Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 6 of 163
Found at i:1855145 original size:18 final size:19
Alignment explanation
Indices: 1855114--1855149 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1855104 AAAAAATTCA
*
1855114 AAATAATTTGTAAAAATTT
1 AAATAATTTATAAAAATTT
1855133 AAAT-ATTTATAAAAATT
1 AAATAATTTATAAAAATT
1855150 CCAAAATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
AAATAATTTATAAAAATTT
Found at i:1856535 original size:83 final size:83
Alignment explanation
Indices: 1856396--1856560 Score: 267
Period size: 83 Copynumber: 2.0 Consensus size: 83
1856386 AGACCATATC
* *
1856396 CCCAATCTGTTACTCGGATGTGAGCGAATATCGAATACATATTATGTTTGATATAAATATTATTT
1 CCCAATCTGTTACTCGAATGTGAGCGAATATCGAATACATATTATGTTCGATATAAATATTATTT
*
1856461 AAAAAAATTTGAAGAATA
66 AAAAAAAATTGAAGAATA
* * * *
1856479 CCCAATTTGTTACTTGAATTTGAGTGAATATCGAATACATATTATGTTCGATATAAATATTATTT
1 CCCAATCTGTTACTCGAATGTGAGCGAATATCGAATACATATTATGTTCGATATAAATATTATTT
1856544 AAAAAAAATTGAAGAAT
66 AAAAAAAATTGAAGAAT
1856561 CATACTTTAC
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 75 1.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (83 bp):
CCCAATCTGTTACTCGAATGTGAGCGAATATCGAATACATATTATGTTCGATATAAATATTATTT
AAAAAAAATTGAAGAATA
Found at i:1857170 original size:2 final size:2
Alignment explanation
Indices: 1857120--1857158 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
1857110 CATTGAAACC
1857120 CA CA -A CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1857159 TATATACACA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:1862196 original size:2 final size:2
Alignment explanation
Indices: 1862189--1862218 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1862179 TCAAGCATGG
1862189 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1862219 CATAAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1862399 original size:23 final size:23
Alignment explanation
Indices: 1862373--1862422 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1862363 CATTCGTAAC
1862373 TTATATTATATAAATAA-AATTAT
1 TTATATTATAT-AATAATAATTAT
* *
1862396 TTATATTGTATAATAATTATTAT
1 TTATATTATATAATAATAATTAT
1862419 TTAT
1 TTAT
1862423 GTGGTGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
TTATATTATATAATAATAATTAT
Found at i:1863055 original size:3 final size:3
Alignment explanation
Indices: 1863047--1863073 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1863037 TTTAATGAAA
1863047 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1863074 AAAAGTAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1863849 original size:27 final size:30
Alignment explanation
Indices: 1863819--1863874 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
1863809 CAAATCTCAA
1863819 AATTATA-CATG-AACTTTGATT-TGGTGG
1 AATTATACCATGAAACTTTGATTGTGGTGG
1863846 AATTATACGCATGAAACTTTGATTGTGGT
1 AATTATAC-CATGAAACTTTGATTGTGGT
1863875 TCAAATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 7 0.28
29 4 0.16
30 10 0.40
31 4 0.16
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (30 bp):
AATTATACCATGAAACTTTGATTGTGGTGG
Found at i:1865037 original size:23 final size:24
Alignment explanation
Indices: 1865011--1865063 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1865001 GTTCCCCACA
*
1865011 TAAA-TCGGTTTTATTTTCCCAGT
1 TAAACTCGGTTATATTTTCCCAGT
* * *
1865034 TAAACTCTGTTATCTTTTTCCAGT
1 TAAACTCGGTTATATTTTCCCAGT
1865058 TAAACT
1 TAAACT
1865064 TACATTACTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (24 bp):
TAAACTCGGTTATATTTTCCCAGT
Found at i:1866082 original size:24 final size:24
Alignment explanation
Indices: 1866053--1866100 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1866043 TAATAATTTT
* *
1866053 AAATTAGTGTCAATT-TAATTTAAA
1 AAATTAGAGTAAATTAT-ATTTAAA
1866077 AAATTAGAGTAAATTATATTTAAA
1 AAATTAGAGTAAATTATATTTAAA
1866101 CTCACCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (24 bp):
AAATTAGAGTAAATTATATTTAAA
Found at i:1873056 original size:17 final size:17
Alignment explanation
Indices: 1873034--1873067 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1873024 CTGAGGCTTG
1873034 TAAAGAAACTATTTGGT
1 TAAAGAAACTATTTGGT
* *
1873051 TAAAGAGACTTTTTGGT
1 TAAAGAAACTATTTGGT
1873068 GAACCCAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (17 bp):
TAAAGAAACTATTTGGT
Found at i:1874778 original size:16 final size:18
Alignment explanation
Indices: 1874757--1874792 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
1874747 AAAAAATGTC
1874757 TTTTAAAT-ATA-AAATA
1 TTTTAAATAATACAAATA
1874773 TTTTAAATAATACAAATA
1 TTTTAAATAATACAAATA
1874791 TT
1 TT
1874793 ACAATATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 3 0.17
18 7 0.39
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTTAAATAATACAAATA
Found at i:1880363 original size:4 final size:4
Alignment explanation
Indices: 1880354--1880402 Score: 89
Period size: 4 Copynumber: 12.2 Consensus size: 4
1880344 CTCAAGGTAT
*
1880354 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ACAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1880402 A
1 A
1880403 CATGCATATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (4 bp):
ATAC
Found at i:1880893 original size:63 final size:62
Alignment explanation
Indices: 1880802--1881344 Score: 377
Period size: 63 Copynumber: 8.5 Consensus size: 62
1880792 ATTTCTCTTG
* *
1880802 TTCTATCATATATTTG-TTCTGAATTTCATGAATGATTTTTTTTAAAAGGGTTTTCTCTTTTTTT
1 TTCT-TCATATATTTGCTT-TGAAATTCATGAATGATTTTTTTAAAAAGGGTTTTCTC-TTTTTT
* *
1880866 TTCTTCATATATTTGCTTTGAGATTCATGAATGAATTTTTTTTTTTCAAAAAAGGGATTTCTC-T
1 TTCTTCATATATTTGCTTTGAAATTCATGAATG-A----TTTTTTT--AAAAAGGGTTTTCTCTT
*
1880930 TGTT
59 TTTT
* * *
1880934 TT-ATCATATATTTGTTTTGAATTTCATGAATGATTTTTTT-AAAAGGGTTTTCTCTCTTCTTCT
1 TTCTTCATATATTTGCTTTGAAATTCATGAATGATTTTTTTAAAAAGGG-TTT-TCTCTT-TT-T
1880997 T
62 T
* * * *
1880998 TTCTCCATATATTTGCTTTGAGATTCATGAATGAAACTATTTTTTAAAAAAGGTTTTCTC-TTGT
1 TTCTTCATATATTTGCTTTGAAATTCATGAATG--A-T-TTTTTTAAAAAGGGTTTTCTCTTTTT
1881062 T
62 T
* * ** *
1881063 TT-TTCATAT-TTTGTTTTGAAATTCATGAATGAAATTATTAAAAAAAGAAGGTTTTCTCTTGTT
1 TTCTTCATATATTTGCTTTGAAATTCATGAATG--ATTTTTTTAAAAAG--GGTTTTCTCTTTTT
1881126 T
62 T
* * * * ** * *
1881127 TTGTTCATATCTTTG-TTCTGAAATTCATGAATAAAATTACTAAAAAGAGGGTTTTCTCTTGTTT
1 TTCTTCATATATTTGCTT-TGAAATTCATGAAT-GATTTTTTTAAAA-AGGGTTTTCTCTTTTTT
* * *
1881191 TTC--CATATATTTGCTTTGAAATTCATGAATGAAATTATTTTAAAAAAGCGTTTTCTCTTGTAT
1 TTCTTCATATATTTGCTTTGAAATTCATGAATG--ATT-TTTTTAAAAAGGGTTTTCTCTT-TTT
1881254 T
62 T
* **
1881255 TTCTTTCACATATTTGCTTTG-AA---AT---T-ATTTTTACAAAAAGGGTTTTCTCTTGTTTT
1 TTC-TTCATATATTTGCTTTGAAATTCATGAATGATTTTTTTAAAAAGGGTTTTCTCTT-TTTT
*
1881311 TTTTTCATATATTTG-TTTAGAAATTCATGAATGA
1 TTCTTCATATATTTGCTTT-GAAATTCATGAATGA
1881345 AATTATTAAA
Statistics
Matches: 386, Mismatches: 49, Indels: 89
0.74 0.09 0.17
Matches are distributed among these distances:
54 3 0.01
55 12 0.03
56 27 0.07
57 3 0.01
59 9 0.02
60 3 0.01
61 12 0.03
62 33 0.09
63 76 0.20
64 51 0.13
65 45 0.12
66 24 0.06
67 42 0.11
68 18 0.05
69 9 0.02
70 19 0.05
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (62 bp):
TTCTTCATATATTTGCTTTGAAATTCATGAATGATTTTTTTAAAAAGGGTTTTCTCTTTTTT
Found at i:1880919 original size:130 final size:130
Alignment explanation
Indices: 1880783--1881094 Score: 481
Period size: 130 Copynumber: 2.4 Consensus size: 130
1880773 GATTTAAAAA
* *
1880783 AAAAAAGGGATTTCTCTTGTTCTATCATATATTTGTTCTGAATTTCATGAATGATTTTTTTTAAA
1 AAAAAAGGGATTTCTCTTGTTTTATCATATATTTGTTTTGAATTTCATGAATGA-TTTTTTTAAA
* ** *
1880848 AGGGTTTTCTCT-TT-TT-TTTTCTTCATATATTTGCTTTGAGATTCATGAATGAATTTTTTTTT
65 AGGGTTTTCTCTCTTCTTCTTTTCTCCATATATTTGCTTTGAGATTCATGAATGAA-ACTATTTT
1880910 TT
129 TT
1880912 CAAAAAAGGGATTTCTCTTGTTTTATCATATATTTGTTTTGAATTTCATGAATGATTTTTTTAAA
1 -AAAAAAGGGATTTCTCTTGTTTTATCATATATTTGTTTTGAATTTCATGAATGATTTTTTTAAA
1880977 AGGGTTTTCTCTCTTCTTCTTTTCTCCATATATTTGCTTTGAGATTCATGAATGAAACTATTTTT
65 AGGGTTTTCTCTCTTCTTCTTTTCTCCATATATTTGCTTTGAGATTCATGAATGAAACTATTTTT
1881042 T
130 T
* * *
1881043 AAAAAA-GGTTTTCTCTTGTTTTTTCATAT-TTTGTTTTGAAATTCATGAATGA
1 AAAAAAGGGATTTCTCTTGTTTTATCATATATTTGTTTTGAATTTCATGAATGA
1881095 AATTATTAAA
Statistics
Matches: 170, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
128 22 0.13
129 43 0.25
130 60 0.35
131 9 0.05
132 36 0.21
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.52
Consensus pattern (130 bp):
AAAAAAGGGATTTCTCTTGTTTTATCATATATTTGTTTTGAATTTCATGAATGATTTTTTTAAAA
GGGTTTTCTCTCTTCTTCTTTTCTCCATATATTTGCTTTGAGATTCATGAATGAAACTATTTTTT
Found at i:1881283 original size:54 final size:54
Alignment explanation
Indices: 1881220--1881335 Score: 164
Period size: 55 Copynumber: 2.1 Consensus size: 54
1881210 AATTCATGAA
1881220 TGAAATTA-TTTTA-AAAAAGCGTTTTCTCTTGTATTTTCTTTCACATATTTGCTT
1 TGAAATTATTTTTACAAAAAGCGTTTTCTCTTGT-TTTTCTTTCACATATTTG-TT
* * *
1881274 TGAAATTATTTTTACAAAAAGGGTTTTCTCTTGTTTTTTTTTCATATATTTGTT
1 TGAAATTATTTTTACAAAAAGCGTTTTCTCTTGTTTTTCTTTCACATATTTGTT
1881328 TAGAAATT
1 T-GAAATT
1881336 CATGAATGAA
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
54 11 0.20
55 27 0.48
56 18 0.32
ACGTcount: A:0.27, C:0.09, G:0.10, T:0.53
Consensus pattern (54 bp):
TGAAATTATTTTTACAAAAAGCGTTTTCTCTTGTTTTTCTTTCACATATTTGTT
Found at i:1882960 original size:27 final size:28
Alignment explanation
Indices: 1882915--1882969 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
1882905 CGCAACCTTT
* *
1882915 AAAAAATGTTATGTGTGCTTTTAAAAAA
1 AAAAAATGTTATGTATGCTCTTAAAAAA
* *
1882943 AAAAAATTTTAT-TATGCTCTTATAAAA
1 AAAAAATGTTATGTATGCTCTTAAAAAA
1882970 CACTTATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.38
Consensus pattern (28 bp):
AAAAAATGTTATGTATGCTCTTAAAAAA
Found at i:1887284 original size:19 final size:20
Alignment explanation
Indices: 1887241--1887311 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 20
1887231 TTCTAAATTT
* *
1887241 TTTTTATATATTTTTACAAA
1 TTTTTACATATTTTTACTAA
* *
1887261 ATTTTA-ATGTTTTTACTAA
1 TTTTTACATATTTTTACTAA
*
1887280 TTTTTACA-ATTTTTAGTAA
1 TTTTTACATATTTTTACTAA
1887299 TTTTTA-ATATTTT
1 TTTTTACATATTTT
1887312 AAAATAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 1 0.02
19 36 0.84
20 6 0.14
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTTACATATTTTTACTAA
Found at i:1891703 original size:27 final size:27
Alignment explanation
Indices: 1891673--1891725 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
