTTCG
1 AAAAAAAATTTTTGGTGGTGGCCTGTCAATGGCCGGCACCACCTTTACGGGAAAAAAAATTTTCG
** *
16002269 GGTATTGGCCTGTCAATGGCCGGCACCAGTATACGAAAAAAATTGAAAAACA
66 GGTGCTGGCCTGTCAATGGCCGGCACCAATATACGAAAAAAATT----AACA
* *
16002321 AAAAAAAATTTTTGGTGTTGGCCTGTTAATGGCCGGCACCACCTTTACGGGAAAAAAAATTTTCG
1 AAAAAAAATTTTTGGTGGTGGCCTGTCAATGGCCGGCACCACCTTTACGGGAAAAAAAATTTTCG
16002386 GGTGCTGGCCTGTCAATG
66 GGTGCTGGCCTGTCAATG
16002404 TATGTGTCTC
Statistics
Matches: 167, Mismatches: 24, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
109 34 0.20
110 8 0.05
111 3 0.02
112 5 0.03
114 1 0.01
115 32 0.19
116 56 0.34
117 28 0.17
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (113 bp):
AAAAAAAATTTTTGGTGGTGGCCTGTCAATGGCCGGCACCACCTTTACGGGAAAAAAAATTTTCG
GGTGCTGGCCTGTCAATGGCCGGCACCAATATACGAAAAAAATTAACA
Found at i:16007010 original size:51 final size:52
Alignment explanation
Indices: 16006906--16007041 Score: 197
Period size: 51 Copynumber: 2.7 Consensus size: 52
16006896 TCGTATACTA
*
16006906 TGCCGGCCATTGACAAGCCAGCACCCGAAAAAAAAATTTCCCGTAAAGGTGG
1 TGCCGGCCATTGACAAGCCAACACCCGAAAAAAAAATTTCCCGTAAAGGTGG
* * *
16006958 TGCTGGCCATTGATAGGCCAACACCCGAAAAAAAAA-TTCCCGTAAAGGTGG
1 TGCCGGCCATTGACAAGCCAACACCCGAAAAAAAAATTTCCCGTAAAGGTGG
* *
16007009 TGCCGGCCATTGACAATCCACCA-CC-AAAAAAAA
1 TGCCGGCCATTGACAAGCCAACACCCGAAAAAAAA
16007042 TTTTTTTTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
49 8 0.11
50 2 0.03
51 33 0.44
52 32 0.43
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.15
Consensus pattern (52 bp):
TGCCGGCCATTGACAAGCCAACACCCGAAAAAAAAATTTCCCGTAAAGGTGG
Found at i:16007216 original size:113 final size:110
Alignment explanation
Indices: 16006955--16007365 Score: 483
Period size: 113 Copynumber: 3.7 Consensus size: 110
16006945 CCCGTAAAGG
* *
16006955 TGGTG-CTGGCCATTGATAGGCCAACACCCGAAAAAAAAA-TTCCCGTAAAGGTGGTGCCGGCCA
1 TGGTGACTGGCCATTGACAGGCCAACACCCGAAAAAAAAATTTCTCGTAAAGGTGGTGCCGGCCA
*
16007018 TTGACAATCCACCACCAAAAAAAATTTTTTTTTTAAATTTTTTCGTATAC
66 TTGACAAGCCACCACC---AAAAA-TTTTTTTTT-AATTTTTTCGTATAC
* *
16007068 TGGT-ACTGGCCATTGACAGGTCAGCACCCGAAAAAAAGAATTT-TCCGTAAAGGTGGTGCCGGC
1 TGGTGACTGGCCATTGACAGGCCAACACCCGAAAAAAA-AATTTCT-CGTAAAGGTGGTGCCGGC
16007131 CATTGACAAGCCACCACCAAGCAAATTTTTTTTTAATTTTTTCGTATAC
64 CATTGACAAGCCACCACCAA--AAATTTTTTTTTAATTTTTTCGTATAC
* * * * * * *
16007180 TGGTGCCTTGCTATTGATAGGCCAACACCCAAAAAAAATAATTTCTCGTAAAGGTGGTGTCGACC
1 TGGTGACTGGCCATTGACAGGCCAACACCCGAAAAAAA-AATTTCTCGTAAAGGTGGTGCCGGCC
* * ***
16007245 ATTGACAGGTCACCACCAAAAA-AAATTTTTAATTTTTTTCGTATAC
65 ATTGACAAGCCACCACCAAAAATTTTTTTTTAA-TTTTTTCGTATAC
* * * *
16007291 TGGTGAC-GGCCATTGACAGGCCAGCACTCGAAAAAAAAATTTCTCGTAAAGGTGGTGTCGGTCA
1 TGGTGACTGGCCATTGACAGGCCAACACCCGAAAAAAAAATTTCTCGTAAAGGTGGTGCCGGCCA
*
16007355 TTGACAGGCCA
66 TTGACAAGCCA
16007366 GTACCCAAAA
Statistics
Matches: 259, Mismatches: 30, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
109 35 0.14
110 31 0.12
111 22 0.08
112 21 0.08
113 107 0.41
114 6 0.02
115 37 0.14
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (110 bp):
TGGTGACTGGCCATTGACAGGCCAACACCCGAAAAAAAAATTTCTCGTAAAGGTGGTGCCGGCCA
TTGACAAGCCACCACCAAAAATTTTTTTTTAATTTTTTCGTATAC
Found at i:16007377 original size:52 final size:53
Alignment explanation
Indices: 16007192--16007378 Score: 182
Period size: 52 Copynumber: 3.5 Consensus size: 53
16007182 GTGCCTTGCT
* * *
16007192 ATTGATAGGCCAACACCCAAAAAAAATAATTTCTCGTAAAGGTGGTGTCGACC
1 ATTGACAGGCCAGCACCCAAAAAAAATAATTTCTCGTAAAGGTGGTGTCGGCC
* * * * * *
16007245 ATTGACAGGTCACCA-CCAAAAAAAATTTTTAATTTTTTTCGTATA-CTGGTGACGGCC
1 ATTGACAGGCCAGCACCCAAAAAAAA----TAA--TTTCTCGTAAAGGTGGTGTCGGCC
* * *
16007302 ATTGACAGGCCAGCACTCGAAAAAAA-AATTTCTCGTAAAGGTGGTGTCGGTC
1 ATTGACAGGCCAGCACCCAAAAAAAATAATTTCTCGTAAAGGTGGTGTCGGCC
*
16007354 ATTGACAGGCCAGTACCCAAAAAAA
1 ATTGACAGGCCAGCACCCAAAAAAA
16007379 TTTCTTTTTT
Statistics
Matches: 106, Mismatches: 20, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
51 9 0.08
52 41 0.39
53 14 0.13
56 3 0.03
57 22 0.21
58 17 0.16
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (53 bp):
ATTGACAGGCCAGCACCCAAAAAAAATAATTTCTCGTAAAGGTGGTGTCGGCC
Found at i:16012944 original size:77 final size:75
Alignment explanation
Indices: 16012809--16012952 Score: 198
Period size: 77 Copynumber: 1.9 Consensus size: 75
16012799 TAATAGTACG
* * * *
16012809 CAGCAAAGCTGACATATATTCAGTACAATGCAGCGATAAACCGTTGTATAGATATGTTGTAGTTA
1 CAGCAAAGCTGACATAGATACAGTACAATGCAGCGATAAACCGCTGTATAGATATGTTGAAGTTA
16012874 AAGATAAACA
66 AAGATAAACA
* * * *
16012884 CAGCAAAGCTGACGTAGATACAGTACAGTGCATTGCGGTAAACCGCTGTATAGATTTGTTGAAGT
1 CAGCAAAGCTGACATAGATACAGTACAATGCA--GCGATAAACCGCTGTATAGATATGTTGAAGT
16012949 TAAA
64 TAAA
16012953 TTGCCAGATC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
75 28 0.47
77 31 0.53
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (75 bp):
CAGCAAAGCTGACATAGATACAGTACAATGCAGCGATAAACCGCTGTATAGATATGTTGAAGTTA
AAGATAAACA
Found at i:16014462 original size:18 final size:18
Alignment explanation
Indices: 16014439--16014487 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
16014429 TTTTTTCCAT
*
16014439 AATAAAAAAAATAAATAA
1 AATAAAAAAAATAAAGAA
16014457 AAT-AAAAAAAT-AAGAA
1 AATAAAAAAAATAAAGAA
*
16014473 AACAAATAAAAATAA
1 AATAAA-AAAAATAA
16014488 CATCTACCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 6 0.23
17 10 0.38
18 9 0.35
19 1 0.04
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (18 bp):
AATAAAAAAAATAAAGAA
Found at i:16019731 original size:12 final size:11
Alignment explanation
Indices: 16019695--16019732 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
16019685 ATTTTATTAT
16019695 TTTAATA-AAA
1 TTTAATATAAA
16019705 TTTAATATTAAA
1 TTTAATA-TAAA
16019717 TTTAATATAATA
1 TTTAATATAA-A
16019729 TTTA
1 TTTA
16019733 TCTTGATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 7 0.28
11 3 0.12
12 15 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TTTAATATAAA
Found at i:16028828 original size:23 final size:23
Alignment explanation
Indices: 16028797--16028847 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
16028787 ACCTTCTTTC
* * *
16028797 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTTGAGATA
16028820 TTACAGTAGTAATTTTTGAGATA
1 TTACAGTAGTAATTTTTGAGATA
16028843 TTACA
1 TTACA
16028848 ATGAGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (23 bp):
TTACAGTAGTAATTTTTGAGATA
Found at i:16029753 original size:37 final size:37
Alignment explanation
Indices: 16029690--16029802 Score: 108
Period size: 37 Copynumber: 3.1 Consensus size: 37
16029680 ATTCTAAAAA
*
16029690 TAATATTATTTTAATAGTTTAATATTAAATTAA-ATT
1 TAATATTATCTTAATAGTTTAATATTAAATTAATATT
* *
16029726 TAATACTTATCTTAATAGTATT-TTATTAATTTAATATT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTAATATT
* * *
16029764 AAAGTGATTATCTTAATA-TTAAAT-TTAATTTAATATT
1 TAA-T-ATTATCTTAATAGTTTAATATTAAATTAATATT
16029801 TA
1 TA
16029803 TCTTAATAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
36 5 0.08
37 37 0.58
38 9 0.14
39 12 0.19
40 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.52
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAAATTAATATT
Found at i:16029759 original size:5 final size:6
Alignment explanation
Indices: 16029749--16029834 Score: 53
Period size: 6 Copynumber: 15.0 Consensus size: 6
16029739 AATAGTATTT
*
16029749 TATTAA T-TTAA TATTAAA GTGATT-A TCTTAA TATTAA -ATTTAA T-TTAA
1 TATTAA TATTAA TATT-AA -T-ATTAA TATTAA TATTAA TA-TTAA TATTAA
* *
16029797 TATTTA TCTTAA TA--AA TATT-A TATTAA T-TTAA TATTAA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA
16029835 AGTGATTAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 24
0.67 0.07 0.26
Matches are distributed among these distances:
4 4 0.06
5 23 0.37
6 28 0.45
7 3 0.05
8 1 0.02
9 3 0.05
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (6 bp):
TATTAA
Found at i:16029785 original size:68 final size:69
Alignment explanation
Indices: 16029708--16029842 Score: 227
Period size: 68 Copynumber: 2.0 Consensus size: 69
16029698 TTTTAATAGT
* *
16029708 TTAATATTAAATTAAATTTAATACTTATCTTAAT-AGTATTTTATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTAAATTTAATACTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
16029772 TATC
66 TATC
* *
16029776 TTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTAAATTTAATACTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
16029841 TA
66 TA
16029843 AGTTTAATTA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
68 32 0.52
69 30 0.48
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (69 bp):
TTAATATTAAATTAAATTTAATACTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
