Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 30 of 318
Found at i:8103699 original size:24 final size:27
Alignment explanation
Indices: 8103641--8103699 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 27
8103631 AAAAGTAGCT
*
8103641 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTAT-ATACCCCTATGTATGCA
*
8103669 AAATTACTAT-TACCCCTA-G-GTGCA
1 AAATTACTATATACCCCTATGTATGCA
8103693 AAATTAC
1 AAATTAC
8103700 CGTTATACCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 10 0.34
25 1 0.03
26 8 0.28
28 10 0.34
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACTATATACCCCTATGTATGCA
Found at i:8103857 original size:27 final size:26
Alignment explanation
Indices: 8103817--8103928 Score: 147
Period size: 27 Copynumber: 4.2 Consensus size: 26
8103807 AGGAAGCGTC
8103817 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* *
8103844 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
8103871 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
*
8103898 CTGGTGGCTCTG-CACA-TATCTGTAT
1 CTGGTGGCTATGCCACATTATCTG-AT
8103923 CTGGTG
1 CTGGTG
8103929 ACTTCTCACA
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
24 6 0.08
25 9 0.12
26 5 0.06
27 55 0.71
28 2 0.03
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGAT
Found at i:8103899 original size:54 final size:52
Alignment explanation
Indices: 8103817--8103928 Score: 181
Period size: 54 Copynumber: 2.1 Consensus size: 52
8103807 AGGAAGCGTC
8103817 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTG-CAC--ATATCTGTAT
*
8103871 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCACATATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCACATATCTGTAT
8103923 CTGGTG
1 CTGGTG
8103929 ACTTCTCACA
Statistics
Matches: 56, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
51 8 0.14
52 7 0.12
53 3 0.05
54 38 0.68
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (52 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCACATATCTGTAT
Found at i:8103938 original size:25 final size:25
Alignment explanation
Indices: 8103830--8103945 Score: 101
Period size: 27 Copynumber: 4.4 Consensus size: 25
8103820 GTGGCTATGC
*
8103830 CACAATTATCTGATCTGGTGGCTCTG
1 CACAA-TATCTGATCTGGTGACTCTG
* * *
8103856 CCACATATATCTGTTCTGGTGGCTATG
1 -CACA-ATATCTGATCTGGTGACTCTG
* *
8103883 CCACGATTATCTGATCTGGTGGCTCTG
1 -CAC-AATATCTGATCTGGTGACTCTG
8103910 CAC-ATATCTGTATCTGGTGACTTCT-
1 CACAATATCTG-ATCTGGTGAC-TCTG
8103935 CACAATATCTG
1 CACAATATCTG
8103946 GCAGCCTCGC
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
24 6 0.08
25 12 0.16
26 13 0.17
27 44 0.57
28 2 0.03
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (25 bp):
CACAATATCTGATCTGGTGACTCTG
Found at i:8109194 original size:26 final size:26
Alignment explanation
Indices: 8109165--8109272 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
8109155 TGGTACAAAT
8109165 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
8109191 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
8109217 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
8109243 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
8109269 TGAT
1 TGAT
8109273 GGCATTTCAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:8110925 original size:27 final size:27
Alignment explanation
Indices: 8110885--8110998 Score: 160
Period size: 27 Copynumber: 4.2 Consensus size: 27
8110875 AGGAAGCGTC
8110885 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
8110912 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
*
8110939 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
*
8110966 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
8110993 CTGGTG
1 CTGGTG
8110999 ACTTCGTCAC