1891663 GAATTAGAAA
1891673 AGGAGTGCCCTGCTCTGACCCTTTTTT
1 AGGAGTGCCCTGCTCTGACCCTTTTTT
** *
1891700 AGGAGTGCTTTGCTCTGGCCCTTTTT
1 AGGAGTGCCCTGCTCTGACCCTTTTT
1891726 CAGTCCGCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.09, C:0.26, G:0.25, T:0.40
Consensus pattern (27 bp):
AGGAGTGCCCTGCTCTGACCCTTTTTT
Found at i:1897519 original size:48 final size:48
Alignment explanation
Indices: 1897464--1897596 Score: 212
Period size: 48 Copynumber: 2.8 Consensus size: 48
1897454 TGATTTGTAC
*
1897464 AAAAATGGACAGCATTTAAGCACTAATTTGGATAGCATTAATATGCTA
1 AAAAATGGACAGCATTTAAGCACCAATTTGGATAGCATTAATATGCTA
* * * * *
1897512 AAGAATGGACAGCAATTAAGCACCAATTTGGACAACATTAATTTGCTA
1 AAAAATGGACAGCATTTAAGCACCAATTTGGATAGCATTAATATGCTA
1897560 AAAAATGGACAGCATTTAAGCACCAATTTGGATAGCA
1 AAAAATGGACAGCATTTAAGCACCAATTTGGATAGCA
1897597 CCTTATCATT
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 75 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (48 bp):
AAAAATGGACAGCATTTAAGCACCAATTTGGATAGCATTAATATGCTA
Found at i:1897567 original size:96 final size:93
Alignment explanation
Indices: 1897425--1897596 Score: 256
Period size: 96 Copynumber: 1.8 Consensus size: 93
1897415 ACAAATATTC
* * *
1897425 GGACAGCAATAACAACATTCGGACAGCATTGATTTGTACAAAAATGGACAGCATTTAAGCACTAA
1 GGACAGCAATAACAACATTCGGACAACATTAATTTGTACAAAAATGGACAGCATTTAAGCACCAA
1897490 TTTGGATAGCATTAATATGCTAAAGAAT
66 TTTGGATAGCATTAATATGCTAAAGAAT
* *
1897518 GGACAGCAATTAAGCACCAATTTGGACAACATTAATTTGCTA-AAAAATGGACAGCATTTAAGCA
1 GGACAGCAA-TAA-CAAC-ATTCGGACAACATTAATTTG-TACAAAAATGGACAGCATTTAAGCA
1897582 CCAATTTGGATAGCA
62 CCAATTTGGATAGCA
1897597 CCTTATCATT
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
93 9 0.13
94 3 0.04
95 3 0.04
96 53 0.76
97 2 0.03
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (93 bp):
GGACAGCAATAACAACATTCGGACAACATTAATTTGTACAAAAATGGACAGCATTTAAGCACCAA
TTTGGATAGCATTAATATGCTAAAGAAT
Found at i:1898228 original size:43 final size:42
Alignment explanation
Indices: 1898152--1898275 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 42
1898142 GAAACACATA
* * *
1898152 TATCACATA-CAATGCCATATCCCAGATATGGTCTTACATGT
1 TATCACATACCGATGCCATGTCCCAGATATGGTCTTACAGGT
*
1898193 TATCACATACCGATGCCACTGTCCCAGATAGGGTCTTACAGGT
1 TATCACATACCGATGCCA-TGTCCCAGATATGGTCTTACAGGT
* * *
1898236 AATCTCATACCGATGCCAATGTCCCAGACATGGTCTTACA
1 TATCACATACCGATGCC-ATGTCCCAGATATGGTCTTACA
1898276 CGAAATCATA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
41 9 0.12
42 7 0.10
43 55 0.76
44 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (42 bp):
TATCACATACCGATGCCATGTCCCAGATATGGTCTTACAGGT
Found at i:1906342 original size:7 final size:7
Alignment explanation
Indices: 1906330--1906355 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1906320 ATTTATATTT
1906330 GAATTAG
1 GAATTAG
1906337 GAATTAG
1 GAATTAG
1906344 GAATTAG
1 GAATTAG
1906351 GAATT
1 GAATT
1906356 TTGGGTACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (7 bp):
GAATTAG
Found at i:1914830 original size:40 final size:40
Alignment explanation
Indices: 1914751--1914831 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
1914741 GACTTAACAT
** * ** * *
1914751 GTGTTTATGTAGTCTTATGCGCGATCTCACGTGTGACTTC
1 GTGTTTACATAGTCTCATGCGCGATAACAAGTGTAACTTC
1914791 GTGTTTACATAGTCTCATGCGCGATAACAAGTGTAACTTC
1 GTGTTTACATAGTCTCATGCGCGATAACAAGTGTAACTTC
1914831 G
1 G
1914832 CAAGAGAACA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (40 bp):
GTGTTTACATAGTCTCATGCGCGATAACAAGTGTAACTTC
Found at i:1918163 original size:18 final size:18
Alignment explanation
Indices: 1918120--1918202 Score: 78
Period size: 18 Copynumber: 4.6 Consensus size: 18
1918110 GGGCGGGGCT
*
1918120 GCCATCGGACCCGACGCA
1 GCCATCGGACCCGGCGCA
* **
1918138 ACTTTCGGACCCGGCGCA
1 GCCATCGGACCCGGCGCA
* * *
1918156 GCCATCGGACCAGGGGCG
1 GCCATCGGACCCGGCGCA
*
1918174 GCCATCGGACCCGG-GTCT
1 GCCATCGGACCCGGCG-CA
1918192 GCCATCGGACC
1 GCCATCGGACC
1918203 TGGTGCTTTG
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
17 1 0.02
18 51 0.98
ACGTcount: A:0.17, C:0.40, G:0.33, T:0.11
Consensus pattern (18 bp):
GCCATCGGACCCGGCGCA
Found at i:1922387 original size:19 final size:16
Alignment explanation
Indices: 1922353--1922385 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1922343 CTGCTTTTTG
1922353 CTGCTTCCTTGTACAA
1 CTGCTTCCTTGTACAA
1922369 CTGCTTCCTTGTACAA
1 CTGCTTCCTTGTACAA
1922385 C
1 C
1922386 AAAGCATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.33, G:0.12, T:0.36
Consensus pattern (16 bp):
CTGCTTCCTTGTACAA
Found at i:1929905 original size:51 final size:51
Alignment explanation
Indices: 1929845--1930387 Score: 442
Period size: 51 Copynumber: 10.7 Consensus size: 51
1929835 GATGAACACG
* * *
1929845 TGTGTAGTACTGTGTGAAGGCTACTACATGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACA
* * * * * * *
1929896 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGTCACT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA-ATAATGGTCACA
* *
1929947 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACA
* * * * * * *
1929998 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGTCACT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA-ATAATGGTCACA
* *
1930049 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACA
* * * * *
1930100 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCT-TTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA--TAATGGTCACA
* * * * *
1930151 TGTGTAGTACTATGTGAAGGCTACTTCGTGAACCG-TAAA-ACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATA-ATGGTCACA
* * * * *
1930201 TGTGTAGTACTATGTGTAGGCTACTACGTGTATC-A-GAATGATAGGTCGCA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATAAT-GGTCACA
* * * ** * * *
1930251 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT--TCGATTACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACC-GATAAATAAT-GGTCACA
** * * * *
1930302 TGTGTAGTACTATGTCCAGGCTACTACGTGTATCGGAT-AGTGATGGTCACC
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGATAAATAATGGTCACA
* * * *
1930353 TGTGTAGTACTATGTGCATGCTACTATGTGAACCG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCG
1930388 GTATAATTGA
Statistics
Matches: 390, Mismatches: 84, Indels: 37
0.76 0.16 0.07
Matches are distributed among these distances:
49 3 0.01
50 81 0.21
51 299 0.77
52 6 0.02
53 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACA
Found at i:1930021 original size:102 final size:102
Alignment explanation
Indices: 1929845--1930276 Score: 611
Period size: 102 Copynumber: 4.3 Consensus size: 102
1929835 GATGAACACG
*
1929845 TGTGTAGTACTGTGTGAAGGCTACTACATGTATCGATAAATAATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAG
1929910 TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACT
66 TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACT
1929947 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAG
1930012 TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACT
66 TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACT
1930049 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAG
* * * *
1930114 TGAAGGCTACTATGTGTACCGAAAAGCTTTGATCACG
66 TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACT
* * * * * * * *
1930151 TGTGTAGTACTATGTGAAGGCTACTTCGTGAACCG-TAAA-ACTTGATCACGTGTGTAGTACTAT
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATA-ATGGTCACATGTGTAGTACTAA
* * * * * * * *
1930214 GTGTAGGCTACTACGTGTATC-AGAATG-ATAGGTCGCA
65 GTGAAGGCTACAATGTGTACCGAGAA-GCTTTGGTCACT
* *
1930251 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTGTGTGAAGGCTACTA
1930277 TGCGTACCGG
Statistics
Matches: 304, Mismatches: 24, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
100 33 0.11
101 41 0.13
102 230 0.76
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (102 bp):
TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAG
TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACT
Found at i:1930333 original size:253 final size:255
Alignment explanation
Indices: 1929891--1930387 Score: 630
Period size: 253 Copynumber: 2.0 Consensus size: 255
1929881 TAAATAATGG
* * * *
1929891 TCACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACTTGTGTAGTA
1 TCACATGTGTAGTACTAAGTGAAGGCTACAATGTGAACCGAGAAACTTTGATCACGTGTGTAGTA
*
1929956 CTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAGTGAAGGCTA
66 CTATGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAGTGAAGGCTA
* * * * * *
1930021 CAATGTGTACCGAGAAGCTTTGGTCACTTGTGTAGTACTGTGTGAAGGCTACTACGTGTATC-GA
131 CAATGCGTACCGAGAAGCTTCGATCACGTGTGTAGTACTATGTCAAGGCTACTACGTGTATCGGA
*
1930085 TAAATAATGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGA
196 T-AATAATGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGAACCGAAAAGCTTTGA
* * *
1930146 TCACGTGTGTAGTACTATGTGAAGGCTAC-TTCGTGAACCGTA-AAAC-TTGATCACGTGTGTAG
1 TCACATGTGTAGTACTAAGTGAAGGCTACAAT-GTGAACCG-AGAAACTTTGATCACGTGTGTAG
* * * * * *
1930208 TACTATGTGTAGGCTACTACGTGTATC-A-GAATGATAGGTCGCATGTGTAGTACTATGTGCAGG
64 TACTATGTGAAGGCTACTACGTGTATCGATAAATAAT-GGTCACATGTGTAGTACTAAGTGAAGG
* * *
1930271 CTACTATGCGTACCG-GATAGCTTCGATTACGTGTGTAGTACTATGTCCAGGCTACTACGTGTAT
128 CTACAATGCGTACCGAGA-AGCTTCGATCACGTGTGTAGTACTATGTCAAGGCTACTACGTGTAT
* * * * * *
1930335 CGGATAGTGATGGTCACCTGTGTAGTACTATGTGCATGCTACTATGTGAACCG
192 CGGATAATAATGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGAACCG
1930388 GTATAATTGA
Statistics
Matches: 207, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
252 7 0.03
253 119 0.57
254 43 0.21
255 37 0.18
256 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (255 bp):
TCACATGTGTAGTACTAAGTGAAGGCTACAATGTGAACCGAGAAACTTTGATCACGTGTGTAGTA
CTATGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAGTGAAGGCTA
CAATGCGTACCGAGAAGCTTCGATCACGTGTGTAGTACTATGTCAAGGCTACTACGTGTATCGGA
TAATAATGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGAACCGAAAAGCTTTGA
Found at i:1938796 original size:45 final size:45
Alignment explanation
Indices: 1938722--1938837 Score: 151
Period size: 45 Copynumber: 2.6 Consensus size: 45
1938712 TGTTAATATG
* * ** *
1938722 GTGTGGGTAAACCACTAATCGGTATAGATAAAAGCTACTAATACA
1 GTGTGGATAAACCAATAATCGGTGCAGATAAAAACTACTAATACA
* * *
1938767 GTGTGGATAAATCAATAATTGGTGCAGATAAAAACTGCTAATACA
1 GTGTGGATAAACCAATAATCGGTGCAGATAAAAACTACTAATACA
*
1938812 GTGTGGATAAACCATTAATCGGTGCA
1 GTGTGGATAAACCAATAATCGGTGCA
1938838 AATAGGCTAC
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.26