TATC
Found at i:16029842 original size:20 final size:18
Alignment explanation
Indices: 16029691--16029850 Score: 84
Period size: 19 Copynumber: 8.8 Consensus size: 18
16029681 TTCTAAAAAT
* *
16029691 AATATTATTTTAATAGTTT
1 AATATTAATTTAATA-TTA
* *
16029710 AATATTAAATTAA-ATTT
1 AATATTAATTTAATATTA
*
16029727 AATACTT-ATCTTAATAGTA
1 AATA-TTAAT-TTAATATTA
**
16029746 TTTTATTAATTTAATATTA
1 -AATATTAATTTAATATTA
16029765 AAGTGATT-ATCTTAATATTA
1 AA-T-ATTAAT-TTAATATTA
16029785 AAT-TTAATTTAATATT-
1 AATATTAATTTAATATTA
* * *
16029801 TATCTTAA-TAAATATT-
1 AATATTAATTTAATATTA
16029817 -ATATTAATTTAATATTA
1 AATATTAATTTAATATTA
16029834 AAGTGATTAAGTTTAAT
1 AA-T-ATTAA-TTTAAT
16029851 TATAGTTGAA
Statistics
Matches: 111, Mismatches: 14, Indels: 30
0.72 0.09 0.19
Matches are distributed among these distances:
15 6 0.05
16 16 0.14
17 22 0.20
18 10 0.09
19 28 0.25
20 23 0.21
21 6 0.05
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (18 bp):
AATATTAATTTAATATTA
Found at i:16033789 original size:22 final size:21
Alignment explanation
Indices: 16033742--16033789 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
16033732 TTGCAATGCT
16033742 TTTATATTTTAATAATTGATTA
1 TTTATATTTTAAT-ATTGATTA
16033764 -TTATATATTTAAT-TTGATTTA
1 TTTATAT-TTTAATATTGA-TTA
16033785 TTTAT
1 TTTAT
16033790 TTATAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 4 0.17
21 9 0.39
22 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTATATTTTAATATTGATTA
Found at i:16035236 original size:27 final size:27
Alignment explanation
Indices: 16035205--16035257 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
16035195 AACTATGTCG
16035205 TTGTATACTATTATCTTAATTTTTTCA
1 TTGTATACTATTATCTTAATTTTTTCA
*
16035232 TTGTATACTATTGTCTTAATTTTTTC
1 TTGTATACTATTATCTTAATTTTTTC
16035258 TTTCATCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.11, G:0.06, T:0.60
Consensus pattern (27 bp):
TTGTATACTATTATCTTAATTTTTTCA
Found at i:16046048 original size:17 final size:17
Alignment explanation
Indices: 16046026--16046059 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16046016 CTTAATTCGG
16046026 TAAGATTATTTTTCATA
1 TAAGATTATTTTTCATA
16046043 TAAGATTATTTTTCATA
1 TAAGATTATTTTTCATA
16046060 CCTTAATTCA
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:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
TAAGATTATTTTTCATA
Found at i:16048867 original size:17 final size:18
Alignment explanation
Indices: 16048845--16048949 Score: 81
Period size: 17 Copynumber: 5.8 Consensus size: 18
16048835 AATTCAAGAC
16048845 TTATGTAATG-TTTTAAA
1 TTATGTAATGATTTTAAA
* **
16048862 TTATGTAGTGATTCAAAGA
1 TTATGTAATGATTTTAA-A
*
16048881 CTTATGTAAT-ATTTTTAA
1 -TTATGTAATGATTTTAAA
* *
16048899 TTATGTAGTGATTTAAAGA
1 TTATGTAATGATTTTAA-A
*
16048918 TTTATGTAATGCTTTT-AA
1 -TTATGTAATGATTTTAAA
*
16048936 TTATGTAGTGATTT
1 TTATGTAATGATTT
16048950 AATTCGGGTA
Statistics
Matches: 67, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
17 29 0.43
18 11 0.16
19 7 0.10
20 20 0.30
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.50
Consensus pattern (18 bp):
TTATGTAATGATTTTAAA
Found at i:16048949 original size:37 final size:36
Alignment explanation
Indices: 16048840--16048951 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 36
16048830 GTGTTAATTC
*
16048840 AAGACTTATGTAATGTTTTAAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTT-AATTATGTAGTGATTTA
*
16048877 AAGACTTATGTAATATTTTTAATTATGTAGTGATTTA
1 AAGACTTATGTAAT-GTTTTAATTATGTAGTGATTTA
*
16048914 AAGATTTATGTAATGCTTTTAATTATGTAGTGATTTA
1 AAGACTTATGTAATG-TTTTAATTATGTAGTGATTTA
16048951 A
1 A
16048952 TTCGGGTAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
37 65 0.94
38 4 0.06
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (36 bp):
AAGACTTATGTAATGTTTTAATTATGTAGTGATTTA
Found at i:16048963 original size:9 final size:9
Alignment explanation
Indices: 16048949--16049040 Score: 112
Period size: 9 Copynumber: 9.6 Consensus size: 9
16048939 TGTAGTGATT
16048949 TAATTCGGG
1 TAATTCGGG
16048958 TAATTCGGG
1 TAATTCGGG
*
16048967 TAATTTGGG
1 TAATTCGGG
16048976 TAATTTTCGGG
1 TAA--TTCGGG
16048987 TAATTCGGG
1 TAATTCGGG
16048996 TAATTTTCGGG
1 TAA--TTCGGG
*
16049007 TAATTCGAG
1 TAATTCGGG
16049016 TAATTTTCGGG
1 TAA--TTCGGG
16049027 TAATTCGGG
1 TAATTCGGG
16049036 TAATT
1 TAATT
16049041 TTTAACCAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
9 48 0.66
11 25 0.34
ACGTcount: A:0.23, C:0.09, G:0.28, T:0.40
Consensus pattern (9 bp):
TAATTCGGG
Found at i:16048986 original size:20 final size:20
Alignment explanation
Indices: 16048949--16049042 Score: 156
Period size: 20 Copynumber: 4.8 Consensus size: 20
16048939 TGTAGTGATT
16048949 TAATTCGGGTAA--TTCGGG
1 TAATTCGGGTAATTTTCGGG
*
16048967 TAATTTGGGTAATTTTCGGG
1 TAATTCGGGTAATTTTCGGG
16048987 TAATTCGGGTAATTTTCGGG
1 TAATTCGGGTAATTTTCGGG
*
16049007 TAATTCGAGTAATTTTCGGG
1 TAATTCGGGTAATTTTCGGG
16049027 TAATTCGGGTAATTTT
1 TAATTCGGGTAATTTT
16049043 TAACCAAAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
18 11 0.16
20 59 0.84
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (20 bp):
TAATTCGGGTAATTTTCGGG
Found at i:16061013 original size:40 final size:40
Alignment explanation
Indices: 16060983--16061232 Score: 385
Period size: 40 Copynumber: 6.3 Consensus size: 40
16060973 GGACTAAGAT
* * * *
16060983 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
16061023 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
16061063 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
16061103 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
16061143 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
16061183 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
16061222 CCGAAGGCATT
1 CCGAAGGCATT
16061233 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
39 34 0.17
40 165 0.83
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:16061067 original size:80 final size:80
Alignment explanation
Indices: 16060930--16061232 Score: 387
Period size: 80 Copynumber: 3.8 Consensus size: 80
16060920 TTGAATGCTG
* * * * * * * *
16060930 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGCTAAG-TCCCGAAGGCAT
* * *
16060993 TTGTGCGAGATACTAAA
64 TCGTGCGAGTTATTAAA
*
16061010 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
16061075 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
* *
16061090 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
*
16061155 GTGCGAGTTGTTAAA
66 GTGCGAGTTATTAAA
* * * * *
16061170 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATT
16061233 TGAACGAGGA
Statistics
Matches: 200, Mismatches: 21, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
79 34 0.17
80 160 0.80
81 6 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:16061143 original size:120 final size:119
Alignment explanation
Indices: 16060930--16061232 Score: 401
Period size: 120 Copynumber: 2.5 Consensus size: 119
16060920 TTGAATGCTG
* * * * * * *
16060930 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
*
16060994 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
64 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
16061050 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTC
* ** *
16061115 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * * *
16061170 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATT
16061233 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
119 35 0.22
120 122 0.76
121 4 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:16065282 original size:3 final size:3
Alignment explanation
Indices: 16065274--16065301 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
16065264 TATTGGCACC
16065274 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
16065302 TTGATTTCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:16070394 original size:16 final size:16
Alignment explanation
Indices: 16070373--16070404 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16070363 GTTTTGTTGC
*
16070373 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
16070389 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
16070405 CTTTTAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:16096213 original size:29 final size:31
Alignment explanation
Indices: 16096181--16096240 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
16096171 AGATAATTTT
16096181 AAAGAG-TTT-TTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
16096210 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
16096241 TAATTTGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 6 0.21
30 3 0.10
31 20 0.69