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
26 8 0.10
27 68 0.87
28 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:8110967 original size:54 final size:54
Alignment explanation
Indices: 8110885--8110998 Score: 203
Period size: 54 Copynumber: 2.1 Consensus size: 54
8110875 AGGAAGCGTC
8110885 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACA-ATATCTGTAT
*
8110939 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACAATATCTGTAT
8110993 CTGGTG
1 CTGGTG
8110999 ACTTCGTCAC
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
53 8 0.14
54 50 0.86
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.34
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACAATATCTGTAT
Found at i:8111009 original size:27 final size:26
Alignment explanation
Indices: 8110885--8111016 Score: 158
Period size: 27 Copynumber: 4.9 Consensus size: 26
8110875 AGGAAGCGTC
*
8110885 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAA-TATCTGAT
*
8110912 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
* *
8110939 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-AATATCTGAT
8110966 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTG-AT
* *
8110993 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
8111017 GCAGCCTCGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
26 8 0.09
27 82 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:8117573 original size:20 final size:20
Alignment explanation
Indices: 8117541--8117578 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8117531 TGTTTCACAT
8117541 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
8117561 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
8117579 ACTTAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:8118087 original size:18 final size:18
Alignment explanation
Indices: 8118064--8118104 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
8118054 TACTTTTCTC
8118064 TTTCTA-TCACAATTCCAA
1 TTTCTATTCACAATT-CAA
*
8118082 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
8118100 TTTCT
1 TTTCT
8118105 CTTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:8118278 original size:39 final size:40
Alignment explanation
Indices: 8118235--8118344 Score: 100
Period size: 38 Copynumber: 2.8 Consensus size: 40
8118225 GGATAGTTCG
*
8118235 AAGTAATAGTTGACACCCAGTGTCTCATCG-GCCTAGCCA
1 AAGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGCCA
** ** * * *
8118274 AAGTAAT-GTTGGTACCCAGTACCTCATCGAATCTATCCG
1 AAGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGCCA
*
8118313 AAGAAATTTAG-TGACACCCAGTGTCTCATCGA
1 AAGTAA--TAGTTGACACCCAGTGTCTCATCGA
8118345 CTCGGGGTCG
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.33
39 17 0.31
41 18 0.33
42 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (40 bp):
AAGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGCCA
Found at i:8119261 original size:12 final size:12
Alignment explanation
Indices: 8119246--8119276 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
8119236 TTCTCTTTTA
8119246 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
8119258 TTTTTCTTTCTC
1 TTTTTCTTTCCC
8119270 TTTTTCT
1 TTTTTCT
8119277 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:8121705 original size:263 final size:263
Alignment explanation
Indices: 8121238--8121767 Score: 1051
Period size: 263 Copynumber: 2.0 Consensus size: 263
8121228 CTAAAACACA
8121238 GGCGTAGTGAAATATTTCCAAGTACATCAAAATTCACTCATATGGGATGTCAGAAAAATCGTTGA
1 GGCGTAGTGAAATATTTCCAAGTACATCAAAATTCACTCATATGGGATGTCAGAAAAATCGTTGA
8121303 CTTTGGGTTATATTTTAGGCAAACCTTATTCTCTTTGGATTATATTTTAGATAAACTGAGAGTAT
66 CTTTGGGTTATATTTTAGGCAAACCTTATTCTCTTTGGATTATATTTTAGATAAACTGAGAGTAT