Consensus pattern (45 bp):
GTGTGGATAAACCAATAATCGGTGCAGATAAAAACTACTAATACA
Found at i:1941903 original size:12 final size:11
Alignment explanation
Indices: 1941874--1941901 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
1941864 TTCACTTTCA
1941874 TTTTTTGTTTT
1 TTTTTTGTTTT
1941885 TTTTTTGTTTT
1 TTTTTTGTTTT
1941896 TTTTTT
1 TTTTTT
1941902 TGAATCTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:1947572 original size:19 final size:19
Alignment explanation
Indices: 1947548--1947629 Score: 137
Period size: 19 Copynumber: 4.3 Consensus size: 19
1947538 AATCATATAT
1947548 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
1947567 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
1947586 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
1947605 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
1947624 TCTAAG
1 TCTAAG
1947630 GGTATCTAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 57 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:1947595 original size:38 final size:38
Alignment explanation
Indices: 1947525--1947629 Score: 138
Period size: 38 Copynumber: 2.7 Consensus size: 38
1947515 AAATTAAATC
*
1947525 TCTAAGATTACAAAATCATATATTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATC--ATA-TCTAAGATTGCATATCATA
*
1947567 TCTAAGATTATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
* *
1947605 TCTAGGATTGCATATCATATCTAAG
1 TCTAAGATTACATATCATATCTAAG
1947630 GGTATCTAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 41 0.71
39 3 0.05
41 4 0.07
42 10 0.17
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:1961646 original size:20 final size:21
Alignment explanation
Indices: 1961618--1961656 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
1961608 AAGTTCTACA
*
1961618 AGAACTAAGTC-ACAAAATAT
1 AGAACTAAGCCAACAAAATAT
*
1961638 AGAATTAAGCCAACAAAAT
1 AGAACTAAGCCAACAAAAT
1961657 CTGCTGAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.56, C:0.15, G:0.10, T:0.18
Consensus pattern (21 bp):
AGAACTAAGCCAACAAAATAT
Found at i:1978558 original size:21 final size:21
Alignment explanation
Indices: 1978533--1978574 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1978523 GATAGAATGG
*
1978533 TACATATTCTACGGGGAAGAA
1 TACATATACTACGGGGAAGAA
*
1978554 TACATATAGTACGGGGAAGAA
1 TACATATACTACGGGGAAGAA
1978575 GTTGAGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.21
Consensus pattern (21 bp):
TACATATACTACGGGGAAGAA
Found at i:1979048 original size:12 final size:12
Alignment explanation
Indices: 1979031--1979056 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1979021 CAAAACAGGC
1979031 TTTTAGCGGCGT
1 TTTTAGCGGCGT
1979043 TTTTAGCGGCGT
1 TTTTAGCGGCGT
1979055 TT
1 TT
1979057 GTATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:1979111 original size:40 final size:40
Alignment explanation
Indices: 1979063--1979217 Score: 242
Period size: 40 Copynumber: 3.9 Consensus size: 40
1979053 GTTTGTATAA
1979063 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTTGG
1979103 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTTGG
* * **
1979143 AAAACGCCGCTAAAGATCGAGTATTAGCGGCGATTTACGG
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTTGG
* *
1979183 AAAACGCCGCTAAA-AACAAGCATTAGCGGCG-TTTT
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTT
1979218 CCAGAAAGCG
Statistics
Matches: 107, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 3 0.03
39 14 0.13
40 90 0.84
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTTGG
Found at i:1979157 original size:80 final size:78
Alignment explanation
Indices: 1979045--1979217 Score: 238
Period size: 80 Copynumber: 2.2 Consensus size: 78
1979035 AGCGGCGTTT
** * **
1979045 TTAGCGGCGTTTGTATAAAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTTGGAAAACGC
1 TTAGCGGCGTTT-T-TGGAAAACGCCGCTAAAGATCGAGCATTAGCGGCGATTTACGGAAAACGC
* *
1979110 CGCTAAAGATCGAGCA
64 CGCTAAA-AACAAGCA
*
1979126 TTAGCGGCGCTTTTTGGAAAACGCCGCTAAAGATCGAGTATTAGCGGCGATTTACGGAAAACGCC
1 TTAGCGGCG-TTTTTGGAAAACGCCGCTAAAGATCGAGCATTAGCGGCGATTTACGGAAAACGCC
1979191 GCTAAAAACAAGCA
65 GCTAAAAACAAGCA
1979205 TTAGCGGCGTTTT
1 TTAGCGGCGTTTT
1979218 CCAGAAAGCG
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
78 4 0.05
79 15 0.18
80 51 0.61
81 10 0.12
82 3 0.04
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (78 bp):
TTAGCGGCGTTTTTGGAAAACGCCGCTAAAGATCGAGCATTAGCGGCGATTTACGGAAAACGCCG
CTAAAAACAAGCA
Found at i:1979325 original size:41 final size:41
Alignment explanation
Indices: 1979268--1979555 Score: 402
Period size: 41 Copynumber: 7.0 Consensus size: 41
1979258 TTGTGAGCTT
1979268 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
1979309 TCAGGGCTTTAGCGGCGTTTTTG-GAGAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAGA-AAGCGCCGCTAATGC
*
1979350 TCAGGGCTTTAGCGGCATTTTTGAGAAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
* * *
1979391 TCAGTGCTTTAGCGGCATTTTTG-GAGAAGCGCCGGTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAGA-AAGCGCCGCTAATGC
* * * *
1979432 TCAGGGCTTTAGCGCCGCTTTTGAGAAAGCGCTGGTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
*
1979473 TCAGTGCTTTAGCGGCGTTTTTGTTA-AAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTG--AGAAAGCGCCGCTAATGC
* * *
1979515 TCAGGGCTTTTAGCGGCGTTTTTTATAAAGCGCCGCAAATG
1 TCAGGGC-TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATG
1979556 TTCTATTTTT
Statistics
Matches: 223, Mismatches: 16, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
40 4 0.02
41 165 0.74
42 38 0.17
43 16 0.07
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (41 bp):
TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
Found at i:1979584 original size:123 final size:119
Alignment explanation
Indices: 1979268--1979598 Score: 360
Period size: 123 Copynumber: 2.7 Consensus size: 119
1979258 TTGTGAGCTT
*
1979268 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGG
1 TCAGGGCTTTAGCGGCGTTTTTGA-AAAGCGCCGCTAATGCTCA-GGCTTTAGC-GCGTTTTT-A
*
1979333 AGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGAGAAAGCGCCGCTAATGC
62 AAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGAGAAAGCGCCGCTAATGC
* * * * *
1979391 TCAGTGCTTTAGCGGCATTTTTGGAGAAGCGCCGGTAATGCTCAGGGCTTTAGCGCCGCTTTTGA
1 TCAGGGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTCA-GGCTTTAGCG-CG-TTTTTA
* * * * *
1979456 GAAAGCGCTGGTAATGCTCAGTGCTTTAGCGGCGTTTTTGTTA-AAAGCGCCGCTAATGC
62 AAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTG--AGAAAGCGCCGCTAATGC
* * * **
1979515 TCAGGGCTTTTAGCGGCGTTTTTTATAAAGCGCCGCAAATGTTCTA-TTTTTAGCGCGTTTTCTA
1 TCAGGGC-TTTAGCGGCGTTTTTGA-AAAGCGCCGCTAATGCTC-AGGCTTTAGCGCGTTTT-TA
*
1979579 AAAAGCACCGCTAATGCTCA
62 AAAAGCGCCGCTAATGCTCA
1979599 ATGATTTAAA
Statistics
Matches: 173, Mismatches: 26, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
122 5 0.03
123 102 0.59
124 36 0.21
125 29 0.17
126 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (119 bp):
TCAGGGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCAGGCTTTAGCGCGTTTTTAAAAA
GCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGAGAAAGCGCCGCTAATGC
Found at i:1980041 original size:6 final size:6
Alignment explanation
Indices: 1980032--1980059 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
1980022 CTTTTCTTTG
1980032 AGATTC AGATTC AGATTC AGATTC AGAT
1 AGATTC AGATTC AGATTC AGATTC AGAT
1980060 CTTATTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (6 bp):
AGATTC
Found at i:1984779 original size:42 final size:42
Alignment explanation
Indices: 1984715--1985130 Score: 174
Period size: 43 Copynumber: 9.7 Consensus size: 42
1984705 TGATATGTTT
* * * *
1984715 TAGCGGCGTTTTTGCGGGAAGCGTCGCTAAAAGT-TTGTTCTA
1 TAGCGGCGTTTGTG-GGGAAGCGCCGCTAAAAGTCCTGGTCTA
* * *
1984757 TAGCGGCGTTTGTGGGGAAAGCGCCGCTGAAGGTCCTGGTCTT
1 TAGCGGCGTTTGTGGGG-AAGCGCCGCTAAAAGTCCTGGTCTA
** * * * *
1984800 TAGCGGCGTTTGTGGAAAAAGTGCCGCTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGG-GGAAGCGCCGCTAAAAGTCCTGGTCTA
* ** * * * **
1984843 TAGCGGTGTTTGTGGAAAAAGCGCCACTAAAGGT-CAGG-GAA
1 TAGCGGCGTTTGTGG-GGAAGCGCCGCTAAAAGTCCTGGTCTA
* * * *** **** * ** *
1984884 AAGCGCCGCTAAAGGTCCTG-GTCTTTAACGAAAGGTCCTGGTCTT
1 TAGCGGCGTTTGTGGGGAAGCGCCGCT-A--AAAG-TCCTGGTCTA
* ** * * *
1984929 TTGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGG-GGAAGCGCCGCTAAAAGTCCTGGTCTA
* ** * * * *
1984972 TAGCGGTGTTTGTGGAAAAAGCGCCACTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGG-GGAAGCGCCGCTAAAAGTCCTGGTCTA
* * *
1985015 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTGTGGG-GAAGCGCCGCTAAAAGTCCTGGTCTA
* ** * * *
1985058 TAACGGCGTTTGTGGAAAAAGCACCGCTAAAGGTCGTGGTCTA
1 TAGCGGCGTTTGTGG-GGAAGCGCCGCTAAAAGTCCTGGTCTA
*
1985101 TAGCGGCGTTTGTGGGAAAGCGCCGCTAAA
1 TAGCGGCGTTTGTGGGGAAGCGCCGCTAAA
1985131 GGTCATGACT
Statistics
Matches: 291, Mismatches: 70, Indels: 26
0.75 0.18 0.07
Matches are distributed among these distances:
39 3 0.01
40 2 0.01
41 11 0.04
42 44 0.15
43 212 0.73
44 6 0.02
45 8 0.03
46 2 0.01
47 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.26
Consensus pattern (42 bp):
TAGCGGCGTTTGTGGGGAAGCGCCGCTAAAAGTCCTGGTCTA
Found at i:1984809 original size:43 final size:43
Alignment explanation
Indices: 1984757--1985134 Score: 375
Period size: 43 Copynumber: 8.8 Consensus size: 43
1984747 GTTTGTTCTA
** *
1984757 TAGCGGCGTTTGTGGGGAAAGCGCCGCTGAAGGTCCTGGTCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGGTCTT
* *
1984800 TAGCGGCGTTTGTGGAAAAAGTGCCGCTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGGTCTT
* * * ***
1984843 TAGCGGTGTTTGTGGAAAAAGCGCCACTAAAGGT-CAGG-GAA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGGTCTT
* * * *** ***** **** *
1984884 AAGCGCCGCTAAAGGTCCTGGTCTTTAACGAAAGGTCCTGGTCTT
1 TAGCGGCGTTTGTGGAAAAAG-C-GCCGCTAAAGGTCCTGGTCTT
* *
1984929 TTGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGGTCTT
* * *
1984972 TAGCGGTGTTTGTGGAAAAAGCGCCACTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGGTCTT
*
1985015 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGGTCTT
* * * *
1985058 TAACGGCGTTTGTGGAAAAAGCACCGCTAAAGGTCGTGGTCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGGTCTT
*
1985101 TAGCGGCGTTTGTGG-GAAAGCGCCGCTAAAGGTC
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTC
1985135 ATGACTTTTA
Statistics
Matches: 265, Mismatches: 66, Indels: 9
0.78 0.19 0.03
Matches are distributed among these distances:
41 9 0.03
42 20 0.08
43 223 0.84
44 4 0.02
45 9 0.03
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGGTCTT
Found at i:1985047 original size:129 final size:128
Alignment explanation
Indices: 1984757--1985150 Score: 459
Period size: 129 Copynumber: 3.1 Consensus size: 128
1984747 GTTTGTTCTA
* * *
1984757 TAGCGGCGTTTGTGGGGAAAGCGCCGCTGAAGGTCCTGGTCTTTAGCGGCGTTTGTGGAAAAAGT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGAAAAAGC
***
1984822 GCCGCTAAAGGTCATGGTCTTTAGCGGTGTTTGTGGAAAAAGCGCCACTAAAGGTCA-GGGAA
66 GCCGCTAAAGGTCATGGTCTTTAGCGGTGTTTGTGGAAAAAGCGCCACTAAAGGTCATGGCTT
* * * *** ***** **** * *
1984884 AAGCGCCGCTAAAGGTCCTGGTCTTTAACGAAAGGTCCTGGTCTTTTGCGGCGTTTGTGGAAAAA
1 TAGCGGCGTTTGTGGGAAAAG-C-GCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGAAAAA
1984949 GCGCCGCTAAAGGTCATGGTCTTTAGCGGTGTTTGTGGAAAAAGCGCCACTAAAGGTCATGGTCT
64 GCGCCGCTAAAGGTCATGGTCTTTAGCGGTGTTTGTGGAAAAAGCGCCACTAAAGGTCATGG-CT
1985014 T
128 T
*
1985015 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAACGGCGTTTGTGGAAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGAAAAAGC
* * * * * * *
1985080 ACCGCTAAAGGTCGTGGTCTATAGCGGCGTTTGTGG-GAAAGCGCCGCTAAAGGTCATGACTTT
66 GCCGCTAAAGGTCATGGTCTTTAGCGGTGTTTGTGGAAAAAGCGCCACTAAAGGTCATGGC-TT
1985143 TAGCGGCG
1 TAGCGGCG
1985151 CATTCAATAG
Statistics
Matches: 215, Mismatches: 47, Indels: 9
0.79 0.17 0.03
Matches are distributed among these distances:
127 11 0.05
128 31 0.14
129 160 0.74
130 3 0.01
131 10 0.05
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (128 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGAAAAAGC
GCCGCTAAAGGTCATGGTCTTTAGCGGTGTTTGTGGAAAAAGCGCCACTAAAGGTCATGGCTT
Found at i:1985209 original size:22 final size:22
Alignment explanation
Indices: 1985183--1985224 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1985173 TGGCGCTTAT
*
1985183 AAAAGCACCGCTAAAGGCCTAA
1 AAAAGCACCGCTAAAAGCCTAA
**
1985205 AAAAGCGTCGCTAAAAGCCT
1 AAAAGCACCGCTAAAAGCCT
1985225 GTTTTGGTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.26, G:0.19, T:0.12
Consensus pattern (22 bp):
AAAAGCACCGCTAAAAGCCTAA
Found at i:1988348 original size:18 final size:17
Alignment explanation
Indices: 1988327--1988393 Score: 98
Period size: 18 Copynumber: 3.8 Consensus size: 17
1988317 GGTGGGGCTT
1988327 CCATCGGACCCAGGGCAG
1 CCATCGGACCC-GGGCAG
1988345 CCATCGGACCCGGGGCAG
1 CCATCGGACCC-GGGCAG
*
1988363 CCATCGGACCCGGGTCTG
1 CCATCGGACCCGGG-CAG
1988381 CCATCGGACCCGG
1 CCATCGGACCCGG
1988394 CGCCTCGCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
17 3 0.07
18 43 0.93
ACGTcount: A:0.16, C:0.40, G:0.34, T:0.09
Consensus pattern (17 bp):
CCATCGGACCCGGGCAG
Found at i:1996140 original size:75 final size:75
Alignment explanation
Indices: 1995918--1996132 Score: 376
Period size: 75 Copynumber: 2.9 Consensus size: 75
1995908 TCACCAGAAT
* * * *
1995918 AAGAAGGAATACTATGAGAGTTAGTACTTGTTGGACTAATATCTACTTCATTTTGAGGAACCGAA
1 AAGAGGGAATACTATGAGAATTAGTACTTGTTGGACTAATATCTACTCCATTCTGAGGAACCGAA
1995983 TACCCATTTA
66 TACCCATTTA
* *
1995993 AAGAGGGAATACTATAAGAATTAGTACTTGTTGGACTAATATCTACTCCATTCTGAGGAGCCGAA
1 AAGAGGGAATACTATGAGAATTAGTACTTGTTGGACTAATATCTACTCCATTCTGAGGAACCGAA
1996058 TACCCATTTA
66 TACCCATTTA
1996068 AAGAGGGAATACTATGAGAATTAGTACTTGTTGGACTAATATCTACTCCATTCTGAGGAACCGAA
1 AAGAGGGAATACTATGAGAATTAGTACTTGTTGGACTAATATCTACTCCATTCTGAGGAACCGAA
1996133 GATCCATTCA
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 132 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (75 bp):
AAGAGGGAATACTATGAGAATTAGTACTTGTTGGACTAATATCTACTCCATTCTGAGGAACCGAA
TACCCATTTA
Found at i:2000714 original size:114 final size:114
Alignment explanation
Indices: 2000555--2001115 Score: 820
Period size: 115 Copynumber: 4.9 Consensus size: 114
2000545 AACAAGACCT
* * *
2000555 TTAGCGGCGCTTTTCCTACAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGC
1 TTAGCGGCGC-TTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
* *
2000620 TTAGGTTTTTTTGCTGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGGGCA
65 TTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCA
* * * *
2000670 TTAGCGGCGCTTTCTTAAAAATGCCGCTATATCCTCGAAAGCTCAGAAAACAGCGTCGTTGGGCT
1 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
*
2000735 TAGGTTTTTCTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTAAGCA
66 TAGGTTTTT-TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCA
** * * *
2000785 TTAAAGGCGCTTT-TCTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAATGGCGTGGTTGGGC
1 TTAGCGGCGCTTTCT-TAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
* *
2000849 TTAGGTTTTTTTGTGGTGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCA
65 TTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCA
* * * *
2000899 TTAGCGGCGCTTTCTTAAAAATGCCGCTATATCCTCGAAAGCTCAGAAAACAGCGTCGTTGGGCT
1 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
2000964 TAGGTTTTTCTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCA
66 TAGGTTTTT-TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCA
* * * *
2001014 TTAGCGGCGCTTTCTTAAAAAAGCGGCTAAATCCCCGAAAGCTTAGAAAACGACGTCGTTGGGCT
1 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
** *
2001079 TAGG-TTTTTTGCGGCGCTTTCTGGAAAACGCTGCTAA
66 TAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
2001116 TGCTTATTTT
Statistics
Matches: 399, Mismatches: 43, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
113 26 0.07
114 162 0.41
115 211 0.53
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (114 bp):
TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
TAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCA
Found at i:2000975 original size:229 final size:229
Alignment explanation
Indices: 2000560--2001115 Score: 902
Period size: 229 Copynumber: 2.4 Consensus size: 229
2000550 GACCTTTAGC
* *
2000560 GGCGCTTTTCCTACAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGG
1 GGCGCTTTT-CTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG
*
2000625 TTTTTTTGCT-GCGCTTTCTCAAAAACGCCGCTAAAGCCCTGGGCATTAGCGGCGCTTTCTTAAA
65 TTTTTTTG-TGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAA
2000689 AATGCCGCTATATCCTCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTCTTGCGGCGC
129 AATGCCGCTATATCCTCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTCTTGCGGCGC
2000754 TTTCTCAAAAACGCCGCTAAAGCCCTAAGCATTAAA
194 TTTCTCAAAAACGCCGCTAAAGCCCTAAGCATTAAA
* * *
2000790 GGCGCTTTTCTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAATGGCGTGGTTGGGCTTAGGT
1 GGCGCTTTTCTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
*
2000855 TTTTTTGTGGTGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAA
66 TTTTTTGTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAA
2000920 TGCCGCTATATCCTCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTCTTGCGGCGCTT
131 TGCCGCTATATCCTCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTCTTGCGGCGCTT
* **
2000985 TCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
196 TCTCAAAAACGCCGCTAAAGCCCTAAGCATTAAA
* * * *
2001019 GGCGC-TTTCTTAAAAAAGCGGCTAAATCCCCGAAAGCTTAGAAAACGACGTCGTTGGGCTTAGG
1 GGCGCTTTTC-TAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG
* ** *
2001083 -TTTTTTGCGGCGCTTTCTGGAAAACGCTGCTAA
65 TTTTTTTGTGGCGCTTTCTCAAAAACGCCGCTAA
2001116 TGCTTATTTT
Statistics
Matches: 302, Mismatches: 22, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
228 33 0.11
229 260 0.86
230 9 0.03
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (229 bp):
GGCGCTTTTCTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
TTTTTTGTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAA
TGCCGCTATATCCTCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTCTTGCGGCGCTT
TCTCAAAAACGCCGCTAAAGCCCTAAGCATTAAA
Found at i:2012655 original size:21 final size:20
Alignment explanation
Indices: 2012613--2012660 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
2012603 TTATAAATAT
*
2012613 TTTTAT-ATTTTTGTATGCA
1 TTTTATAATTTTTATATGCA
*
2012632 TTTTATAATTTTGTATATGTA
1 TTTTATAATTTT-TATATGCA
2012653 TTTTATAA
1 TTTTATAA
2012661 AAAAACTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.24
20 5 0.20
21 14 0.56
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.62
Consensus pattern (20 bp):
TTTTATAATTTTTATATGCA
Found at i:2014323 original size:29 final size:29
Alignment explanation
Indices: 2014291--2014355 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
2014281 TTTTTTTATC
* *
2014291 AATTTGGCCCTTATTCTTTTTTTGAGTTA
1 AATTTGGCCCTTATTCTTTTCTTGAGCTA
**
2014320 AATTTAACCCTTATTCTTTTCTTGAGCTA
1 AATTTGGCCCTTATTCTTTTCTTGAGCTA
2014349 AATTTGG
1 AATTTGG
2014356 TCATCAATCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.22, C:0.15, G:0.12, T:0.51
Consensus pattern (29 bp):
AATTTGGCCCTTATTCTTTTCTTGAGCTA
Found at i:2021041 original size:27 final size:26
Alignment explanation
Indices: 2021003--2021059 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
2020993 TAGCAATGGA
* *
2021003 AAAATGATTTTCA-ACTTAATTTTATT
1 AAAATCATTTTCATACTTAA-TTAATT
*
2021029 AAAATCATATTTCATGCTTAATTAATT
1 AAAATCAT-TTTCATACTTAATTAATT
2021056 AAAA
1 AAAA
2021060 ATAATATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 7 0.27
27 14 0.54
28 5 0.19
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (26 bp):
AAAATCATTTTCATACTTAATTAATT
Found at i:2025669 original size:17 final size:20
Alignment explanation
Indices: 2025645--2025691 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
2025635 TATAAATATT
* *
2025645 TTTTTTATTTT-TTTATGTA
1 TTTTATATTTTGTATATGTA
2025664 TTTTATAATTTTGTATATGTA
1 TTTTAT-ATTTTGTATATGTA
2025685 TTTTATA
1 TTTTATA
2025692 GAAAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 6 0.25
21 13 0.54
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (20 bp):
TTTTATATTTTGTATATGTA
Found at i:2029674 original size:7 final size:7
Alignment explanation
Indices: 2029664--2029690 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2029654 AAAAAAGGAA
2029664 AAAGAAC
1 AAAGAAC
2029671 AAAGAAC
1 AAAGAAC
2029678 AAAGAAC
1 AAAGAAC
2029685 AAAGAA
1 AAAGAA
2029691 GATAACGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.11, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAGAAC
Found at i:2035900 original size:14 final size:13
Alignment explanation
Indices: 2035873--2035907 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
2035863 AAACATCAAC
2035873 TATTTTTTTGATA
1 TATTTTTTTGATA