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:16103347 original size:75 final size:75
Alignment explanation
Indices: 16103268--16103423 Score: 217
Period size: 75 Copynumber: 2.1 Consensus size: 75
16103258 AAGGCATATG
* *
16103268 ATAGAATACAATACAAAC-AGTTTTTGATTTTTTTCT-TAGATTGAAAATAAGTGTATATTATTG
1 ATAGAATACAATACAAACAAGTTTTTGAATTTCTTCTGTAGATTGAAAATAA--GTATATTATTG
16103331 ATATAAAATACA
64 ATATAAAATACA
* * * * *
16103343 ATAGAGTACAATATAAACAATTTTTTTAATTTCTTCTGTAGATTGTAAATAAGTATATTATTGAT
1 ATAGAATACAATACAAACAAGTTTTTGAATTTCTTCTGTAGATTGAAAATAAGTATATTATTGAT
16103408 ATAAAATACA
66 ATAAAATACA
16103418 ATAGAA
1 ATAGAA
16103424 AAAATTGTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
75 44 0.62
76 14 0.20
77 13 0.18
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (75 bp):
ATAGAATACAATACAAACAAGTTTTTGAATTTCTTCTGTAGATTGAAAATAAGTATATTATTGAT
ATAAAATACA
Found at i:16110760 original size:50 final size:50
Alignment explanation
Indices: 16110685--16110875 Score: 211
Period size: 50 Copynumber: 3.7 Consensus size: 50
16110675 TCTTGCACTA
* * **
16110685 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* ** *
16110735 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* *
16110785 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTG
* * *
16110841 CCAATGTCATGTTCCAAACATGGTCTTACATGGGA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
16110876 TCTCATCACC
Statistics
Matches: 117, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 81 0.69
53 2 0.02
56 34 0.29
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:16139289 original size:24 final size:24
Alignment explanation
Indices: 16139261--16139324 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
16139251 TTTCTACAAG
* *
16139261 ATTTAATATTGATTAGTATAATAT
1 ATTTAACATTGATTAGCATAATAT
*
16139285 ATTTAACATTTATTAGCATAATAT
1 ATTTAACATTGATTAGCATAATAT
* *
16139309 ATTTGACATTAATTAG
1 ATTTAACATTGATTAG
16139325 AATTAGGTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.47
Consensus pattern (24 bp):
ATTTAACATTGATTAGCATAATAT
Found at i:16141266 original size:3 final size:3
Alignment explanation
Indices: 16141256--16141298 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
16141246 AAGGAATATG
16141256 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
16141299 GTCAAGTGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:16141351 original size:20 final size:20
Alignment explanation
Indices: 16141326--16141364 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16141316 CAAATAAGAA
16141326 AAATATAATAATATAAAAAG
1 AAATATAATAATATAAAAAG
* *
16141346 AAATATTATATTATAAAAA
1 AAATATAATAATATAAAAA
16141365 TCAAATTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (20 bp):
AAATATAATAATATAAAAAG
Found at i:16151279 original size:25 final size:25
Alignment explanation
Indices: 16151245--16151333 Score: 90
Period size: 25 Copynumber: 3.6 Consensus size: 25
16151235 ATAATTCGCT
*
16151245 ACAAAAGCTTTCCAAATGATACGCC
1 ACAAAGGCTTTCCAAATGATACGCC
* * * *
16151270 ATAAAGGCTTTCTAGA-GAATTCGCC
1 ACAAAGGCTTTCCAAATG-ATACGCC
* *
16151295 ACAAAAGCTTTCCAAATGATACACC
1 ACAAAGGCTTTCCAAATGATACGCC
*
16151320 ACAAAGACTTTCCA
1 ACAAAGGCTTTCCA
16151334 GAGAATTTGC
Statistics
Matches: 49, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
24 1 0.02
25 47 0.96
26 1 0.02
ACGTcount: A:0.39, C:0.26, G:0.12, T:0.22
Consensus pattern (25 bp):
ACAAAGGCTTTCCAAATGATACGCC
Found at i:16151285 original size:50 final size:50
Alignment explanation
Indices: 16151226--16151349 Score: 185
Period size: 50 Copynumber: 2.5 Consensus size: 50
16151216 CACTACAACA
* * * *
16151226 ACTTTCTAGATAATTCGCTACAAAAGCTTTCCAAATGATACGCCATAAAG
1 ACTTTCTAGAGAATTCGCCACAAAAGCTTTCCAAATGATACACCACAAAG
*
16151276 GCTTTCTAGAGAATTCGCCACAAAAGCTTTCCAAATGATACACCACAAAG
1 ACTTTCTAGAGAATTCGCCACAAAAGCTTTCCAAATGATACACCACAAAG
* *
16151326 ACTTTCCAGAGAATTTGCCACAAA
1 ACTTTCTAGAGAATTCGCCACAAA
16151350 GGTTTTCTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 66 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (50 bp):
ACTTTCTAGAGAATTCGCCACAAAAGCTTTCCAAATGATACACCACAAAG
Found at i:16151356 original size:25 final size:25
Alignment explanation
Indices: 16151318--16151365 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
16151308 AAATGATACA
*
16151318 CCACAAAGACTTTCCAGAGAATTTG
1 CCACAAAGACTTTCCAAAGAATTTG
** *
16151343 CCACAAAGGTTTTCTAAAGAATT
1 CCACAAAGACTTTCCAAAGAATT
16151366 CTCGAGTTTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.27
Consensus pattern (25 bp):
CCACAAAGACTTTCCAAAGAATTTG
Found at i:16157276 original size:131 final size:131
Alignment explanation
Indices: 16157025--16157265 Score: 333
Period size: 131 Copynumber: 1.8 Consensus size: 131
16157015 TGAAACATCG
* * * *
16157025 AAAATAAAGAACATACTCATGATCACATCAGCGGCATCTCTTTCCTCTCAGCGTCGAGCAGCATA
1 AAAATAAAGAACATACCCATGATCACATCAGCGGCATCTCTGTCCTCTCAGCATCAAGCAGCATA
* * *
16157090 AACCAGTGCAGGCTACCTCGCCTCAGTTTGATTAGTACCTCTGCCCGGTACTCTCTGTCCTCGGT
66 AACCAGTGCAGGCTACCCCGCCTCAGTCTAATTAGTACCTCTGCCCGGTACTCTCTGTCCTCGGT
16157155 A
131 A
* * * *
16157156 AAAATAAAGAACGTACCCGTGATCACATCAGGGGCATCTCTGTCCTCTC-GACATCAAGCAGTAT
1 AAAATAAAGAACATACCCATGATCACATCAGCGGCATCTCTGTCCTCTCAG-CATCAAGCAGCAT
* *
16157220 AAACCAGTGTAGGCTACCCCGCTTCAGTCTAATTAGCT-CCTCTGCC
65 AAACCAGTGCAGGCTACCCCGCCTCAGTCTAATTAG-TACCTCTGCC
16157266 TGGTGATCTC
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
130 1 0.01
131 93 0.98
132 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (131 bp):
AAAATAAAGAACATACCCATGATCACATCAGCGGCATCTCTGTCCTCTCAGCATCAAGCAGCATA
AACCAGTGCAGGCTACCCCGCCTCAGTCTAATTAGTACCTCTGCCCGGTACTCTCTGTCCTCGGT
A
Found at i:16159942 original size:67 final size:67
Alignment explanation
Indices: 16159834--16159968 Score: 245
Period size: 67 Copynumber: 2.0 Consensus size: 67
16159824 TTTTCAATTT
*
16159834 AGAGAGCACACTCCTGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCTGCGAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTG
16159899 CA
66 CA
16159901 AGAGAGCACACT-CTCGCGAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCT
1 AGAGAGCACACTCCT-GCGAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCT
16159965 GCA
65 GCA
16159968 A
1 A
16159969 CGACAATTAC
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
66 2 0.03
67 64 0.97
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.21
Consensus pattern (67 bp):
AGAGAGCACACTCCTGCGAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTG
CA
Found at i:16160126 original size:57 final size:60
Alignment explanation
Indices: 16160038--16160180 Score: 177
Period size: 57 Copynumber: 2.4 Consensus size: 60
16160028 AATTCGGTTT
* * * *
16160038 ACTCGTCCGGACTAAATCCATTTTCCACATATTCTTCGAGAGGGCTATATC-A-A-GATC
1 ACTCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGAGAGGGATATATCGATAGGATC
*
16160095 ACTCGTCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGGATATATCAGGATAGGATC
1 ACTCGTCCGGGCTAGATCCTTTTTC-CACATATTCTTCGAGAGGGATATATC--GATAGGATC
*
16160157 ACCCGTCCGGGCTAGATCCTTTTT
1 ACTCGTCCGGGCTAGATCCTTTTT
16160181 ACTGTCAATT
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
56 6 0.08
57 39 0.53
60 1 0.01
61 1 0.01
62 20 0.27
63 6 0.08
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (60 bp):
ACTCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGAGAGGGATATATCGATAGGATC
Found at i:16163159 original size:12 final size:13
Alignment explanation
Indices: 16163142--16163171 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
16163132 GCCTAGCCTG
16163142 TGTGGCATGTCC-
1 TGTGGCATGTCCA
16163154 TGTGGCATGTCCA
1 TGTGGCATGTCCA
16163167 TGTGG
1 TGTGG
16163172 GCCCACACGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.10, C:0.20, G:0.37, T:0.33
Consensus pattern (13 bp):
TGTGGCATGTCCA
Found at i:16173206 original size:14 final size:14
Alignment explanation
Indices: 16173187--16173220 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
16173177 GCTTGTAGGA
16173187 AACTTTGACTATCG
1 AACTTTGACTATCG
16173201 AACTTTGACTATCG
1 AACTTTGACTATCG
16173215 AACTTT
1 AACTTT
16173221 TTGTTACAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (14 bp):
AACTTTGACTATCG
Found at i:16177425 original size:31 final size:31
Alignment explanation
Indices: 16177390--16177451 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
16177380 GCTTAATGGT
16177390 GATTGGCGTGGCATTAAATCAAATGTTAAAC
1 GATTGGCGTGGCATTAAATCAAATGTTAAAC
16177421 GATTGGCGTGGCATTAAATCAAATGTTAAAC
1 GATTGGCGTGGCATTAAATCAAATGTTAAAC
16177452 TAATTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (31 bp):
GATTGGCGTGGCATTAAATCAAATGTTAAAC
Found at i:16183119 original size:27 final size:24