8121368 TTCTACTTTGTTTATTCAATTGGATTTAACTATTAACTTATTTAAAAATTTGATTTTTTTTTATG
131 TTCTACTTTGTTTATTCAATTGGATTTAACTATTAACTTATTTAAAAATTTGATTTTTTTTTATG
8121433 AATTACAAGAGGAGGGAAAGTCCTAATAGTAATGCGACTAGTGCGAATCGAATGCATGCCACACC
196 AATTACAAGAGGAGGGAAAGTCCTAATAGTAATGCGACTAGTGCGAATCGAATGCATGCCACACC
8121498 TAG
261 TAG
8121501 GGCGTAGTGAAATATTTCCAAGTACATCAAAATTCACTCATATGGGATGTCAGAAAAATCGTTGA
1 GGCGTAGTGAAATATTTCCAAGTACATCAAAATTCACTCATATGGGATGTCAGAAAAATCGTTGA
8121566 CTTTGGGTTATATTTTAGGCAAACCTTATTCTCTTTGGATTATATTTTAGATAAACTGAGAGTAT
66 CTTTGGGTTATATTTTAGGCAAACCTTATTCTCTTTGGATTATATTTTAGATAAACTGAGAGTAT
*
8121631 TTCTACTTTGTTTATTCAATTGGATTTAATTATTAACTTATTTAAAAATTTGATTTTTTTTTATG
131 TTCTACTTTGTTTATTCAATTGGATTTAACTATTAACTTATTTAAAAATTTGATTTTTTTTTATG
8121696 AATTACAAGAGGAGGGAAAGTCCTAATAGTAATGCGACTAGTGCGAATCGAATGCATGCCACACC
196 AATTACAAGAGGAGGGAAAGTCCTAATAGTAATGCGACTAGTGCGAATCGAATGCATGCCACACC
8121761 TAG
261 TAG
8121764 GGCG
1 GGCG
8121768 ATGAACACCT
Statistics
Matches: 266, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
263 266 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (263 bp):
GGCGTAGTGAAATATTTCCAAGTACATCAAAATTCACTCATATGGGATGTCAGAAAAATCGTTGA
CTTTGGGTTATATTTTAGGCAAACCTTATTCTCTTTGGATTATATTTTAGATAAACTGAGAGTAT
TTCTACTTTGTTTATTCAATTGGATTTAACTATTAACTTATTTAAAAATTTGATTTTTTTTTATG
AATTACAAGAGGAGGGAAAGTCCTAATAGTAATGCGACTAGTGCGAATCGAATGCATGCCACACC
TAG
Found at i:8122944 original size:32 final size:31
Alignment explanation
Indices: 8122893--8122981 Score: 151
Period size: 32 Copynumber: 2.8 Consensus size: 31
8122883 TAAGACAATG
8122893 CATTAACTATTTTTTTTTCTTTCTTACACAC
1 CATTAACTATTTTTTTTTCTTTCTTACACAC
* *
8122924 CATTAACTATTTTTTCTTTCTTTCTTACGCAG
1 CATTAACTATTTTTT-TTTCTTTCTTACACAC
8122956 CATTAACTATTTTTTTTTCTTTCTTA
1 CATTAACTATTTTTTTTTCTTTCTTA
8122982 TGTAGCCCTT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
31 26 0.47
32 29 0.53
ACGTcount: A:0.20, C:0.20, G:0.02, T:0.57
Consensus pattern (31 bp):
CATTAACTATTTTTTTTTCTTTCTTACACAC
Found at i:8128047 original size:47 final size:47
Alignment explanation
Indices: 8127978--8128071 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
8127968 GTTAATAAAG
*
8127978 TTTTAAGTATGATTTTCTTGCCATAAATAACAAAAACAACAAAAACA
1 TTTTAAATATGATTTTCTTGCCATAAATAACAAAAACAACAAAAACA
8128025 TTTTAAATATGATTTTCTTGCCATAAATAACAAAAACAACAAAAACA
1 TTTTAAATATGATTTTCTTGCCATAAATAACAAAAACAACAAAAACA
8128072 AAGTTTTAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.30
Consensus pattern (47 bp):
TTTTAAATATGATTTTCTTGCCATAAATAACAAAAACAACAAAAACA
Found at i:8130255 original size:30 final size:30
Alignment explanation
Indices: 8130211--8130282 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
8130201 GTTTTAGAAT
*
8130211 CTTTAC-AATTTAATCCCTATAATTTCAAA
1 CTTTACTATTTTAATCCCTATAATTTCAAA
8130240 CTTTACTATTTTAATCCCTATAATTTCAAA
1 CTTTACTATTTTAATCCCTATAATTTCAAA
8130270 CTTTACTATTTTA
1 CTTTACTATTTTA
8130283 CGCTCAACCT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 6 0.15
30 35 0.85
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.47
Consensus pattern (30 bp):
CTTTACTATTTTAATCCCTATAATTTCAAA
Found at i:8134907 original size:13 final size:13
Alignment explanation
Indices: 8134889--8134915 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8134879 GGAGTAATCG
8134889 CACACGGGCGTGT
1 CACACGGGCGTGT
8134902 CACACGGGCGTGT
1 CACACGGGCGTGT
8134915 C
1 C
8134916 CCTACCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:8137255 original size:47 final size:47
Alignment explanation
Indices: 8137146--8137256 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
8137136 CCGGGATAAG
*
8137146 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * * *
8137193 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
8137240 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
8137257 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:8138715 original size:23 final size:22
Alignment explanation
Indices: 8138671--8138715 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
8138661 TAATAATAAA
* **
8138671 TTAATATTTTAAATAATTTTAT
1 TTAATATTTAAAATAAAATTAT
8138693 TTAATTATTTAAAATAAAATTAT
1 TTAA-TATTTAAAATAAAATTAT
8138716 GCTAATTTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAATATTTAAAATAAAATTAT
Found at i:8145182 original size:6 final size:6
Alignment explanation
Indices: 8145171--8145195 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8145161 TGATTTTCTG
8145171 CTTCCC CTTCCC CTTCCC CTTCCC C
1 CTTCCC CTTCCC CTTCCC CTTCCC C
8145196 CATCCTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
CTTCCC
Found at i:8149068 original size:19 final size:20
Alignment explanation
Indices: 8149044--8149085 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
8149034 CAAACACCAA
8149044 AAAAGTAAATCA-TTTCCAG
1 AAAAGTAAATCATTTTCCAG
8149063 AAAAGTAAATCATTTTCCAG
1 AAAAGTAAATCATTTTCCAG
8149083 AAA
1 AAA
8149086 TCATTTTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (20 bp):
AAAAGTAAATCATTTTCCAG
Found at i:8149088 original size:14 final size:14
Alignment explanation
Indices: 8149069--8149106 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
8149059 CCAGAAAAGT
8149069 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
8149083 AAATCATTTTCTAG
1 AAATCATTTTCCAG
*
8149097 AAAACATTTT
1 AAATCATTTT
8149107 ACTGGAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:8149116 original size:15 final size:14
Alignment explanation
Indices: 8149073--8149117 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
8149063 AAAAGTAAAT
* *
8149073 CATTTTCCAGAAAT
1 CATTTTCTAGAAAA
8149087 CATTTTCTAGAAAA
1 CATTTTCTAGAAAA
*
8149101 CATTTTACTGGAAAA
1 CATTTT-CTAGAAAA
8149116 CA
1 CA
8149118 AACGGAGCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 18 0.67
15 9 0.33
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (14 bp):
CATTTTCTAGAAAA
Found at i:8150447 original size:21 final size:21
Alignment explanation
Indices: 8150423--8150489 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
8150413 TGAGGGTCTC
8150423 ACACACCCATGTGTCAACTAG
1 ACACACCCATGTGTCAACTAG
* * *
8150444 ACACGA-CTATGTGTTC--CGAA
1 ACAC-ACCCATGTG-TCAACTAG
*
8150464 ACGCACACCATGTGTCAACTAG
1 ACACAC-CCATGTGTCAACTAG
8150486 ACAC
1 ACAC
8150490 GACTGTGTGT
Statistics
Matches: 32, Mismatches: 8, Indels: 11
0.63 0.16 0.22
Matches are distributed among these distances:
19 1 0.03
20 7 0.22
21 16 0.50
22 8 0.25
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.19
Consensus pattern (21 bp):
ACACACCCATGTGTCAACTAG
Found at i:8150475 original size:42 final size:43
Alignment explanation
Indices: 8150422--8150520 Score: 173
Period size: 42 Copynumber: 2.3 Consensus size: 43
8150412 GTGAGGGTCT
8150422 CACACACCCATGTGTCAACTAGACACGACTATGTGTTCCGAAA
1 CACACACCCATGTGTCAACTAGACACGACTATGTGTTCCGAAA
* *
8150465 CGCACA-CCATGTGTCAACTAGACACGACTGTGTGTTCCGAAA
1 CACACACCCATGTGTCAACTAGACACGACTATGTGTTCCGAAA
8150507 CACACACCCATGTG
1 CACACACCCATGTG
8150521 AGATCCCTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
42 40 0.77
43 12 0.23
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.20
Consensus pattern (43 bp):
CACACACCCATGTGTCAACTAGACACGACTATGTGTTCCGAAA
Found at i:8160360 original size:75 final size:75
Alignment explanation
Indices: 8160237--8160389 Score: 243
Period size: 75 Copynumber: 2.0 Consensus size: 75
8160227 GTCGCATGTT