*
2035886 TATTTTTCTTTATA
1 TATTTTT-TTGATA
2035900 TATTTTTT
1 TATTTTTT
2035908 ATGTCAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (13 bp):
TATTTTTTTGATA
Found at i:2036336 original size:20 final size:20
Alignment explanation
Indices: 2036313--2036354 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
2036303 CTATTGATTT
2036313 TATATGT-AAATTATTTCAAA
1 TATATGTGAAA-TATTTCAAA
2036333 TATATGTGAAATATTTCAAA
1 TATATGTGAAATATTTCAAA
2036353 TA
1 TA
2036355 ACTATTACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (20 bp):
TATATGTGAAATATTTCAAA
Found at i:2042622 original size:43 final size:42
Alignment explanation
Indices: 2042556--2042685 Score: 165
Period size: 43 Copynumber: 3.0 Consensus size: 42
2042546 GACTCGTACA
* *
2042556 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAA-CACATATCG
**
2042599 ATGCCATTGTCCCAGACAG-GGTCTTACACGTAAACACA-AGTCG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACGT-AACACATA-TCG
2042642 ATGCCAACGTCCCAGACGTGGTCTTACACGATAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAACACATATCG
2042685 A
1 A
2042686 AAATCCTATG
Statistics
Matches: 75, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.03
43 68 0.91
44 5 0.07
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAACACATATCG
Found at i:2044297 original size:52 final size:52
Alignment explanation
Indices: 2044219--2044322 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
2044209 TGGGACTTAT
2044219 TCATTTATCAGGAATTATCAGATATGAGGTAAATTATATACACATACATGAC
1 TCATTTATCAGGAATTATCAGATATGAGGTAAATTATATACACATACATGAC
*
2044271 TCATTTATCAGGAATTATCGGATATGAGGTAAATTATATACACATACATGAC
1 TCATTTATCAGGAATTATCAGATATGAGGTAAATTATATACACATACATGAC
2044323 ATTTATACAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (52 bp):
TCATTTATCAGGAATTATCAGATATGAGGTAAATTATATACACATACATGAC
Found at i:2046274 original size:20 final size:20
Alignment explanation
Indices: 2046235--2046274 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2046225 CATCTCAGTG
*
2046235 GTTTTTAATATCTTTTATAA
1 GTTTTTAATATCTTTAATAA
2046255 GTTTTTAATAAT-TTTAATAA
1 GTTTTTAAT-ATCTTTAATAA
2046275 CTTATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (20 bp):
GTTTTTAATATCTTTAATAA
Found at i:2048050 original size:73 final size:73
Alignment explanation
Indices: 2047959--2048116 Score: 298
Period size: 73 Copynumber: 2.2 Consensus size: 73
2047949 TAAACCCTAA
*
2047959 ATTCCTTATGAATTCATATGAAGGCATAGAAACTATACTTAACTTTGATTGGAAGTGGTTGTGGA
1 ATTCCTTATGAATTCATATGAAGGCATAGAAACTACACTTAACTTTGATTGGAAGTGGTTGTGGA
2048024 ATCGTGAT
66 ATCGTGAT
*
2048032 ATTCCTTATGAATTCATATGAAGGCATAGAAACTACACTTCACTTTGATTGGAAGTGGTTGTGGA
1 ATTCCTTATGAATTCATATGAAGGCATAGAAACTACACTTAACTTTGATTGGAAGTGGTTGTGGA
2048097 ATCGTGAT
66 ATCGTGAT
2048105 ATTCCTTATGAA
1 ATTCCTTATGAA
2048117 ATTGTGATTT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 83 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (73 bp):
ATTCCTTATGAATTCATATGAAGGCATAGAAACTACACTTAACTTTGATTGGAAGTGGTTGTGGA
ATCGTGAT
Found at i:2056847 original size:18 final size:18
Alignment explanation
Indices: 2056824--2056869 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
2056814 TTAGGATAAA
*
2056824 TACATTTGTATCTATATT
1 TACATTTGTATCCATATT
*
2056842 TACATTTGTATCCGTATT
1 TACATTTGTATCCATATT
*
2056860 TACATCTGTA
1 TACATTTGTA
2056870 CATGTTTCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (18 bp):
TACATTTGTATCCATATT
Found at i:2063004 original size:40 final size:40
Alignment explanation
Indices: 2062954--2063035 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
2062944 ATATTATAAG
* * *
2062954 ATTGATTTATATTTAAATTTAAATACAAAATTAAGTTGTT
1 ATTGAATTATATATAAATTTAAATAAAAAATTAAGTTGTT
2062994 ATTGAATTATATATAAATTTAAATAAAAAATTAAGTTGTT
1 ATTGAATTATATATAAATTTAAATAAAAAATTAAGTTGTT
2063034 AT
1 AT
2063036 AAATAGATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.45
Consensus pattern (40 bp):
ATTGAATTATATATAAATTTAAATAAAAAATTAAGTTGTT
Found at i:2063213 original size:87 final size:88
Alignment explanation
Indices: 2063102--2063278 Score: 347
Period size: 87 Copynumber: 2.0 Consensus size: 88
2063092 GATTAATTTG
2063102 AATACATAAATTTTTAATTTTAATTATAAAATATTAATTAAAATTATATAATACGGAAAACAAGG
1 AATACATAAATTTTTAATTTTAATTATAAAATATTAATTAAAATTATATAATACGGAAAACAAGG
2063167 TTGTTAAAGATCATTAAATTACT
66 TTGTTAAAGATCATTAAATTACT
2063190 AATACATAAA-TTTTAATTTTAATTATAAAATATTAATTAAAATTATATAATACGGAAAACAAGG
1 AATACATAAATTTTTAATTTTAATTATAAAATATTAATTAAAATTATATAATACGGAAAACAAGG
2063254 TTGTTAAAGATCATTAAATTACT
66 TTGTTAAAGATCATTAAATTACT
2063277 AA
1 AA
2063279 ATTGTTAGCA
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
87 79 0.89
88 10 0.11
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.38
Consensus pattern (88 bp):
AATACATAAATTTTTAATTTTAATTATAAAATATTAATTAAAATTATATAATACGGAAAACAAGG
TTGTTAAAGATCATTAAATTACT
Found at i:2064025 original size:72 final size:72
Alignment explanation
Indices: 2063941--2064146 Score: 295
Period size: 72 Copynumber: 2.9 Consensus size: 72
2063931 TTGTTGGATT
* * *
2063941 TTATTTTGGCTACGTTTATTTAAAATATTAATATTTATTACATCCAAGGACTAGTTGTTGGACAT
1 TTATTTTGGCTACATTTATTTAAAATATTAATATTTATTACTTCCAAGGACAAGTTGTTGGACAT
2064006 AAATATA
66 AAATATA
** * *
2064013 TTATTTTGGCTACATTTATTTAAAATATTAATATTTATTACTTCCAACCACAAGTTGATGGACCT
1 TTATTTTGGCTACATTTATTTAAAATATTAATATTTATTACTTCCAAGGACAAGTTGTTGGACAT
* *
2064078 CATTATA
66 AAATATA
* * * *
2064085 TTATTTTGGCTATATCTATTTAAAATATTAATATTTATTACTTCTAAGGACGAGTTGTTGGA
1 TTATTTTGGCTACATTTATTTAAAATATTAATATTTATTACTTCCAAGGACAAGTTGTTGGA
2064147 ACTCTGATTA
Statistics
Matches: 118, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 118 1.00
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (72 bp):
TTATTTTGGCTACATTTATTTAAAATATTAATATTTATTACTTCCAAGGACAAGTTGTTGGACAT
AAATATA
Found at i:2067150 original size:19 final size:19
Alignment explanation
Indices: 2067126--2067162 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
2067116 TATTTTAAAG
2067126 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
2067145 TTATTTAGGTAGATAAAT
1 TTATTTAGGTAGATAAAT
2067163 TTTAGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:2068685 original size:55 final size:51
Alignment explanation
Indices: 2068563--2068691 Score: 143
Period size: 55 Copynumber: 2.5 Consensus size: 51
2068553 AATATATATA
* * *
2068563 ATTT-ATTGCTTGAACACTTCAACATAGCATAACAAAAGCGTAGGATGCAT
1 ATTTCATTCCTTGAACACTTTAACATAGCATAACAAAAGCGTAGCATGCAT
* * ** *
2068613 AATTCCTTTATTGAACACTTTAGCATAGCATAACAAAAAGCGTCATAGCATGCAT
1 ATTTCATTCCTTGAACACTTTAACATAGCATAAC-AAAAGCG---TAGCATGCAT
2068668 ATTTCATTCCTTGAACACTTTAAC
1 ATTTCATTCCTTGAACACTTTAAC
2068692 TTATACTTTA
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
50 3 0.05
51 24 0.39
52 7 0.11
55 28 0.45
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.31
Consensus pattern (51 bp):
ATTTCATTCCTTGAACACTTTAACATAGCATAACAAAAGCGTAGCATGCAT
Found at i:2071224 original size:17 final size:19
Alignment explanation
Indices: 2071202--2071240 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
2071192 CTCTCCGTCC
2071202 TTTTTGAT-TT-CTTTTGG
1 TTTTTGATGTTGCTTTTGG
*
2071219 TTTTTGATGTTGTTTTTGG
1 TTTTTGATGTTGCTTTTGG
2071238 TTT
1 TTT
2071241 GATTATGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 2 0.11
19 9 0.47
ACGTcount: A:0.05, C:0.03, G:0.21, T:0.72
Consensus pattern (19 bp):
TTTTTGATGTTGCTTTTGG
Found at i:2076613 original size:16 final size:16
Alignment explanation
Indices: 2076592--2076622 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2076582 ATTTTTTTAT
2076592 TTTTAATCAAATATAC
1 TTTTAATCAAATATAC
2076608 TTTTAATCAAATATA
1 TTTTAATCAAATATA
2076623 TATATATTAA
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:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTTAATCAAATATAC
Found at i:2077040 original size:28 final size:29
Alignment explanation
Indices: 2077004--2077062 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
2076994 TAATTTTCAT
*
2077004 TAGGCATAAT-AACAAAATTAGCCCTTAG
1 TAGGCATAATAAAAAAAATTAGCCCTTAG
2077032 TAGGCATAATAAAAAAAATTAGCCCTTAG
1 TAGGCATAATAAAAAAAATTAGCCCTTAG
2077061 TA
1 TA
2077063 TTTATGTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (29 bp):
TAGGCATAATAAAAAAAATTAGCCCTTAG
Found at i:2077119 original size:29 final size:29
Alignment explanation
Indices: 2077086--2077148 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
2077076 TATTTTTATC
* *
2077086 AATTTAGCCCTTATTCTTTTTTTGAGCTA
1 AATTTAACCCTTATTCTTTTCTTGAGCTA
2077115 AATTTAACCCTTATTCTTTTCTTGAGCTA
1 AATTTAACCCTTATTCTTTTCTTGAGCTA
2077144 AATTT
1 AATTT
2077149 GGTCCTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.24, C:0.17, G:0.08, T:0.51
Consensus pattern (29 bp):
AATTTAACCCTTATTCTTTTCTTGAGCTA
Found at i:2077161 original size:29 final size:29
Alignment explanation
Indices: 2077086--2077164 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
2077076 TATTTTTATC
* * * *
2077086 AATTTAGCCCTTATTCTTTTTTTGAGCTA
1 AATTTAACCCTAAATCTTTTCTTGAGCTA
* *
2077115 AATTTAACCCTTATTCTTTTCTTGAGCTA
1 AATTTAACCCTAAATCTTTTCTTGAGCTA
***
2077144 AATTTGGTCCTAAATCTTTTC
1 AATTTAACCCTAAATCTTTTC
2077165 AAAAAAGAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.49
Consensus pattern (29 bp):
AATTTAACCCTAAATCTTTTCTTGAGCTA
Found at i:2091656 original size:65 final size:65
Alignment explanation
Indices: 2091546--2091667 Score: 165
Period size: 65 Copynumber: 1.9 Consensus size: 65
2091536 CAATGAAAAT
* * * * *
2091546 GGTATAAAAATATTCCCAAAGTATAACCGGATCCACATAATAATTAACATACATTTGGGGGGGGG
1 GGTATAAAAAAATTCACAAAGTATAACCAGATCCACACAAGAATTAACATACATTTGGGGGGGGG
* *
2091611 GGTATAAAAAAATTCACAAAGTAT-GCCAAGATCCACACAAGAATTAACATCCATTTG
1 GGTATAAAAAAATTCACAAAGTATAACC-AGATCCACACAAGAATTAACATACATTTG
2091668 CGGGTTAGTA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
64 2 0.04
65 47 0.96
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (65 bp):
GGTATAAAAAAATTCACAAAGTATAACCAGATCCACACAAGAATTAACATACATTTGGGGGGGGG
Found at i:2092132 original size:21 final size:20
Alignment explanation
Indices: 2092093--2092139 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
2092083 TTATAAATAT
*
2092093 TTTTAT-ATTTTTGTATGTA
1 TTTTATAATTTTTATATGTA
2092112 TTTTATAATTTTGTATATGTA
1 TTTTATAATTTT-TATATGTA
2092133 TTTTATA
1 TTTTATA
2092140 GATACATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.24
20 5 0.20
21 14 0.56