Alignment explanation
Indices: 16183063--16183111 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
16183053 CAAAGGGAAA
*
16183063 AAAAGAAAGAAAAAAGATTGCAGT
1 AAAAGAAAGAAAAAAAATTGCAGT
16183087 AAAAGAAAGGAAAAAAAATT-CAGT
1 AAAAGAAA-GAAAAAAAATTGCAGT
16183111 A
1 A
16183112 GCCAAAGAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.65, C:0.04, G:0.18, T:0.12
Consensus pattern (24 bp):
AAAAGAAAGAAAAAAAATTGCAGT
Found at i:16185730 original size:50 final size:50
Alignment explanation
Indices: 16185643--16185829 Score: 126
Period size: 50 Copynumber: 3.7 Consensus size: 50
16185633 CATTGCAGTA
* * * * * * *
16185643 AAAAGACTAAAGCCACAGCGGCGAGTGTTACTTCCTTGGTGATGCAGTCG
1 AAAAGATTAAAGCCACAACGGTGAATCTTGCTCCCTTGGTGATGCAGTCG
* * ** * **
16185693 AATAGAATAAAGCCACAACGGTGAATCTTGCTCCCTT-GACATTGCGGTTA
1 AAAAGATTAAAGCCACAACGGTGAATCTTGCTCCCTTGGTGA-TGCAGTCG
* * * * ** * *
16185743 AAAAGATTAAAGCTACAACAGCGAATCTT-ATCTCCAAGGTGGTGCAGTGG
1 AAAAGATTAAAGCCACAACGGTGAATCTTGCTC-CCTTGGTGATGCAGTCG
*
16185793 AACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCT
1 AAAAGATTAAAGCCACAACGGTGAATCTTG-CTCCCT
16185830 GACATTGCGG
Statistics
Matches: 99, Mismatches: 33, Indels: 9
0.70 0.23 0.06
Matches are distributed among these distances:
49 4 0.04
50 90 0.91
51 3 0.03
52 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.23
Consensus pattern (50 bp):
AAAAGATTAAAGCCACAACGGTGAATCTTGCTCCCTTGGTGATGCAGTCG
Found at i:16185804 original size:100 final size:100
Alignment explanation
Indices: 16185568--16185938 Score: 428
Period size: 100 Copynumber: 3.7 Consensus size: 100
16185558 AGAATTTAAG
* * * * * * *
16185568 ATCTTATCTCCCT-GGCGATGCAGTGGAGCATATTAAAGCCACGACGGCGTATCTTGCTTCCCCG
1 ATCTTATCT-CCTAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
* * * *
16185632 ACATTGCAG-TAAAAAGACTAAAGCCACAGCGGCGA
65 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
* * * * * * *
16185667 GTGTTA-CTTCCTTGGTGATGCAGTCGAATAGAATAAAGCCACAACGGTGAATCTTG-CTCCCTT
1 ATCTTATC-TCCTAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCC-T
*
16185730 GACATTGCGGTTAAAAAGATTAAAGCTACAACAGCGA
64 GACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
* * *
16185767 ATCTTATCTCCAAGGTGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
1 ATCTTATCTCCTAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
* *
16185832 CATTGCGGTTAAAAAGATTAAAGCTATAGCAACGA
66 CATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
* * * *
16185867 ATCCTACCTCCTAGGCGGTGCAGTGGAACAGATTAAAGCCA-TACGGTGAATCTTGCCTCCCTGA
1 ATCTTATCTCCTAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
16185931 CATTGCGG
66 CATTGCGG
16185939 CTACAGCAGC
Statistics
Matches: 232, Mismatches: 34, Indels: 12
0.83 0.12 0.04
Matches are distributed among these distances:
98 8 0.03
99 78 0.34
100 140 0.60
101 6 0.03
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (100 bp):
ATCTTATCTCCTAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
CATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
Found at i:16185850 original size:50 final size:49
Alignment explanation
Indices: 16185700--16185855 Score: 159
Period size: 50 Copynumber: 3.1 Consensus size: 49
16185690 TCGAATAGAA
16185700 TAAAGCCACAACGGTGAATCTTGCTCCCTTGACATTGCGGTTAAAAAGAT
1 TAAAGCCACAACGGTGAATCTTGCTCCC-TGACATTGCGGTTAAAAAGAT
* * * * ** **** * ** *
16185750 TAAAGCTACAACAGCGAATCTTATCTCCAAGGTGGTGCAGTGGAACAGAT
1 TAAAGCCACAACGGTGAATCTT-GCTCCCTGACATTGCGGTTAAAAAGAT
16185800 TAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAGAT
1 TAAAGCCACAACGGTGAATCTTG-CTCCCTGACATTGCGGTTAAAAAGAT
16185850 TAAAGC
1 TAAAGC
16185856 TATAGCAACG
Statistics
Matches: 76, Mismatches: 28, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
50 72 0.95
51 4 0.05
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (49 bp):
TAAAGCCACAACGGTGAATCTTGCTCCCTGACATTGCGGTTAAAAAGAT
Found at i:16190411 original size:17 final size:17
Alignment explanation
Indices: 16190389--16190430 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
16190379 TCAGTAATAT
16190389 TATTATTAATCTATTAG
1 TATTATTAATCTATTAG
* *
16190406 TATTATTAATTTATTAT
1 TATTATTAATCTATTAG
16190423 TATTATTA
1 TATTATTA
16190431 TCACCGTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTATTAATCTATTAG
Found at i:16190411 original size:20 final size:20
Alignment explanation
Indices: 16190386--16190431 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
16190376 TATTCAGTAA
16190386 TATTATT-ATTAATCTATTAG
1 TATTATTAATTAAT-TATTAG
* *
16190406 TATTATTAATTTATTATTAT
1 TATTATTAATTAATTATTAG
16190426 TATTAT
1 TATTAT
16190432 CACCGTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TATTATTAATTAATTATTAG
Found at i:16196634 original size:44 final size:44
Alignment explanation
Indices: 16196583--16197139 Score: 250
Period size: 44 Copynumber: 12.7 Consensus size: 44
16196573 GCCAAAAATA
*
16196583 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC
* * * ** *
16196627 CTATCTCCCTGAGATTATAGTGGAGCGGATT-AAAATAAAG-GATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT--AGTAATC
* * * * * * *
16196671 TTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-TTAG--GTC
1 TTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAGTAATC
* ** * * *
16196712 TTGTCTCCCTGAGATTACAGTGGAATAGACTGAAG-AATTTCAGATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTA-GT-A-ATC
*** *
16196758 TTATCTCCCTGAGATTACAGCAAAGCAGATTGAAGCTGGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC
* ** ** *
16196802 CTATCTCCCTGAGATTACAGTGGAGTGGATT-AAAATAAAG-GATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT--AGTAATC
* * * * * * *
16196846 TTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATC-AG--GTC
1 TTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAGTAATC
* * ** ** ** *
16196887 TTATCTCTCTGAGATTACAATGGAATAGACCGAAGAAATTCAGATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGT-A-ATC
* *
16196933 TTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC
* * * ** *
16196977 CTATCTCCCTGAGATTATAGTGGAGCGGATT-AAAATAAAG-GATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT--AGTAATC
** ** * * *
16197021 -T-TCTCCCTGAGATTACAGTGGAATAGACCGGAG-AATTTCAGATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTA-GT-A-ATC
* * *
16197065 ATATCTCCCTGAGACTACAGCGGAGCAGATTGAAGCTAGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC
* *
16197109 CTATCTCCCTGAGATTACAGTGGAGCGGATT
1 TTATCTCCCTGAGATTACAGTGGAGCAGATT
16197140 AAAATAAAGG
Statistics
Matches: 375, Mismatches: 106, Indels: 64
0.69 0.19 0.12
Matches are distributed among these distances:
40 1 0.00
41 57 0.15
42 29 0.08
43 13 0.03
44 173 0.46
45 11 0.03
46 90 0.24
47 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC
Found at i:16196792 original size:46 final size:44
Alignment explanation
Indices: 16196710--16196822 Score: 104
Period size: 46 Copynumber: 2.5 Consensus size: 44
16196700 TCGCATTAGG
* ** * *
16196710 TCTTGTCTCCCTGAGATTACAGTGGAATAGACTGAAGAAT-TTCAGA
1 TCTTATCTCCCTGAGATTACAGTCAAACAGACTGAAG-ATGGT-A-A
* *
16196756 TCTTATCTCCCTGAGATTACAG-CAAAGCAGATTGAAGCTGGTAA
1 TCTTATCTCCCTGAGATTACAGTCAAA-CAGACTGAAGATGGTAA
*
16196800 TCCTATCTCCCTGAGATTACAGT
1 TCTTATCTCCCTGAGATTACAGT
16196823 GGAGTGGATT
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
44 22 0.39
45 4 0.07
46 30 0.54
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTCAAACAGACTGAAGATGGTAA
Found at i:16196874 original size:175 final size:175
Alignment explanation
Indices: 16196583--16197022 Score: 772
Period size: 175 Copynumber: 2.5 Consensus size: 175
16196573 GCCAAAAATA
16196583 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAGT
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAGT
*
16196648 GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATTAGGTCT
66 GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
* * * *
16196713 TGTCTCCCTGAGATTACAGTGGAATAGACTGAAGAATTTCAGATC
131 TATCTCCCTGAGATTACAATGGAATAGACCGAAGAAATTCAGATC
** * *
16196758 TTATCTCCCTGAGATTACAGCAAAGCAGATTGAAGCTGGTAATCCTATCTCCCTGAGATTACAGT
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAGT
*
16196823 GGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
66 GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
*
16196888 TATCTCTCTGAGATTACAATGGAATAGACCGAAGAAATTCAGATC
131 TATCTCCCTGAGATTACAATGGAATAGACCGAAGAAATTCAGATC
*
16196933 TTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAGT
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAGT
16196998 GGAGCGGATTAAAATAAAGGATCTT
66 GGAGCGGATTAAAATAAAGGATCTT
16197023 CTCCCTGAGA
Statistics
Matches: 248, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