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (20 bp):
TTTTATAATTTTTATATGTA
Found at i:2095674 original size:31 final size:32
Alignment explanation
Indices: 2095639--2095699 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
2095629 AAAGACTTAA
* *
2095639 AATTTAGCCTTCAA-CCTTTTAAAAAAAGTTG
1 AATTTAGCCATCAATCCTTTAAAAAAAAGTTG
2095670 AATTTAGCCATCAATCCTTTAAAAAAAAGT
1 AATTTAGCCATCAATCCTTTAAAAAAAAGT
2095700 CAAATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (32 bp):
AATTTAGCCATCAATCCTTTAAAAAAAAGTTG
Found at i:2097483 original size:21 final size:21
Alignment explanation
Indices: 2097459--2097506 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
2097449 ACATTTAAAA
2097459 CCTTAGGCTTGAAAACTCCAG
1 CCTTAGGCTTGAAAACTCCAG
**
2097480 CCTTAGGCTTGAAAACTCTGG
1 CCTTAGGCTTGAAAACTCCAG
2097501 CCTTAG
1 CCTTAG
2097507 CCCGAGTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (21 bp):
CCTTAGGCTTGAAAACTCCAG
Found at i:2108309 original size:17 final size:20
Alignment explanation
Indices: 2108285--2108331 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
2108275 TATAAATATT
* *
2108285 TTTTTTATTTT-TTTATGTA
1 TTTTATATTTTGTATATGTA
2108304 TTTTATAATTTTGTATATGTA
1 TTTTAT-ATTTTGTATATGTA
2108325 TTTTATA
1 TTTTATA
2108332 GAAAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 6 0.25
21 13 0.54
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (20 bp):
TTTTATATTTTGTATATGTA
Found at i:2115789 original size:347 final size:347
Alignment explanation
Indices: 2115154--2115847 Score: 1388
Period size: 347 Copynumber: 2.0 Consensus size: 347
2115144 AGCAAAAAAA
2115154 TGTCAATAGACCTGTTCTTTATTTATTTCAAAATTTTTTTAAAAAAAAATTGGAACTAACTCAAC
1 TGTCAATAGACCTGTTCTTTATTTATTTCAAAATTTTTTTAAAAAAAAATTGGAACTAACTCAAC
2115219 AACATACCTGCATCTCCAGCCATAGCTGCTGCATGCAAAGCTGTTCTACCGTGGGGGCCGCCATG
66 AACATACCTGCATCTCCAGCCATAGCTGCTGCATGCAAAGCTGTTCTACCGTGGGGGCCGCCATG
2115284 AGCTGTTGATTTTGATTTATCTAATATTACACTCAGCACGCCGCCGTCTCCTCTCTTAGCTGCAA
131 AGCTGTTGATTTTGATTTATCTAATATTACACTCAGCACGCCGCCGTCTCCTCTCTTAGCTGCAA
2115349 TATAAAGTGAAGTCTCCTGTTTTTTATTGGCAGAATACGGAAAATCAGGGTCTTCAAACTCCAAC
196 TATAAAGTGAAGTCTCCTGTTTTTTATTGGCAGAATACGGAAAATCAGGGTCTTCAAACTCCAAC
2115414 AATGCTTTCACCGCTTCAACATTGCCACACCCTGCTGCTTCATGCAAAGCCGTGTTGGATTCCTG
261 AATGCTTTCACCGCTTCAACATTGCCACACCCTGCTGCTTCATGCAAAGCCGTGTTGGATTCCTG
2115479 ATCCGTAATCCTCAGCATCTCC
326 ATCCGTAATCCTCAGCATCTCC
2115501 TGTCAATAGACCTGTTCTTTATTTATTTCAAAATTTTTTTAAAAAAAAATTGGAACTAACTCAAC
1 TGTCAATAGACCTGTTCTTTATTTATTTCAAAATTTTTTTAAAAAAAAATTGGAACTAACTCAAC
2115566 AACATACCTGCATCTCCAGCCATAGCTGCTGCATGCAAAGCTGTTCTACCGTGGGGGCCGCCATG
66 AACATACCTGCATCTCCAGCCATAGCTGCTGCATGCAAAGCTGTTCTACCGTGGGGGCCGCCATG
2115631 AGCTGTTGATTTTGATTTATCTAATATTACACTCAGCACGCCGCCGTCTCCTCTCTTAGCTGCAA
131 AGCTGTTGATTTTGATTTATCTAATATTACACTCAGCACGCCGCCGTCTCCTCTCTTAGCTGCAA
2115696 TATAAAGTGAAGTCTCCTGTTTTTTATTGGCAGAATACGGAAAATCAGGGTCTTCAAACTCCAAC
196 TATAAAGTGAAGTCTCCTGTTTTTTATTGGCAGAATACGGAAAATCAGGGTCTTCAAACTCCAAC
2115761 AATGCTTTCACCGCTTCAACATTGCCACACCCTGCTGCTTCATGCAAAGCCGTGTTGGATTCCTG
261 AATGCTTTCACCGCTTCAACATTGCCACACCCTGCTGCTTCATGCAAAGCCGTGTTGGATTCCTG
2115826 ATCCGTAATCCTCAGCATCTCC
326 ATCCGTAATCCTCAGCATCTCC
2115848 CTCACTGCAC
Statistics
Matches: 347, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
347 347 1.00
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (347 bp):
TGTCAATAGACCTGTTCTTTATTTATTTCAAAATTTTTTTAAAAAAAAATTGGAACTAACTCAAC
AACATACCTGCATCTCCAGCCATAGCTGCTGCATGCAAAGCTGTTCTACCGTGGGGGCCGCCATG
AGCTGTTGATTTTGATTTATCTAATATTACACTCAGCACGCCGCCGTCTCCTCTCTTAGCTGCAA
TATAAAGTGAAGTCTCCTGTTTTTTATTGGCAGAATACGGAAAATCAGGGTCTTCAAACTCCAAC
AATGCTTTCACCGCTTCAACATTGCCACACCCTGCTGCTTCATGCAAAGCCGTGTTGGATTCCTG
ATCCGTAATCCTCAGCATCTCC
Found at i:2116818 original size:51 final size:53
Alignment explanation
Indices: 2116749--2116869 Score: 147
Period size: 55 Copynumber: 2.3 Consensus size: 53
2116739 TAATGTATTG
* * * *
2116749 CTTGAACACTTCAACATAGCATAAC-AAAAGCG-TAGGATGCATAATTCCTTT
1 CTTGAACACTTTAACATAGCATAACAAAAAGCGATAGCATGCATAATTCATTC
* * *
2116800 CTTGAACACTTTAGCATAGCATAGCAAAAAGCGTCATAGCATGCATATTTCATTC
1 CTTGAACACTTTAACATAGCATAACAAAAAGCG--ATAGCATGCATAATTCATTC
2116855 CTTGAACACTTTAAC
1 CTTGAACACTTTAAC
2116870 TTATACTTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
51 22 0.38
52 7 0.12
55 29 0.50
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (53 bp):
CTTGAACACTTTAACATAGCATAACAAAAAGCGATAGCATGCATAATTCATTC
Found at i:2117155 original size:28 final size:28
Alignment explanation
Indices: 2117124--2117177 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
2117114 TGCAACTTCG
*
2117124 TGATGTGACAGACTATTTCG-CAACGTTA
1 TGATGTGACAAACTATTT-GACAACGTTA
2117152 TGATGTGACAAACTATTTGACAACGT
1 TGATGTGACAAACTATTTGACAACGT
2117178 CACAACGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (28 bp):
TGATGTGACAAACTATTTGACAACGTTA
Found at i:2123786 original size:15 final size:15
Alignment explanation
Indices: 2123766--2123801 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
2123756 AGTAAAAATG
*
2123766 AAATTTTATCATTAC
1 AAATTTTAGCATTAC
2123781 AAATTTTAGCATTAC
1 AAATTTTAGCATTAC
2123796 AAATTT
1 AAATTT
2123802 AAATTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (15 bp):
AAATTTTAGCATTAC
Found at i:2124339 original size:15 final size:15
Alignment explanation
Indices: 2124319--2124354 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
2124309 AGTAAAAATG
*
2124319 AAATTTTATCATTAC
1 AAATTTTAGCATTAC
2124334 AAATTTTAGCATTAC
1 AAATTTTAGCATTAC
2124349 AAATTT
1 AAATTT
2124355 AAATTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (15 bp):
AAATTTTAGCATTAC
Found at i:2124532 original size:553 final size:553
Alignment explanation
Indices: 2123486--2124594 Score: 2191
Period size: 553 Copynumber: 2.0 Consensus size: 553
2123476 TATTTATTTC
*
2123486 AAAAAATTTTAAAAGAAATTGGAACTAACTCATAAACATCCCTGCATCTCCAGCCATAGCTGCTG
1 AAAAAATTTTAAAAGAAATTGGAACTAACTCATAAACATACCTGCATCTCCAGCCATAGCTGCTG
2123551 CATGCAAAGCTGATCTACCGTGGGGACCGAAATGAGCAGTTGATTTCAATTGATCTAATAATAGA
66 CATGCAAAGCTGATCTACCGTGGGGACCGAAATGAGCAGTTGATTTCAATTGATCTAATAATAGA
2123616 GTCAACAAGCGCCCAGATCCTCTCCTCCTAGCTGCTATGTAAAGTGGAGTCTCCTGTTTTTTGTT
131 GTCAACAAGCGCCCAGATCCTCTCCTCCTAGCTGCTATGTAAAGTGGAGTCTCCTGTTTTTTGTT
2123681 GGCAGAATACGAAAAATCAGGGTCTAAATGAAACTTTAGAAGAGGGAGCGAAATTAAATTGTATT
196 GGCAGAATACGAAAAATCAGGGTCTAAATGAAACTTTAGAAGAGGGAGCGAAATTAAATTGTATT
2123746 TTTTTATAATAGTAAAAATGAAATTTTATCATTACAAATTTTAGCATTACAAATTTAAATTTTTA
261 TTTTTATAATAGTAAAAATGAAATTTTATCATTACAAATTTTAGCATTACAAATTTAAATTTTTA
2123811 TTATTTTAAGAGAGTGTAATTTTAGCATTACAAATTTAAATTTTTAAAGGCCCTAAATAGAAATT
326 TTATTTTAAGAGAGTGTAATTTTAGCATTACAAATTTAAATTTTTAAAGGCCCTAAATAGAAATT
2123876 TTCCATTTTAAGGGGCTGCCCCTGCCAACCTCCCTGGATTCGCCACTAACCAAAGTAATAGAACT
391 TTCCATTTTAAGGGGCTGCCCCTGCCAACCTCCCTGGATTCGCCACTAACCAAAGTAATAGAACT
2123941 TGTAGACATTGAAGGACTAAAATTTTATTATACCAATTGTTGACACCATTTTTTTTTTTATAAAA
456 TGTAGACATTGAAGGACTAAAATTTTATTATACCAATTGTTGACACCATTTTTTTTTTTATAAAA
2124006 CGGGGTCGACTTGGATTTTAAAAATGAAAACGA
521 CGGGGTCGACTTGGATTTTAAAAATGAAAACGA
*
2124039 AAAAAATTTTAAAAGAAATTGGAACTAACTCATTAACATACCTGCATCTCCAGCCATAGCTGCTG
1 AAAAAATTTTAAAAGAAATTGGAACTAACTCATAAACATACCTGCATCTCCAGCCATAGCTGCTG
*
2124104 CATGCAAAGCTGATCTACCGTGGGGACCGCAATGAGCAGTTGATTTCAATTGATCTAATAATAGA
66 CATGCAAAGCTGATCTACCGTGGGGACCGAAATGAGCAGTTGATTTCAATTGATCTAATAATAGA
2124169 GTCAACAAGCGCCCAGATCCTCTCCTCCTAGCTGCTATGTAAAGTGGAGTCTCCTGTTTTTTGTT
131 GTCAACAAGCGCCCAGATCCTCTCCTCCTAGCTGCTATGTAAAGTGGAGTCTCCTGTTTTTTGTT
2124234 GGCAGAATACGAAAAATCAGGGTCTAAATGAAACTTTAGAAGAGGGAGCGAAATTAAATTGTATT
196 GGCAGAATACGAAAAATCAGGGTCTAAATGAAACTTTAGAAGAGGGAGCGAAATTAAATTGTATT
2124299 TTTTTATAATAGTAAAAATGAAATTTTATCATTACAAATTTTAGCATTACAAATTTAAATTTTTA
261 TTTTTATAATAGTAAAAATGAAATTTTATCATTACAAATTTTAGCATTACAAATTTAAATTTTTA
2124364 TTATTTTAAGAGAGTGTAATTTTAGCATTACAAATTTAAATTTTTAAAGGCCCTAAATAGAAATT
326 TTATTTTAAGAGAGTGTAATTTTAGCATTACAAATTTAAATTTTTAAAGGCCCTAAATAGAAATT
2124429 TTCCATTTTAAGGGGCTGCCCCTGCCAACCTCCCTGGATTCGCCACTAACCAAAGTAATAGAACT
391 TTCCATTTTAAGGGGCTGCCCCTGCCAACCTCCCTGGATTCGCCACTAACCAAAGTAATAGAACT
2124494 TGTAGACATTGAAGGACTAAAATTTTATTATACCAATTGTTGACACCATTTTTTTTTTTATAAAA
456 TGTAGACATTGAAGGACTAAAATTTTATTATACCAATTGTTGACACCATTTTTTTTTTTATAAAA
2124559 CGGGGTCGACTTGGATTTTAAAAATGAAAACGA
521 CGGGGTCGACTTGGATTTTAAAAATGAAAACGA
2124592 AAA
1 AAA
2124595 CAGGGAGTCG
Statistics
Matches: 553, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
553 553 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (553 bp):
AAAAAATTTTAAAAGAAATTGGAACTAACTCATAAACATACCTGCATCTCCAGCCATAGCTGCTG
CATGCAAAGCTGATCTACCGTGGGGACCGAAATGAGCAGTTGATTTCAATTGATCTAATAATAGA
GTCAACAAGCGCCCAGATCCTCTCCTCCTAGCTGCTATGTAAAGTGGAGTCTCCTGTTTTTTGTT
GGCAGAATACGAAAAATCAGGGTCTAAATGAAACTTTAGAAGAGGGAGCGAAATTAAATTGTATT
TTTTTATAATAGTAAAAATGAAATTTTATCATTACAAATTTTAGCATTACAAATTTAAATTTTTA
TTATTTTAAGAGAGTGTAATTTTAGCATTACAAATTTAAATTTTTAAAGGCCCTAAATAGAAATT
TTCCATTTTAAGGGGCTGCCCCTGCCAACCTCCCTGGATTCGCCACTAACCAAAGTAATAGAACT
TGTAGACATTGAAGGACTAAAATTTTATTATACCAATTGTTGACACCATTTTTTTTTTTATAAAA
CGGGGTCGACTTGGATTTTAAAAATGAAAACGA
Found at i:2134467 original size:20 final size:20
Alignment explanation
Indices: 2134426--2134474 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
2134416 ATATACATAT
*
2134426 ATATAAAT-AGATAAATAAA
1 ATATAAATAACATAAATAAA
* *
2134445 ATATAAATAACATAATTACA
1 ATATAAATAACATAAATAAA
*
2134465 ATATCAATAA
1 ATATAAATAA
2134475 GGCTAGTGCG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (20 bp):
ATATAAATAACATAAATAAA
Found at i:2137175 original size:53 final size:54
Alignment explanation
Indices: 2137105--2137213 Score: 184
Period size: 53 Copynumber: 2.0 Consensus size: 54
2137095 TATTCTTGAG
*
2137105 TTAAATAATACTTTTGAGAGCATTTACTCAAACACTTGGTAT-ACTATTTTTTT
1 TTAAATAATACTTTTGAGAGCATTTACTCAAACACTTGGTATCACTAATTTTTT
*
2137158 TTAAATAATACTTTTGAGAGTATTTACTCAAACACTTGGTATGCACTAATTTTTT
1 TTAAATAATACTTTTGAGAGCATTTACTCAAACACTTGGTAT-CACTAATTTTTT
2137213 T
1 T
2137214 GTGCGTGTGT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
53 41 0.79
55 11 0.21
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (54 bp):
TTAAATAATACTTTTGAGAGCATTTACTCAAACACTTGGTATCACTAATTTTTT
Found at i:2137922 original size:17 final size:17
Alignment explanation