175 248 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (175 bp):
TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAGT
GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
TATCTCCCTGAGATTACAATGGAATAGACCGAAGAAATTCAGATC
Found at i:16197064 original size:132 final size:132
Alignment explanation
Indices: 16196890--16197207 Score: 537
Period size: 132 Copynumber: 2.4 Consensus size: 132
16196880 TCAGGTCTTA
* * * *
16196890 TCTCTCTGAGATTACAATGGAATAGACCGAAGAAATTCAGATCTTATCTCTCTGAGATTACAGCG
1 TCTCTCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGACTACAGCG
*
16196955 GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAGTGGAGCGGATTAAAATAAAGGAT
66 GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGAT
16197020 CT
131 CT
* * *
16197022 TCTCCCTGAGATTACAGTGGAATAGACCGGAGAATTTCAGATCATATCTCCCTGAGACTACAGCG
1 TCTCTCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGACTACAGCG
16197087 GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGAT
66 GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGAT
16197152 CT
131 CT
* * *
16197154 TATCTCTGAGATTGCAGTGGAATAGACCGAAGAATTTCAAATCTTATCTCCCTG
1 TCTCTCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTG
16197208 GCGATGCAGT
Statistics
Matches: 172, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 172 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (132 bp):
TCTCTCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGACTACAGCG
GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGAT
CT
Found at i:16197375 original size:100 final size:99
Alignment explanation
Indices: 16197201--16197571 Score: 435
Period size: 100 Copynumber: 3.7 Consensus size: 99
16197191 CAAATCTTAT
** * * * *
16197201 CTCCCTGGCGATGCAGTGGAGTAGATTAAAGCCACGACGG-CATATCTTGCTTCCCCGACATTGC
1 CTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGA-ATCTTGCCTCCCTGACATTGC
* * * *
16197265 AGTTAAAAAGACTAAAGCCACAGCGGCGAGTGTCAC
65 GGTTAAAAAGATTAAAGCCACAGCAGCGAAT-TCAC
* * *
16197301 TTCCCTGGCGATGCAGTCGAACAGATTAAAGCCACAACGGTGAATCTTG-CTCCCTTGACATTAC
1 CTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCC-TGACATTGC
* *
16197365 GGTTAAAAAGATTAAAGCTACAGCAGCGAATCTTAC
65 GGTTAAAAAGATTAAAGCCACAGCAGCGAAT-TCAC
* * *
16197401 CTCCAAT-GCGGTGCAGTGGAACACATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGC
1 CTCC-CTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGC
* * *
16197465 GGTTAAAAAGATTAAAGCGATAGCAGCGAATCCTAC
65 GGTTAAAAAGATTAAAGCCACAGCAGCGAATTC-AC
* *
16197501 CTCCCAGGC-AGTGCAGTGGAACAGATTAAAGCCATAACGGTGAATCTTGCCTCCCTGACATTGC
1 CTCCCTGGCGA-TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGC
*
16197565 GGCTAAA
65 GGTTAAA
16197572 GCAGCGAATC
Statistics
Matches: 232, Mismatches: 32, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
99 4 0.02
100 221 0.95
101 7 0.03
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.22
Consensus pattern (99 bp):
CTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCG
GTTAAAAAGATTAAAGCCACAGCAGCGAATTCAC
Found at i:16197377 original size:50 final size:49
Alignment explanation
Indices: 16197223--16197571 Score: 173
Period size: 50 Copynumber: 7.0 Consensus size: 49
16197213 GCAGTGGAGT
* * * *
16197223 AGATTAAAGCCACGACGG-CATATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGA-ATCTTGC-TCCCTGACATTGCGGTTAAAA
* * * * * ** * * ** *
16197273 AGACTAAAGCCACAGCGGCGAGTGTCACTTCCCTGGCGA-TGCAGTCGAAC
1 AGATTAAAGCCACAACGGTGAATCTTGC-TCCCTGAC-ATTGCGGTTAAAA
*
16197323 AGATTAAAGCCACAACGGTGAATCTTGCTCCCTTGACATTACGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTCCC-TGACATTGCGGTTAAAA
* * * * * * ** * ** *
16197373 AGATTAAAGCTACAGCAGCGAATCTTACCTCCAATG-CGGTGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTT-GCTCC-CTGACATTGCGGTTAAAA
*
16197423 ACATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTG-CTCCCTGACATTGCGGTTAAAA
* * * * * ** * * * * ** *
16197473 AGATTAAAGCGATAGCAGCGAATCCTACCTCCCAGGCAGTGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAAT-CTTGCTCCCTGACATTGCGGTTAAAA
* *
16197523 AGATTAAAGCCATAACGGTGAATCTTGCCTCCCTGACATTGCGGCTAAA
1 AGATTAAAGCCACAACGGTGAATCTTG-CTCCCTGACATTGCGGTTAAA
16197572 GCAGCGAATC
Statistics
Matches: 209, Mismatches: 80, Indels: 20
0.68 0.26 0.06
Matches are distributed among these distances:
49 9 0.04
50 190 0.91
51 10 0.05
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (49 bp):
AGATTAAAGCCACAACGGTGAATCTTGCTCCCTGACATTGCGGTTAAAA
Found at i:16197630 original size:86 final size:85
Alignment explanation
Indices: 16197486--16197649 Score: 258
Period size: 86 Copynumber: 1.9 Consensus size: 85
16197476 TTAAAGCGAT
*
16197486 AGCAGCGAATCCTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCATAACGGTGAATCTTGC
1 AGCAGCGAATCCTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
*
16197551 CTCCCTGACATTGCGGCTAA
66 CTCCCCGACATTGCGGCTAA
* *
16197571 AGCAGCGAATCTTACACTCCCAGGCAGTGTAGT-GAAGCAGATTAAAGCCACAACGGTGAATCTT
1 AGCAGCGAATCCTAC-CTCCCAGGCAGTGCAGTGGAA-CAGATTAAAGCCACAACGGTGAATCTT
*
16197635 GCTTCCCCGACATTG
64 GCCTCCCCGACATTG
16197650 TAGTTAAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
85 17 0.24
86 55 0.76
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (85 bp):
AGCAGCGAATCCTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
CTCCCCGACATTGCGGCTAA
Found at i:16199084 original size:17 final size:17
Alignment explanation
Indices: 16199062--16199101 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
16199052 TCAGTAATAT
16199062 TATTATTAATCTATTAG
1 TATTATTAATCTATTAG
* *
16199079 TATTATTAATTTATTAT
1 TATTATTAATCTATTAG
16199096 TATTAT
1 TATTAT
16199102 CACCGTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (17 bp):
TATTATTAATCTATTAG
Found at i:16199096 original size:14 final size:16
Alignment explanation
Indices: 16199059--16199100 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
16199049 TATTCAGTAA
16199059 TATTATTATTAATCTAT
1 TATTATTATTAA-CTAT
*
16199076 TAGTATTATTAA-T-T
1 TATTATTATTAACTAT
16199090 TATTATTATTA
1 TATTATTATTA
16199101 TCACCGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 11 0.48
15 1 0.04
17 11 0.48
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTATTATTAACTAT
Found at i:16201337 original size:47 final size:48
Alignment explanation
Indices: 16201254--16201362 Score: 139
Period size: 47 Copynumber: 2.2 Consensus size: 48
16201244 TTGCACATCG
*
16201254 TCACATATCACACACCGAAGCCATAGCCCAGCTATGGTCTTACACGGAAA
1 TCACATAT--CACACCGAAGCCATAGCCCAGATATGGTCTTACACGGAAA
* * * * *
16201304 -CACATATCACACCGATGCCATATCCTAGATATGGTCTTATATGGAAA
1 TCACATATCACACCGAAGCCATAGCCCAGATATGGTCTTACACGGAAA
16201351 TCACATATCACA
1 TCACATATCACA
16201363 TCACACCGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
47 34 0.65
48 11 0.21
49 7 0.13
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (48 bp):
TCACATATCACACCGAAGCCATAGCCCAGATATGGTCTTACACGGAAA
Found at i:16201372 original size:53 final size:53
Alignment explanation
Indices: 16201309--16201416 Score: 146
Period size: 53 Copynumber: 2.0 Consensus size: 53
16201299 GGAAACACAT
* * * *
16201309 ATCACACCGATGCCATATCCTAGATATGGTCTTATATGGAAATCACAT-ATCAC
1 ATCACACCGATACCATAACCTAGATATGGTCTTATACGG-AAGCACATAATCAC
* *
16201362 ATCACACCGATACCATAACCTAGCTATGGTTTTATACGGAAGCACATAATCAC
1 ATCACACCGATACCATAACCTAGATATGGTCTTATACGGAAGCACATAATCAC
16201415 AT
1 AT
16201417 TTTGACATGT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
52 7 0.15
53 41 0.85
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (53 bp):
ATCACACCGATACCATAACCTAGATATGGTCTTATACGGAAGCACATAATCAC
Found at i:16206610 original size:79 final size:78
Alignment explanation
Indices: 16206478--16206641 Score: 229
Period size: 79 Copynumber: 2.1 Consensus size: 78
16206468 TGCAATTGTA
** * * *
16206478 TTCTGTTTGTAAACAGAAATCAATTAAACAATTCTGTTTCAGGATTTTATTCCTGCTGTTCAACA
1 TTCTGTTTCCAAACAGAAATCAATTAAACAATTCTGTTTCAGGATTCTATTCCTCCTATTCAACA
* *
16206543 TAATTTGTTCAAT
66 GAATTTATTCAAT
* *
16206556 TCTCTGTTTCCAAACAGAAATCAATTAAACAATTCTGTTTTAGGATTCTATTCCTCCTATTCAAT
1 T-TCTGTTTCCAAACAGAAATCAATTAAACAATTCTGTTTCAGGATTCTATTCCTCCTATTCAAC
*
16206621 AGAATTTATTCGAT
65 AGAATTTATTCAAT
16206635 TTCTGTT
1 TTCTGTT
16206642 GTTAATAGTA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
78 7 0.09
79 68 0.91
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (78 bp):
TTCTGTTTCCAAACAGAAATCAATTAAACAATTCTGTTTCAGGATTCTATTCCTCCTATTCAACA
GAATTTATTCAAT
Found at i:16217533 original size:15 final size:15
Alignment explanation
Indices: 16217513--16217543 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16217503 TTTACAATGT
16217513 TTATCTGAAGGATGC
1 TTATCTGAAGGATGC
16217528 TTATCTGAAGGATGC
1 TTATCTGAAGGATGC
16217543 T
1 T
16217544 GTAGTGGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (15 bp):
TTATCTGAAGGATGC
Found at i:16219579 original size:21 final size:21
Alignment explanation
Indices: 16219567--16219649 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
16219557 ATGGGTTTCT
16219567 GTTAAGCTCTTATGAGCTTCC
1 GTTAAGCTCTTATGAGCTTCC
* *
16219588 GTTCAGCTCTTACGAGCTTCC
1 GTTAAGCTCTTATGAGCTTCC
* * * *
16219609 GTTCAACCT-TTATGGGTTTCT
1 GTT-AAGCTCTTATGAGCTTCC
* *
16219630 GTTTAGCTCTCATGAGCTTC
1 GTTAAGCTCTTATGAGCTTC
16219650 TATTTAGCCT
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 3 0.06
21 41 0.87
22 3 0.06
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.40
Consensus pattern (21 bp):
GTTAAGCTCTTATGAGCTTCC
Found at i:16219623 original size:63 final size:63
Alignment explanation
Indices: 16219524--16219649 Score: 182
Period size: 63 Copynumber: 2.0 Consensus size: 63
16219514 TACGAGTTTT
* * * *
16219524 CGTTCAGCTCTATTGAGCTTCTATTTAACCTTTATGGGTTTCTGTTAAGCTCTTATGAGCTTC
1 CGTTCAGCTCTATCGAGCTTCCATTCAACCTTTATGGGTTTCTGTTAAGCTCTCATGAGCTTC
* *
16219587 CGTTCAGCTCT-TACGAGCTTCCGTTCAACCTTTATGGGTTTCTGTTTAGCTCTCATGAGCTTC
1 CGTTCAGCTCTAT-CGAGCTTCCATTCAACCTTTATGGGTTTCTGTTAAGCTCTCATGAGCTTC
16219650 TATTTAGCCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
62 1 0.02
63 55 0.98
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (63 bp):
CGTTCAGCTCTATCGAGCTTCCATTCAACCTTTATGGGTTTCTGTTAAGCTCTCATGAGCTTC
Found at i:16220493 original size:42 final size:42
Alignment explanation
Indices: 16220390--16220501 Score: 161
Period size: 42 Copynumber: 2.7 Consensus size: 42
16220380 TATTTTCGTC
* * * *
16220390 CACATGGGTGTGTGTCTTAGCCGTGTGAGACACACGACCTAG
1 CACATGGGAGTGTGTTTTGGCCGTGTGTGACACACGACCTAG
* *
16220432 CACATGGGCGTGTGGTTTGGCCGTGTGTGACACACGACCTAG
1 CACATGGGAGTGTGTTTTGGCCGTGTGTGACACACGACCTAG
*
16220474 CACATGGGAGTGTGTTTTGGTCGTGTGT
1 CACATGGGAGTGTGTTTTGGCCGTGTGT
16220502 CCTCTGCATC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.17, C:0.21, G:0.35, T:0.28
Consensus pattern (42 bp):
CACATGGGAGTGTGTTTTGGCCGTGTGTGACACACGACCTAG
Found at i:16228469 original size:13 final size:13
Alignment explanation
Indices: 16228451--16228480 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
16228441 AGTTTAGTGG
16228451 TACAAATTATAAT
1 TACAAATTATAAT
16228464 TACAAATTATAAT
1 TACAAATTATAAT
16228477 TACA
1 TACA
16228481 TATTTTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
TACAAATTATAAT
Found at i:16229701 original size:24 final size:24
Alignment explanation
Indices: 16229669--16229720 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
16229659 AATCAAAGTC
* *
16229669 AAATATATTATGCACATAAATGCT
1 AAATATATTATACACATAAATACT
* *
16229693 AAATTTATTATACTCATAAATACT
1 AAATATATTATACACATAAATACT
16229717 AAAT
1 AAAT
16229721 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACACATAAATACT
Found at i:16234045 original size:24 final size:24
Alignment explanation
Indices: 16233995--16234046 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
16233985 AATCAAAGTC
* **
16233995 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
* *
16234019 AAATATGTTATACTTATAAATACT
1 AAATATATTATACTAATAAATACT
16234043 AAAT
1 AAAT
16234047 CTTCTAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:16241034 original size:22 final size:22
Alignment explanation
Indices: 16240992--16241034 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16240982 GTATAACTTG
**
16240992 CAAGAAAATAAACATTTTTAAT
1 CAAGAAAATAAACATACTTAAT
16241014 CAAGAAAATAAACATACTTAA
1 CAAGAAAATAAACATACTTAA
16241035 AATAACATAA
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:0.58, C:0.12, G:0.05, T:0.26
Consensus pattern (22 bp):
CAAGAAAATAAACATACTTAAT
Found at i:16243208 original size:30 final size:30
Alignment explanation
Indices: 16243166--16243224 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
16243156 ATAATTAATA
*
16243166 TATTATGAAAATT-TTGAAAATTTATAAAAC
1 TATTATGAAAATTATAGAAAA-TTATAAAAC
16243196 TATTATTG-AAATTATAGAAAATTATAAAA
1 TATTA-TGAAAATTATAGAAAATTATAAAA
16243225 AATAGAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.39
Consensus pattern (30 bp):
TATTATGAAAATTATAGAAAATTATAAAAC
Found at i:16243331 original size:20 final size:21
Alignment explanation
Indices: 16243306--16243362 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
16243296 TTTAGAAATG
16243306 ATAGAAAA-ATATAAAAATTT
1 ATAGAAAACATATAAAAATTT
16243326 ATAGAAAACTATATAAAAA-TT
1 ATAGAAAAC-ATATAAAAATTT
*
16243347 ATA-AAAACATGTAAAA
1 ATAGAAAACATATAAAA
16243363 CTTATAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
19 7 0.21
20 13 0.38
21 5 0.15
22 9 0.26
ACGTcount: A:0.65, C:0.04, G:0.05, T:0.26
Consensus pattern (21 bp):
ATAGAAAACATATAAAAATTT
Found at i:16243361 original size:19 final size:20
Alignment explanation
Indices: 16243314--16243372 Score: 75
Period size: 19 Copynumber: 2.9 Consensus size: 20
16243304 TGATAGAAAA
16243314 ATATAAAAATTTATAGAAAACT
1 ATATAAAAA-TTATA-AAAACT
16243336 ATATAAAAATTATAAAAAC-
1 ATATAAAAATTATAAAAACT
* *
16243355 ATGTAAAACTTATAAAAA
1 ATATAAAAATTATAAAAA
16243373 TTTTGTTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 16 0.46
20 5 0.14
21 5 0.14
22 9 0.26
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (20 bp):
ATATAAAAATTATAAAAACT
Found at i:16243372 original size:10 final size:10
Alignment explanation
Indices: 16243315--16243372 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
16243305 GATAGAAAAA
*
16243315 TATAAAAATT
1 TATAAAAACT
16243325 TATAGAAAACT
1 TATA-AAAACT
16243336 ATATAAAAA-T
1 -TATAAAAACT
*
16243346 TATAAAAACA
1 TATAAAAACT
*
16243356 TGT-AAAACT
1 TATAAAAACT
16243365 TATAAAAA
1 TATAAAAA
16243373 TTTTGTTAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
9 15 0.38
10 11 0.28
11 9 0.23
12 4 0.10
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.29
Consensus pattern (10 bp):
TATAAAAACT
Found at i:16263111 original size:106 final size:106
Alignment explanation
Indices: 16262923--16263123 Score: 384
Period size: 106 Copynumber: 1.9 Consensus size: 106
16262913 NNNNNNNNNN
16262923 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
16262988 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
66 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
*
16263029 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
16263094 TTCTCGTTCGACTAAATAGCCAAATATCCT
66 TTCTCGTTCGACCAAATAGCCAAATATCCT
16263124 CTTAAAGCTT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 93 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (106 bp):
TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
Found at i:16264467 original size:20 final size:21
Alignment explanation
Indices: 16264438--16264477 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
16264428 TGCTAATATT
*
16264438 TTTTTATTTATAAATTTTTAG
1 TTTTTATTTATAAATATTTAG
16264459 TTTTT-TTTATAAATATTTA
1 TTTTTATTTATAAATATTTA
16264478 ATAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (21 bp):
TTTTTATTTATAAATATTTAG
Found at i:16265795 original size:120 final size:120
Alignment explanation
Indices: 16265568--16265807 Score: 401
Period size: 120 Copynumber: 2.0 Consensus size: 120
16265558 ATATAAATAA
* *
16265568 AATTATTAATATTTTGATTTAGGGATTTTTTTAATAATTTTTTATTTGGGGTAGATGGTGAAAAG
1 AATTATTAATATTTAGATTTAGGGATTTTTTTAATAATTTTTTATTTGGGGTAGATGGTAAAAAG
*
16265633 TAAAAGTTTAGTGGGAAAATAAAAAGTTTTGAGGGTTAGCGGAGTAAAATTTTGG
66 TAAAAGTTTAGTGGGAAAATAAAAAGTTTTGAAGGTTAGCGGAGTAAAATTTTGG
* * *
16265688 AATT-TTATTATTTAGATTTAGGGATTTTTTTGATGATTTTTTTATTTGGGGTAGATGGTAAAAA
1 AATTATTAATATTTAGATTTAGGGATTTTTTTAAT-AATTTTTTATTTGGGGTAGATGGTAAAAA
*
16265752 GTAAAAGTTTAGTGGGAAAATAAAAAGTTTTGAAGGTTGGCGGAGTAAAATTTTGG
65 GTAAAAGTTTAGTGGGAAAATAAAAAGTTTTGAAGGTTAGCGGAGTAAAATTTTGG
16265808 GAGGAAAGTA
Statistics
Matches: 112, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
119 27 0.24
120 85 0.76
ACGTcount: A:0.33, C:0.01, G:0.25, T:0.41
Consensus pattern (120 bp):
AATTATTAATATTTAGATTTAGGGATTTTTTTAATAATTTTTTATTTGGGGTAGATGGTAAAAAG
TAAAAGTTTAGTGGGAAAATAAAAAGTTTTGAAGGTTAGCGGAGTAAAATTTTGG
Found at i:16271174 original size:25 final size:25
Alignment explanation
Indices: 16271144--16271213 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
16271134 TTTGTAAACA
* *
16271144 GGAAGCTCATGCGAGTTGAATAATG
1 GGAAGCTCATGCGAGCTGAATAACG
16271169 GGAAGCTCATGCGAGCTGAATAACG
1 GGAAGCTCATGCGAGCTGAATAACG
* **
16271194 GGACGCTCATAAGAGCTGAA
1 GGAAGCTCATGCGAGCTGAA
16271214 ATCGGTGACC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (25 bp):
GGAAGCTCATGCGAGCTGAATAACG