Indices: 2137900--2137932 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2137890 AAAAAATAAT
*
2137900 TTAAAAATTGTAAAAAC
1 TTAAAAATTATAAAAAC
2137917 TTAAAAATTATAAAAA
1 TTAAAAATTATAAAAA
2137933 AAATTCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (17 bp):
TTAAAAATTATAAAAAC
Found at i:2140260 original size:28 final size:28
Alignment explanation
Indices: 2140204--2140260 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
2140194 TTATAAATAT
**
2140204 TTTTATATGAATTTTATAATTTTTATAA
1 TTTTATATGAATTTTATAAAGTTTATAA
*
2140232 TTTTATATGTATTTT-TAAAGTTTACTAA
1 TTTTATATGAATTTTATAAAGTTTA-TAA
2140260 T
1 T
2140261 ATATATACAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (28 bp):
TTTTATATGAATTTTATAAAGTTTATAA
Found at i:2143194 original size:110 final size:111
Alignment explanation
Indices: 2143053--2143274 Score: 428
Period size: 110 Copynumber: 2.0 Consensus size: 111
2143043 TTTAGCTTAA
2143053 TACTTTATTTCATTTAAAAAAAAAAAACAACATTCTACCTACTCTAAGCCTAAAACCTATAGATT
1 TACTTTATTT-ATTTAAAAAAAAAAAACAACATTCTACCTACTCTAAGCCTAAAACCTATAGATT
2143118 TATAGAATTCTATATCACAACATAAACACTTTATAGAGCATAGCAAT
65 TATAGAATTCTATATCACAACATAAACACTTTATAGAGCATAGCAAT
2143165 TACTTTATTT-TTTAAAAAAAAAAAACAACATTCTACCTACTCTAAGCCTAAAACCTATAGATTT
1 TACTTTATTTATTTAAAAAAAAAAAACAACATTCTACCTACTCTAAGCCTAAAACCTATAGATTT
2143229 ATAGAATTCTATATCACAACATAAACACTTTATAGAGCATAGCAAT
66 ATAGAATTCTATATCACAACATAAACACTTTATAGAGCATAGCAAT
2143275 ACCTAAATCA
Statistics
Matches: 110, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
110 100 0.91
112 10 0.09
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (111 bp):
TACTTTATTTATTTAAAAAAAAAAAACAACATTCTACCTACTCTAAGCCTAAAACCTATAGATTT
ATAGAATTCTATATCACAACATAAACACTTTATAGAGCATAGCAAT
Found at i:2150196 original size:18 final size:18
Alignment explanation
Indices: 2150175--2150210 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2150165 AAAGAGAACC
2150175 GAAAGAAAAAACAAAAAA
1 GAAAGAAAAAACAAAAAA
* *
2150193 GAAAGGAAAAAGAAAAAA
1 GAAAGAAAAAACAAAAAA
2150211 TTCAAATCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.81, C:0.03, G:0.17, T:0.00
Consensus pattern (18 bp):
GAAAGAAAAAACAAAAAA
Found at i:2156891 original size:27 final size:27
Alignment explanation
Indices: 2156852--2156954 Score: 179
Period size: 27 Copynumber: 3.8 Consensus size: 27
2156842 TAGTATTGGC
*
2156852 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
2156879 GCCTATCTAGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
2156906 GCCTATCTGGGAGGCTCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
2156933 GCCTATCTGGGAGGCGCCAATG
1 GCCTATCTGGGAGGCGCCAATG
2156955 CTGTGATTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.17, C:0.22, G:0.38, T:0.23
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGGT
Found at i:2157013 original size:21 final size:19
Alignment explanation
Indices: 2156971--2157008 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2156961 TTTTTCCGGG
*
2156971 TTTAGGGTTATGTTATAAA
1 TTTAGGATTATGTTATAAA
2156990 TTTAGGATTATGTTATAAA
1 TTTAGGATTATGTTATAAA
2157009 AATTTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (19 bp):
TTTAGGATTATGTTATAAA
Found at i:2157105 original size:17 final size:16
Alignment explanation
Indices: 2157083--2157132 Score: 59
Period size: 15 Copynumber: 3.1 Consensus size: 16
2157073 GTTATACTAA
2157083 TAAATTTATAACATAAT
1 TAAA-TTATAACATAAT
2157100 TAAATTACTAACA-AAT
1 TAAATTA-TAACATAAT
*
2157116 T-AATTATAAAATAAT
1 TAAATTATAACATAAT
2157131 TA
1 TA
2157133 CAATATTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 4 0.14
15 9 0.31
16 7 0.24
17 9 0.31
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAATTATAACATAAT
Found at i:2157181 original size:47 final size:46
Alignment explanation
Indices: 2157129--2157257 Score: 154
Period size: 49 Copynumber: 2.7 Consensus size: 46
2157119 TTATAAAATA
* *
2157129 ATTACAATATTCATAC-AAAAAATTACAATATTACAATA-TATCCCGAC
1 ATTACAATATTCATACAAAAAAATTACAATATTACAAAATTAT---AAC
* *
2157176 ATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAAAAATTACAATA-T--TACAAAATTATAAC
2157225 ATTACAATATTCATACAAAAAAATTACAATATT
1 ATTACAATATTCATACAAAAAAATTACAATATT
2157258 CATACTAAAT
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
46 1 0.01
47 16 0.22
48 14 0.19
49 32 0.44
51 6 0.08
52 3 0.04
ACGTcount: A:0.52, C:0.15, G:0.02, T:0.32
Consensus pattern (46 bp):
ATTACAATATTCATACAAAAAAATTACAATATTACAAAATTATAAC
Found at i:2157208 original size:22 final size:22
Alignment explanation
Indices: 2157176--2157262 Score: 120
Period size: 22 Copynumber: 3.7 Consensus size: 22
2157166 ATATCCCGAC
2157176 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
*
2157198 ATTGCAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC-AAA--A-AA
2157224 TATTACAATATTCATACAAAAAA
1 -ATTACAATATTCATACAAAAAA
2157247 ATTACAATATTCATAC
1 ATTACAATATTCATAC
2157263 TAAATATAGA
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
22 31 0.53
23 5 0.09
24 1 0.02
25 1 0.02
26 5 0.09
27 15 0.26
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (22 bp):
ATTACAATATTCATACAAAAAA
Found at i:2157341 original size:27 final size:27
Alignment explanation
Indices: 2157303--2157359 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
2157293 ATAACAAAAA
2157303 AATATTGCAATTTTATATGAATATTGT
1 AATATTGCAATTTTATATGAATATTGT
* * *
2157330 AATATTGTAATTTTGTGTGAATATTGT
1 AATATTGCAATTTTATATGAATATTGT
2157357 AAT
1 AAT
2157360 GTCGGGATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (27 bp):
AATATTGCAATTTTATATGAATATTGT
Found at i:2157663 original size:16 final size:15
Alignment explanation
Indices: 2157638--2157682 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
2157628 TGTATTTTTT
2157638 AAAAAATTTATTAAA
1 AAAAAATTTATTAAA
*
2157653 AAAATATTTTATTCAAA
1 AAAA-AATTTATT-AAA
2157670 AAAAAATTTATTA
1 AAAAAATTTATTA
2157683 TTTTTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 5 0.19
16 14 0.54
17 7 0.27
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAAAATTTATTAAA
Found at i:2159229 original size:13 final size:14
Alignment explanation
Indices: 2159202--2159229 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2159192 ATTATTATGC
2159202 TTAAAATTTATTTT
1 TTAAAATTTATTTT
2159216 TTAAAATTTATTTT
1 TTAAAATTTATTTT
2159230 GAAAGATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTAAAATTTATTTT
Found at i:2160079 original size:18 final size:18
Alignment explanation
Indices: 2160056--2160205 Score: 115
Period size: 18 Copynumber: 8.1 Consensus size: 18
2160046 ACGGGAATTT
*
2160056 TTTTTGAAAACACGGAAA
1 TTTTTGAAAACACGAAAA
* * *
2160074 TTTTTGGGAAATACGAGAA
1 TTTTT-GAAAACACGAAAA
* * *
2160093 TCTTAG-AAATACGAAAA
1 TTTTTGAAAACACGAAAA
2160110 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
2160128 TCTTT-AAAACACGAGAA
1 TTTTTGAAAACACGAAAA
**
2160145 TTTTTTTAAACACGAAAATTA
1 TTTTTGAAAACACG-AAA--A
2160166 TTTTTTTTGAAAACACGAAAA
1 ---TTTTTGAAAACACGAAAA
*
2160187 TTGTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
2160205 T
1 T
2160206 ATTGATAAAT
Statistics
Matches: 105, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
17 29 0.28
18 45 0.43
19 14 0.13
21 2 0.02
23 3 0.03
24 12 0.11
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:2160084 original size:20 final size:21
Alignment explanation
Indices: 2160042--2160084 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
2160032 GATCCGATTG
* **
2160042 AAACACGGGAATTTTTTTTGA
1 AAACACGGGAAATTTTTGGGA
2160063 AAACAC-GGAAATTTTTGGGA
1 AAACACGGGAAATTTTTGGGA
2160083 AA
1 AA
2160085 TACGAGAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (21 bp):
AAACACGGGAAATTTTTGGGA
Found at i:2160147 original size:35 final size:34
Alignment explanation
Indices: 2160062--2160163 Score: 98
Period size: 35 Copynumber: 2.9 Consensus size: 34
2160052 ATTTTTTTTG
* * *
2160062 AAAACACG-GAAATTTTTGGGAAATACGAGAATCTT
1 AAAACACGAG-AATTTTT-GAAAACACGAAAATCTT
* *
2160097 AGAAATACGAAAATTTTTGAAAACACGAAAATCTTT
1 A-AAACACGAGAATTTTTGAAAACACGAAAATC-TT
**
2160133 AAAACACGAGAATTTTTTTAAACACGAAAAT
1 AAAACACGAGAATTTTTGAAAACACGAAAAT
2160164 TATTTTTTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
35 39 0.71
36 16 0.29
ACGTcount: A:0.48, C:0.12, G:0.14, T:0.26
Consensus pattern (34 bp):
AAAACACGAGAATTTTTGAAAACACGAAAATCTT
Found at i:2160179 original size:24 final size:22
Alignment explanation
Indices: 2160145--2160188 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
2160135 AACACGAGAA
2160145 TTTTTTTAAACACGAAAATTAT
1 TTTTTTTAAACACGAAAATTAT
2160167 TTTTTTTGAAAACACGAAAATT
1 TTTTTTT--AAACACGAAAATT
2160189 GTTGAAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
24 13 0.65
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (22 bp):
TTTTTTTAAACACGAAAATTAT
Found at i:2160667 original size:13 final size:13
Alignment explanation
Indices: 2160644--2160694 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
2160634 ACGACTCGGG
*
2160644 CTTTTTCTTTTTTT
1 CTTTTT-TTTTTCT
2160658 CTTTTTTTTTTCT
1 CTTTTTTTTTTCT
* *
2160671 CTCTCTTTTTTCT
1 CTTTTTTTTTTCT
*
2160684 CTTCTTTTTTT
1 CTTTTTTTTTT
2160695 GGCCTGCTGC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
13 25 0.81
14 6 0.19
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
CTTTTTTTTTTCT
Found at i:2160799 original size:24 final size:24
Alignment explanation
Indices: 2160758--2160803 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2160748 TGCTGGGTTG
***
2160758 GCCTGCTGCTGTGCTGGGCCTGGA
1 GCCTGCTGCTGAAATGGGCCTGGA
2160782 GCCTGCTGCTGAAATGGGCCTG
1 GCCTGCTGCTGAAATGGGCCTG
2160804 CACTTGCTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.09, C:0.28, G:0.39, T:0.24
Consensus pattern (24 bp):
GCCTGCTGCTGAAATGGGCCTGGA
Found at i:2160849 original size:16 final size:16
Alignment explanation
Indices: 2160828--2160876 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
2160818 CCTGCTTCTA
2160828 TTTTTCTGCTTTGTTT
1 TTTTTCTGCTTTGTTT
* *
2160844 TTTTTCTTC-TTCTTT
1 TTTTTCTGCTTTGTTT
* *
2160859 TTTTGCTGTTTTGTTT
1 TTTTTCTGCTTTGTTT
2160875 TT
1 TT
2160877 CTGGGGGGCC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.00, C:0.12, G:0.10, T:0.78
Consensus pattern (16 bp):
TTTTTCTGCTTTGTTT
Found at i:2160997 original size:9 final size:9
Alignment explanation
Indices: 2160985--2161026 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
2160975 AAAATTTTAA
2160985 TCTTTTTTC
1 TCTTTTTTC
2160994 TCTTTTTTC
1 TCTTTTTTC
*