Found at i:16276177 original size:14 final size:14
Alignment explanation
Indices: 16276137--16276183 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
16276127 CCAAACCCAG
* *
16276137 CAAAGCCAAGTAAC
1 CAAAACCAAATAAC
*
16276151 CAAAAAC-AATAAC
1 CAAAACCAAATAAC
16276164 CAAAACCAAATAACC
1 CAAAACCAAATAA-C
16276179 CAAAA
1 CAAAA
16276184 TTAGTAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 11 0.41
14 10 0.37
15 6 0.22
ACGTcount: A:0.62, C:0.28, G:0.04, T:0.06
Consensus pattern (14 bp):
CAAAACCAAATAAC
Found at i:16276603 original size:34 final size:34
Alignment explanation
Indices: 16276531--16276605 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
16276521 GTTCATAGAA
*
16276531 GGAAGAAGAAAAAAATAAAAGAAAAGGGAAATTG
1 GGAAGAAGAAAAAAATAAAAGAAAAGGGAAAATG
* *
16276565 GGAAGAAGAAAAAGATAATCAGGAAAA-GGAAAAT-
1 GGAAGAAGAAAAAAATAA--AAGAAAAGGGAAAATG
16276599 GGAAGAA
1 GGAAGAA
16276606 AATGAAAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 24 0.67
35 6 0.17
36 6 0.17
ACGTcount: A:0.63, C:0.01, G:0.28, T:0.08
Consensus pattern (34 bp):
GGAAGAAGAAAAAAATAAAAGAAAAGGGAAAATG
Found at i:16286380 original size:20 final size:20
Alignment explanation
Indices: 16286355--16286406 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
16286345 AAGCTTATGC
16286355 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGAAATGGAAAG
* * *
16286375 TAAGTAAATGGATTGGTAAG
1 TAAGTAAATGAAATGGAAAG
16286395 TAAGTAAATGAA
1 TAAGTAAATGAA
16286407 GTAGTTCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (20 bp):
TAAGTAAATGAAATGGAAAG
Found at i:16294923 original size:40 final size:40
Alignment explanation
Indices: 16294879--16294972 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 40
16294869 ATTACTAATG
16294879 GCTTGACTACATTACTGGCAATTTATCTGCAATATTGGCA
1 GCTTGACTACATTACTGGCAATTTATCTGCAATATTGGCA
** * * * * **
16294919 GCTTGTTTACACTACTGGCAGTTTATTTGCATTATTGGTG
1 GCTTGACTACATTACTGGCAATTTATCTGCAATATTGGCA
*
16294959 GCTTGACCACATTA
1 GCTTGACTACATTA
16294973 TTGACAGCTT
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (40 bp):
GCTTGACTACATTACTGGCAATTTATCTGCAATATTGGCA
Found at i:16294950 original size:80 final size:80
Alignment explanation
Indices: 16294811--16294978 Score: 203
Period size: 80 Copynumber: 2.1 Consensus size: 80
16294801 AAAGAAAAAG
* *
16294811 TACTGACAATTAATCTATAATACTGGCAGTGTGTTTGCACTACTGGCAGCTTATCTGCATTACTA
1 TACTGACAATTAATCTACAATACTGGCAGTGTGTTTACACTACTGGCAGCTTATCTGCATTACTA
*
16294876 ATGGCTTGACTACAT
66 ATGGCTTGACCACAT
* * * * * * *
16294891 TACTGGCAATTTATCTGCAATATTGGCAGCT-TGTTTACACTACTGGCAGTTTATTTGCATTATT
1 TACTGACAATTAATCTACAATACTGGCAG-TGTGTTTACACTACTGGCAGCTTATCTGCATTACT
**
16294955 GGTGGCTTGACCACAT
65 AATGGCTTGACCACAT
*
16294971 TATTGACA
1 TACTGACA
16294979 GCTTGTTTGT
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 72 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (80 bp):
TACTGACAATTAATCTACAATACTGGCAGTGTGTTTACACTACTGGCAGCTTATCTGCATTACTA
ATGGCTTGACCACAT
Found at i:16301686 original size:18 final size:18
Alignment explanation
Indices: 16301663--16301708 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
16301653 GATCAGTATG
16301663 ATTTCATAACTTTCCATA
1 ATTTCATAACTTTCCATA
*
16301681 ATTTCATACCTTTCCATA
1 ATTTCATAACTTTCCATA
16301699 ATTTCATAAC
1 ATTTCATAAC
16301709 ATAGTCAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCATAACTTTCCATA
Found at i:16304635 original size:20 final size:21
Alignment explanation
Indices: 16304610--16304649 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16304600 GAGAAATAAT
*
16304610 GTGTTTTTA-GGTTAAAAAAG
1 GTGTTTTGATGGTTAAAAAAG
16304630 GTGTTTTGATGGTTAAAAAA
1 GTGTTTTGATGGTTAAAAAA
16304650 TTAGGTAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (21 bp):
GTGTTTTGATGGTTAAAAAAG
Found at i:16307357 original size:11 final size:11
Alignment explanation
Indices: 16307341--16307366 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
16307331 TAGAAGAGAC
16307341 GAAACAGGGGA
1 GAAACAGGGGA
16307352 GAAACAGGGGA
1 GAAACAGGGGA
16307363 GAAA
1 GAAA
16307367 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:16308053 original size:9 final size:9
Alignment explanation
Indices: 16308025--16308066 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
16308015 GTAAGTATAA
16308025 TATTAGTAT
1 TATTAGTAT
16308034 TAATT--TAT
1 T-ATTAGTAT
16308042 TATTAGTAT
1 TATTAGTAT
*
16308051 TATTATTAT
1 TATTAGTAT
16308060 TATTAGT
1 TATTAGT
16308067 GGGAATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
7 3 0.11
8 4 0.14
9 18 0.64
10 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (9 bp):
TATTAGTAT
Found at i:16312025 original size:37 final size:39
Alignment explanation
Indices: 16311966--16312061 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
16311956 CGGATAGATT
* * * *
16311966 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
16312003 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
16312042 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
16312062 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:16327560 original size:3 final size:3
Alignment explanation
Indices: 16327554--16327598 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
16327544 TTTGCATCTA
* * *
16327554 TTG TTG TTG TTG TTT TTG TTG TTG TTG TTG TTG TTA TTT TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
16327599 ACAATTCTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.02, C:0.00, G:0.27, T:0.71
Consensus pattern (3 bp):
TTG
Found at i:16338842 original size:18 final size:17
Alignment explanation
Indices: 16338784--16338835 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
16338774 TTTTTTAGAG
* *
16338784 AAATTAATTTTATGGTTTT
1 AAATTAATTTT-TGG-GTA
16338803 AAA-TAATTTTTGGGTA
1 AAATTAATTTTTGGGTA
16338819 AAATTAATATTTTGGGT
1 AAATTAAT-TTTTGGGT
16338836 CTAATTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 15 0.52
19 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (17 bp):
AAATTAATTTTTGGGTA
Found at i:16349077 original size:18 final size:17
Alignment explanation
Indices: 16349044--16349082 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
16349034 TTTTATAAAT
16349044 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
16349062 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
16349079 TGTG
1 TGTG
16349083 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:16349336 original size:23 final size:23
Alignment explanation
Indices: 16349309--16349384 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
16349299 AATGTTATTG
16349309 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * *
16349332 TTCAGTGTTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
16349355 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
16349378 ATCAGTG
1 ATCAGTG
16349385 TGGGACTTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:16354735 original size:18 final size:18
Alignment explanation
Indices: 16354698--16354740 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
16354688 TTGATGTTGT
16354698 AGAAGAAGTTGTTATCGA
1 AGAAGAAGTTGTTATCGA
* * *
16354716 AGCAGAAGTTGTTTTTGA
1 AGAAGAAGTTGTTATCGA
16354734 AGAAGAA
1 AGAAGAA
16354741 AAAGTTACTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.28, T:0.28
Consensus pattern (18 bp):
AGAAGAAGTTGTTATCGA
Found at i:16360232 original size:36 final size:35
Alignment explanation
Indices: 16360192--16360262 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
16360182 TTAGCACAGC
*
16360192 GGCATGCTTAACATGCGAATCAGAATCAGAAATAAT
1 GGCATGCTTAACATGCGAATCAAAATCAG-AATAAT
* *
16360228 GGCATGCTTAACATGCGAGTCAAAATTAGAATAAT
1 GGCATGCTTAACATGCGAATCAAAATCAGAATAAT
16360263 AGAATATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 6 0.19
36 26 0.81
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (35 bp):
GGCATGCTTAACATGCGAATCAAAATCAGAATAAT
Found at i:16362419 original size:11 final size:11
Alignment explanation
Indices: 16362403--16362428 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
16362393 CTTCATTCAT
16362403 CATCCCTCAAG
1 CATCCCTCAAG
16362414 CATCCCTCAAG
1 CATCCCTCAAG
16362425 CATC
1 CATC
16362429 ATTCTCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.46, G:0.08, T:0.19
Consensus pattern (11 bp):
CATCCCTCAAG
Found at i:16368711 original size:23 final size:23
Alignment explanation
Indices: 16368684--16368759 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
16368674 AGTGTTATTG
16368684 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
16368707 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
16368730 CTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
16368753 ATCAGTG
1 ATCAGTG
16368760 TGGCACTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:16375828 original size:18 final size:17
Alignment explanation
Indices: 16375795--16375833 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
16375785 TTTTATAAAT
16375795 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
16375813 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
16375830 TGTG
1 TGTG
16375834 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:16376085 original size:23 final size:23
Alignment explanation
Indices: 16376059--16376134 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
16376049 AGTGTTATTG
16376059 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
16376082 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
16376105 TTCAGTGGTAGTTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
16376128 ATCAGTG
1 ATCAGTG
16376135 TGACACTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:16381866 original size:44 final size:42
Alignment explanation
Indices: 16381735--16381969 Score: 206
Period size: 44 Copynumber: 5.4 Consensus size: 42
16381725 TAGCGTCGCT
* * *
16381735 AACTTTAGCGGCGTTTATGTGA-AAAAACGACACTAAAGATCATG
1 AACTTTAGCGGCGCTT-T-T-ACAAAAACGCCGCTAAAGATCATG
** * * *
16381779 GTCTTTAGCGACGCTTTTGCCACAAACGCCGCTAAAGATCATG
1 AACTTTAGCGGCGCTTTT-ACAAAAACGCCGCTAAAGATCATG
* *
16381822 AACTTTAGCGGCGCTTTTACAAAAAAACACCGCTAAAGAACATG
1 AACTTTAGCGGCGCTTTTAC--AAAAACGCCGCTAAAGATCATG
* *
16381866 ACCTTTA-CTGGCGCTTTTACAAAAACGCCGCTAAAGATCA-C
1 AACTTTAGC-GGCGCTTTTACAAAAACGCCGCTAAAGATCATG
* * *
16381907 AAGCTTTAGCGGCACTTTTTATCACAAACGCCGCTAAAGGTCATG
1 AA-CTTTAGCGGCGC-TTTTA-CAAAAACGCCGCTAAAGATCATG
* *
16381952 ATCTTTAGCGACGCTTTT
1 AACTTTAGCGGCGCTTTT
16381970 TGCCACAAAC
Statistics
Matches: 155, Mismatches: 27, Indels: 19
0.77 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 30 0.19
43 46 0.30
44 77 0.50
45 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (42 bp):
AACTTTAGCGGCGCTTTTACAAAAACGCCGCTAAAGATCATG
Found at i:16381967 original size:86 final size:86
Alignment explanation
Indices: 16381767--16381969 Score: 234
Period size: 86 Copynumber: 2.3 Consensus size: 86
16381757 AAAAACGACA
* * * *
16381767 CTAAAGATCATGGTCTTTAGCGACGCTTTTGCCACAAACGCCGCTAAAGATCATGAACTTTAGCG
1 CTAAAGATCATGATCTTTAGCGACGCTTTTGACAAAAACGCCGCTAAAGATCATCAACTTTAGCG
*
16381832 GCGCTTTTACAAAAAAACACCG
66 GCACTTTTAC-AAAAAACACCG
* * *
16381854 CTAAAGAACATGACCTTTA-CTGGCGCTTTT-ACAAAAACGCCGCTAAAGATCA-CAAGCTTTAG
1 CTAAAGATCATGATCTTTAGC-GACGCTTTTGACAAAAACGCCGCTAAAGATCATCAA-CTTTAG
* *
16381916 CGGCACTTTTTATC-ACAAACGCCG
64 CGGCAC-TTTTA-CAAAAAACACCG
*
16381940 CTAAAGGTCATGATCTTTAGCGACGCTTTT
1 CTAAAGATCATGATCTTTAGCGACGCTTTT
16381970 TGCCACAAAC
Statistics
Matches: 97, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
85 2 0.02
86 64 0.66
87 30 0.31
88 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (86 bp):
CTAAAGATCATGATCTTTAGCGACGCTTTTGACAAAAACGCCGCTAAAGATCATCAACTTTAGCG
GCACTTTTACAAAAAACACCG
Found at i:16381977 original size:44 final size:43
Alignment explanation
Indices: 16381767--16381986 Score: 219
Period size: 44 Copynumber: 5.1 Consensus size: 43
16381757 AAAAACGACA
* * *
16381767 CTAAAGATCATGGTCTTTAGCGACGCTTTTGCCACAAACGCCG
1 CTAAAGATCATGATCTTTAGCGGCGCTTTTACCACAAACGCCG
* * * *
16381810 CTAAAGATCATGAACTTTAGCGGCGCTTTTACAAAAAAACACCG
1 CTAAAGATCATGATCTTTAGCGGCGCTTTTAC-CACAAACGCCG
* * *
16381854 CTAAAGAACATGACCTTTA-CTGGCGCTTTTA-CAAAAACGCCG
1 CTAAAGATCATGATCTTTAGC-GGCGCTTTTACCACAAACGCCG
** * * *
16381896 CTAAAGATCACAAGCTTTAGCGGCACTTTTTATCACAAACGCCG
1 CTAAAGATCATGATCTTTAGCGGCGC-TTTTACCACAAACGCCG
* * * *
16381940 CTAAAGGTCATGATCTTTAGCGACGCTTTTTGCCACAAACACCG
1 CTAAAGATCATGATCTTTAGCGGCGC-TTTTACCACAAACGCCG
16381984 CTA
1 CTA
16381987 TAAAACAAGC
Statistics
Matches: 146, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
42 28 0.19
43 35 0.24
44 83 0.57
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
CTAAAGATCATGATCTTTAGCGGCGCTTTTACCACAAACGCCG
Found at i:16381995 original size:86 final size:84
Alignment explanation
Indices: 16381767--16382004 Score: 232
Period size: 86 Copynumber: 2.8 Consensus size: 84
16381757 AAAAACGACA
* * *
16381767 CTAAAGATCATGGTCTTTAGCGACGCTTTTGCCACAAACGCCGCTAAAGATCATGAACTTTAGCG
1 CTAAAGATCATGATCTTTAGCGACGCTTTTGCCACAAACGCCGCTAAAGAACA--AGCTTTAGCG
*
16381832 GCGCTTTTACAAAAAAACACCG
64 GCACTTTTAC-AAAAAACACCG
* * * * *
16381854 CTAAAGAACATGACCTTTA-CTGGCGCTTTT-ACAAAAACGCCGCTAAAGATCACAAGCTTTAGC
1 CTAAAGATCATGATCTTTAGC-GACGCTTTTGCCACAAACGCCGCTAAAGA--ACAAGCTTTAGC
* *
16381917 GGCACTTTTTATC-ACAAACGCCG
63 GGCAC-TTTTA-CAAAAAACACCG
* *
16381940 CTAAAGGTCATGATCTTTAGCGACGCTTTTTGCCACAAACACCGCTATAA-AACAAGCCTTTAGC
1 CTAAAGATCATGATCTTTAGCGACGC-TTTTGCCACAAACGCCGCTA-AAGAACAAG-CTTTAGC
16382004 G
63 G
16382005 TCGCTTCTCG
Statistics
Matches: 123, Mismatches: 18, Indels: 20
0.76 0.11 0.12
Matches are distributed among these distances:
86 63 0.51
87 42 0.34
88 16 0.13
89 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (84 bp):
CTAAAGATCATGATCTTTAGCGACGCTTTTGCCACAAACGCCGCTAAAGAACAAGCTTTAGCGGC
ACTTTTACAAAAAACACCG
Found at i:16382072 original size:18 final size:19
Alignment explanation
Indices: 16382049--16382086 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
16382039 ATTTAAAAAA
*
16382049 TTTTATTTAAATATT-TAT
1 TTTTATATAAATATTATAT
16382067 TTTTATATAAATATTATAT
1 TTTTATATAAATATTATAT
16382086 T
1 T
16382087 ATGTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATATAAATATTATAT
Found at i:16383082 original size:16 final size:16
Alignment explanation
Indices: 16383061--16383091 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
16383051 AGTCCCAAAC
16383061 TATTGTAAACATCAGT
1 TATTGTAAACATCAGT
16383077 TATTGTAAACATCAG
1 TATTGTAAACATCAG
16383092 ATAGGTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (16 bp):
TATTGTAAACATCAGT
Found at i:16384100 original size:20 final size:21
Alignment explanation
Indices: 16384075--16384114 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16384065 AAAATTTTAT
*
16384075 TTATTTT-TATTTGTTAAAAA
1 TTATTTTATATATGTTAAAAA
16384095 TTATTTTATATATGTTAAAA
1 TTATTTTATATATGTTAAAA
16384115 TGAGATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
TTATTTTATATATGTTAAAAA
Found at i:16385374 original size:7 final size:8
Alignment explanation
Indices: 16385348--16385373 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
16385338 ATAAATACTG
16385348 AAATCAGA
1 AAATCAGA
16385356 AAATCAGA
1 AAATCAGA
16385364 AAATCAGA
1 AAATCAGA
16385372 AA
1 AA
16385374 TGACAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (8 bp):
AAATCAGA
Found at i:16386272 original size:41 final size:41
Alignment explanation
Indices: 16386240--16386434 Score: 193
Period size: 41 Copynumber: 4.8 Consensus size: 41
16386230 TGCCACTATT
* *
16386240 GCCCTGAACATTAGCGGCGCTTTTTTAAAAATGCCGCTAAA
1 GCCCTGAACATTAGCGGCGCTTTTTAAAAAACGCCGCTAAA
* * * *
16386281 GACCC-GATCATTAGCGACGCTTTCTAAAAAACACCGCTAATA
1 G-CCCTGAACATTAGCGGCGCTTTTTAAAAAACGCCGCTAA-A
* *
16386323 -CCCT-AAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAA
1 GCCCTGAA-CATTAGCGGCGCTTTTTAAAAAACGCCGCTAAA
* * * *
16386363 GACCC-GATCATTAGTGGCACTTCTTAAAAAACGCCGCTAAA
1 G-CCCTGAACATTAGCGGCGCTTTTTAAAAAACGCCGCTAAA
* *
16386404 ACCCTGAGCATTAGCGGCGC-TTTTAAAAAAC
1 GCCCTGAACATTAGCGGCGCTTTTTAAAAAAC
16386435 ACCACAAAAT
Statistics
Matches: 123, Mismatches: 23, Indels: 17
0.75 0.14 0.10
Matches are distributed among these distances:
40 18 0.15
41 97 0.79
42 8 0.07
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (41 bp):
GCCCTGAACATTAGCGGCGCTTTTTAAAAAACGCCGCTAAA
Found at i:16386335 original size:82 final size:82
Alignment explanation
Indices: 16386248--16386427 Score: 263
Period size: 82 Copynumber: 2.2 Consensus size: 82
16386238 TTGCCCTGAA
* * * *
16386248 CATTAGCGGCGCTTTTTTAAAAATGCCGCTAAAGACCCGATCATTAGCGACGCTT-TCTAAAAAA
1 CATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGACCCGATCATTAGCGACACTTCT-TAAAAAA
*
16386312 CACCGCTAATACCCTAAG
65 CACCGCTAAAACCCTAAG
* *
16386330 CATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGACCCGATCATTAGTGGCACTTCTTAAAAAAC
1 CATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGACCCGATCATTAGCGACACTTCTTAAAAAAC
* *
16386395 GCCGCTAAAACCCTGAG
66 ACCGCTAAAACCCTAAG
16386412 CATTAGCGGCGCTTTT
1 CATTAGCGGCGCTTTT
16386428 AAAAAACACC
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
82 87 0.99
83 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (82 bp):
CATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGACCCGATCATTAGCGACACTTCTTAAAAAAC
ACCGCTAAAACCCTAAG
Done.