2161003 T-TTTTTTT
1 TCTTTTTTC
2161011 TCTTCTTTT-
1 TCTT-TTTTC
2161020 TCTTTTT
1 TCTTTTT
2161027 CTTGGAAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 10 0.33
9 16 0.53
10 4 0.13
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TCTTTTTTC
Found at i:2161009 original size:19 final size:19
Alignment explanation
Indices: 2160987--2161026 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
2160977 AATTTTAATC
2160987 TTTTTTC-TCTTTTTTCTTT
1 TTTTTTCTTC-TTTTTCTTT
2161006 TTTTTTCTTCTTTTTCTTT
1 TTTTTTCTTCTTTTTCTTT
2161025 TT
1 TT
2161027 CTTGGAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTTCTTCTTTTTCTTT
Found at i:2161404 original size:30 final size:31
Alignment explanation
Indices: 2161369--2161520 Score: 165
Period size: 30 Copynumber: 5.1 Consensus size: 31
2161359 TGTCGAAACA
* * *
2161369 TAATTTTGAGACAATTTTA-AGGTCAAAATG
1 TAATTTTGAAAAAAGTTTAGAGGTCAAAATG
* *
2161399 TAATTTTG-AGAAACTTTA-AGGGTCAAAATG
1 TAATTTTGAAAAAAGTTTAGA-GGTCAAAATG
* *
2161429 TAA-TTT-AAAAAAGTTTAGGGGTTAAAATG
1 TAATTTTGAAAAAAGTTTAGAGGTCAAAATG
* *
2161458 TAATTTTG-AAAAATTTTAGAGGTCAAAATA
1 TAATTTTGAAAAAAGTTTAGAGGTCAAAATG
2161488 TAATTTT-AAAAAAGTTTAGAGGTCAAAATG
1 TAATTTTGAAAAAAGTTTAGAGGTCAAAATG
2161518 TAA
1 TAA
2161521 AAAAAATTTA
Statistics
Matches: 102, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
29 30 0.29
30 72 0.71
ACGTcount: A:0.44, C:0.04, G:0.17, T:0.35
Consensus pattern (31 bp):
TAATTTTGAAAAAAGTTTAGAGGTCAAAATG
Found at i:2161463 original size:59 final size:60
Alignment explanation
Indices: 2161384--2161520 Score: 199
Period size: 59 Copynumber: 2.3 Consensus size: 60
2161374 TTGAGACAAT
* *
2161384 TTTA-AGGTCAAAATGTAATTTTGAGAAACTTTAAG-GGTCAAAATGTAA-TTTAAAAAAG
1 TTTAGAGGTCAAAATGTAATTTTGA-AAAATTTAAGAGGTCAAAATATAATTTTAAAAAAG
* * *
2161442 TTTAGGGGTTAAAATGTAATTTTGAAAAATTTTAGAGGTCAAAATATAATTTTAAAAAAG
1 TTTAGAGGTCAAAATGTAATTTTGAAAAATTTAAGAGGTCAAAATATAATTTTAAAAAAG
2161502 TTTAGAGGTCAAAATGTAA
1 TTTAGAGGTCAAAATGTAA
2161521 AAAAAATTTA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
58 12 0.17
59 30 0.43
60 27 0.39
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.34
Consensus pattern (60 bp):
TTTAGAGGTCAAAATGTAATTTTGAAAAATTTAAGAGGTCAAAATATAATTTTAAAAAAG
Found at i:2168871 original size:15 final size:14
Alignment explanation
Indices: 2168851--2168880 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2168841 TCACATATCG
2168851 AGTTTATGTTTTTTT
1 AGTTTAT-TTTTTTT
2168866 AGTTTATTTTTTTT
1 AGTTTATTTTTTTT
2168880 A
1 A
2168881 ATGTTTCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (14 bp):
AGTTTATTTTTTTT
Found at i:2171522 original size:20 final size:22
Alignment explanation
Indices: 2171474--2171528 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 22
2171464 TTTTTCTGCA
2171474 AATTTAATTATAAAAATATATATT
1 AATTTAA--ATAAAAATATATATT
*
2171498 AATTTTAATAAAAATAT-T-TT
1 AATTTAAATAAAAATATATATT
*
2171518 TATTTAAATAA
1 AATTTAAATAA
2171529 TCAAATGAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 11 0.39
21 1 0.04
22 10 0.36
24 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AATTTAAATAAAAATATATATT
Found at i:2185240 original size:16 final size:17
Alignment explanation
Indices: 2185221--2185255 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
2185211 AAAACCCTTT
2185221 TTATAAATATTAT-ATA
1 TTATAAATATTATAATA
*
2185237 TTATAAATTTTATAATA
1 TTATAAATATTATAATA
2185254 TT
1 TT
2185256 TTTTACTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTATAAATATTATAATA
Found at i:2185393 original size:86 final size:86
Alignment explanation
Indices: 2185244--2185498 Score: 487
Period size: 86 Copynumber: 3.0 Consensus size: 86
2185234 ATATTATAAA
*
2185244 TTTTATAATATTTTTTACTTAATTTACATATT--AAAAAAAAGATTATCACCTAGCATAAGTCTT
1 TTTTATAATATATTTTACTTAATTTACATATTAAAAAAAAAAGATTATCACCTAGCATAAGTCTT
2185307 TCTTCAAATTAAATCTATATT
66 TCTTCAAATTAAATCTATATT
2185328 TTTTATAATATATTTTACTTAATTTACATATTAAAAAAAAAAGATTATCACCTAGCATAAGTCTT
1 TTTTATAATATATTTTACTTAATTTACATATTAAAAAAAAAAGATTATCACCTAGCATAAGTCTT
2185393 TCTTCAAATTAAATCTATATT
66 TCTTCAAATTAAATCTATATT
2185414 TTTTATAATATATTTTACTTAATTTACATATTAAAAAAAAAAGATTATCACCTAGCATAAGTCTT
1 TTTTATAATATATTTTACTTAATTTACATATTAAAAAAAAAAGATTATCACCTAGCATAAGTCTT
2185479 TCTTCAAATTAAATCTATAT
66 TCTTCAAATTAAATCTATAT
2185499 AATTTTTTTA
Statistics
Matches: 168, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
84 31 0.18
86 137 0.82
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.44
Consensus pattern (86 bp):
TTTTATAATATATTTTACTTAATTTACATATTAAAAAAAAAAGATTATCACCTAGCATAAGTCTT
TCTTCAAATTAAATCTATATT
Found at i:2192479 original size:21 final size:21
Alignment explanation
Indices: 2192439--2192497 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
2192429 GTGTGTCGAA
* *
2192439 ATAAAT-TTATTTTTATAATT
1 ATAAATATTATTTATAAAATT
*
2192459 ATAATTATTATTTATAAAATT
1 ATAAATATTATTTATAAAATT
* *
2192480 TTAAATA-TATATATAAAA
1 ATAAATATTATTTATAAAA
2192498 GGATTTCCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAAATATTATTTATAAAATT
Found at i:2193212 original size:49 final size:49
Alignment explanation
Indices: 2193140--2193299 Score: 320
Period size: 49 Copynumber: 3.3 Consensus size: 49
2193130 TCAACTTTAG
2193140 AAAATTAATCTAAATTCGATTAAATAGATGATATGATAGGTCTAACTCT
1 AAAATTAATCTAAATTCGATTAAATAGATGATATGATAGGTCTAACTCT
2193189 AAAATTAATCTAAATTCGATTAAATAGATGATATGATAGGTCTAACTCT
1 AAAATTAATCTAAATTCGATTAAATAGATGATATGATAGGTCTAACTCT
2193238 AAAATTAATCTAAATTCGATTAAATAGATGATATGATAGGTCTAACTCT
1 AAAATTAATCTAAATTCGATTAAATAGATGATATGATAGGTCTAACTCT
2193287 AAAATTAATCTAA
1 AAAATTAATCTAA
2193300 GTAGGGCCAA
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 111 1.00
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.34
Consensus pattern (49 bp):
AAAATTAATCTAAATTCGATTAAATAGATGATATGATAGGTCTAACTCT
Found at i:2193683 original size:15 final size:15
Alignment explanation
Indices: 2193655--2193697 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
2193645 TCTAAAATTG
*
2193655 AAATTTTATTATTTTA
1 AAATTTTA-AATTTTA
**
2193671 ATTTTTTAAATTTTA
1 AAATTTTAAATTTTA
2193686 AAATTTTAAATT
1 AAATTTTAAATT
2193698 AATAAAAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AAATTTTAAATTTTA
Found at i:2195969 original size:22 final size:21
Alignment explanation
Indices: 2195938--2195984 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
2195928 CGAATAGAAT
*
2195938 TAAATTATAATTA-TAATTTTA
1 TAAATTATAAATATTAA-TTTA
2195959 TAAATATATAAATATTAATTTA
1 TAAAT-TATAAATATTAATTTA
2195981 TAAA
1 TAAA
2195985 AAAATTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 15 0.65
23 3 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TAAATTATAAATATTAATTTA
Found at i:2196892 original size:30 final size:32
Alignment explanation
Indices: 2196841--2196903 Score: 94
Period size: 30 Copynumber: 2.0 Consensus size: 32
2196831 CTTCAGGTTT
2196841 TTTAAAAGTTTGAGAAAAAAAAATTTAGGCCC
1 TTTAAAAGTTTGAGAAAAAAAAATTTAGGCCC
* *
2196873 TTTAAAAG-TTG-GTAAAAAAAATTTGGGCCC
1 TTTAAAAGTTTGAGAAAAAAAAATTTAGGCCC
2196903 T
1 T
2196904 CAAAAGCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 18 0.62
31 3 0.10
32 8 0.28
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (32 bp):
TTTAAAAGTTTGAGAAAAAAAAATTTAGGCCC
Found at i:2197260 original size:11 final size:11
Alignment explanation
Indices: 2197246--2197271 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2197236 AAAAATAAAA
2197246 AAAAGTATTTT
1 AAAAGTATTTT
2197257 AAAAGTATTTT
1 AAAAGTATTTT
2197268 AAAA
1 AAAA
2197272 ATAAAAAATA
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:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:2200598 original size:27 final size:31
Alignment explanation
Indices: 2200538--2200593 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
2200528 ATTTAATATT
2200538 AATATGAAATTTGTTATTATATATTCTTAAA
1 AATATGAAATTTGTTATTATATATTCTTAAA
*
2200569 AATATGTAATTT-TTA-TATAT-TTCTT
1 AATATGAAATTTGTTATTATATATTCTT
2200594 TAAATTTCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 5 0.21
29 5 0.21
30 3 0.12
31 11 0.46
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.54
Consensus pattern (31 bp):
AATATGAAATTTGTTATTATATATTCTTAAA
Found at i:2201676 original size:87 final size:88
Alignment explanation
Indices: 2201573--2201749 Score: 347
Period size: 87 Copynumber: 2.0 Consensus size: 88
2201563 AAAGTAAAAT
2201573 AATTAAAAGATAATATTAAAAAAATAAAATAAAAAGAATTGAAAAAAATTCACATTAAGTGATAA
1 AATTAAAAGATAATATTAAAAAAATAAAATAAAAAGAATTGAAAAAAATTCACATTAAGTGATAA
2201638 GTAATTTTCCACACTTTTTGAAA
66 GTAATTTTCCACACTTTTTGAAA
2201661 AATTAAAAGAT-ATATTAAAAAAATAAAATAAAAAGAATTGAAAAAAATTCACATTAAGTGATAA
1 AATTAAAAGATAATATTAAAAAAATAAAATAAAAAGAATTGAAAAAAATTCACATTAAGTGATAA
2201725 GTAATTTTCCACACTTTTTGAAA
66 GTAATTTTCCACACTTTTTGAAA
2201748 AA
1 AA
2201750 AATCTATAAA
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
87 78 0.88
88 11 0.12
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (88 bp):
AATTAAAAGATAATATTAAAAAAATAAAATAAAAAGAATTGAAAAAAATTCACATTAAGTGATAA
GTAATTTTCCACACTTTTTGAAA
Found at i:2201695 original size:26 final size:24
Alignment explanation
Indices: 2201659--2201708 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
2201649 CACTTTTTGA
* *
2201659 AAAATTAAAAGATATATTAAAAAAAT
1 AAAATAAAAAGA-AT-TGAAAAAAAT
2201685 AAAATAAAAAGAATTGAAAAAAAT
1 AAAATAAAAAGAATTGAAAAAAAT
2201709 TCACATTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 9 0.41
25 2 0.09
26 11 0.50
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (24 bp):
AAAATAAAAAGAATTGAAAAAAAT
Found at i:2203263 original size:31 final size:30
Alignment explanation
Indices: 2203227--2203361 Score: 103
Period size: 31 Copynumber: 4.3 Consensus size: 30
2203217 AAAAGATTAT
*
2203227 GTACCAAATTAAGAAAAAGAGTCAAGTTCAG
1 GTACCAAATTAAGAAAAA-AGTCAAGTTCAA
* *
2203258 GTACCAAATT-GGATCCTCAAAAAGT-AAGTTTAA
1 GTACCAAATTAAGA-----AAAAAGTCAAGTTCAA
* * * *
2203291 GTACCAATTTAAGAAAAAGTGTCAAATTTAA
1 GTACCAAATTAAGAAAAA-AGTCAAGTTCAA
* *
2203322 GTACCAATTTAAGAAAAAATATCAAGTTCAA
1 GTACCAAATTAAGAAAAAA-GTCAAGTTCAA
2203353 GTACCAAAT
1 GTACCAAAT
2203362 GTTATATTAA
Statistics
Matches: 83, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
29 4 0.05
30 4 0.05
31 51 0.61
33 15 0.18
34 5 0.06
35 4 0.05
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.25
Consensus pattern (30 bp):
GTACCAAATTAAGAAAAAAGTCAAGTTCAA
Done.