** * *
8160237 GTGTGCTAAGCTGTGTAACTCACTGACTTAAAACACCTAGAAATTTCAAATGAGACACGGCCATG
1 GTGTGCTAAGCCATGTAACTCACTGACTTAAAACACCTAGAAATTTCAAATGACACAAGGCCATG
8160302 TAGCCAAGCC
66 TAGCCAAGCC
* **
8160312 GTGTGCTAAGCCATGTAACTCACTGACTTAAAACACTTAGAAATTTCAAATGACACAAGGCTGTG
1 GTGTGCTAAGCCATGTAACTCACTGACTTAAAACACCTAGAAATTTCAAATGACACAAGGCCATG
8160377 TAGCCAAGCC
66 TAGCCAAGCC
8160387 GTG
1 GTG
8160390 CGTGTCACAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (75 bp):
GTGTGCTAAGCCATGTAACTCACTGACTTAAAACACCTAGAAATTTCAAATGACACAAGGCCATG
TAGCCAAGCC
Found at i:8161281 original size:21 final size:21
Alignment explanation
Indices: 8161255--8161297 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
8161245 AATCATGAAA
*
8161255 CATTCCATTTCCTTTACTTAC
1 CATTCCATTTCATTTACTTAC
8161276 CATTCCATTTCATTTACTTAC
1 CATTCCATTTCATTTACTTAC
8161297 C
1 C
8161298 CATTGAACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.33, G:0.00, T:0.47
Consensus pattern (21 bp):
CATTCCATTTCATTTACTTAC
Found at i:8163712 original size:43 final size:43
Alignment explanation
Indices: 8163555--8163713 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 43
8163545 GGTTACCAAG
* * * *
8163555 ATGTGATTACATGTAAGACCATGTCTGGAACTTTGGCATTG-T
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGAT
** * * *
8163597 ATTGTGATTACGCGTAATACCATGTCTAGGACATTGGCATC-ATT
1 A-TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGA-T
* * *
8163641 ATTTGATTTCATGTAAGA-CACTATCTGGGACAGTGGCATCGAT
1 ATGTGATTACATGTAAGACCA-TATCTGGGACATTGGCATCGAT
* *
8163684 ATGTGATAACCTGTAAGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATATCTGGGA
8163714 TATGGCACTG
Statistics
Matches: 92, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
42 3 0.03
43 84 0.91
44 5 0.05
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGAT
Found at i:8166759 original size:68 final size:68
Alignment explanation
Indices: 8166681--8166813 Score: 266
Period size: 68 Copynumber: 2.0 Consensus size: 68
8166671 TACGGAGTTT
8166681 CGTGAATTTATTCGTAACAATATAAACATGAGTTTAATAATTCTAAGTTAAGAAATGTAATTAAT
1 CGTGAATTTATTCGTAACAATATAAACATGAGTTTAATAATTCTAAGTTAAGAAATGTAATTAAT
8166746 TTC
66 TTC
8166749 CGTGAATTTATTCGTAACAATATAAACATGAGTTTAATAATTCTAAGTTAAGAAATGTAATTAAT
1 CGTGAATTTATTCGTAACAATATAAACATGAGTTTAATAATTCTAAGTTAAGAAATGTAATTAAT
8166814 CTAACAAATT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (68 bp):
CGTGAATTTATTCGTAACAATATAAACATGAGTTTAATAATTCTAAGTTAAGAAATGTAATTAAT
TTC
Found at i:8172117 original size:43 final size:43
Alignment explanation
Indices: 8172008--8172142 Score: 150
Period size: 43 Copynumber: 3.1 Consensus size: 43
8171998 TTTAGTGGCG
* * * *
8172008 TTTAGCGGCTTTTTTAAGAAAAGCGCCACTAAAGAAAATGACT
1 TTTAGCGGCATTTTTAGGAAAAGCGCCGCTAAAGAACATGACT
*
8172051 TTTAGCGGCATTTTTAGGAAAAGCGTCGCTAAAGAACATGACT
1 TTTAGCGGCATTTTTAGGAAAAGCGCCGCTAAAGAACATGACT
* **
8172094 TTTAGC-G-ATGTTTGT-GGAGAAAGCGCCGCTAAAGATCATGTTT
1 TTTAGCGGCAT-TTT-TAGGA-AAAGCGCCGCTAAAGAACATGACT
8172137 TTTAGC
1 TTTAGC
8172143 TGCGCTTTTC
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
41 2 0.03
42 7 0.09
43 71 0.89
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCATTTTTAGGAAAAGCGCCGCTAAAGAACATGACT
Found at i:8174709 original size:21 final size:22
Alignment explanation
Indices: 8174669--8174713 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
8174659 ATATTTAATC
8174669 CTTTAAAATTTATAAAAATTTA
1 CTTTAAAATTTATAAAAATTTA
*
8174691 CTTTAAAATTTATAAAATTTTA
1 CTTTAAAATTTATAAAAATTTA
8174713 C
1 C
8174714 ATTATTACGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (22 bp):
CTTTAAAATTTATAAAAATTTA
Found at i:8176289 original size:15 final size:15
Alignment explanation
Indices: 8176271--8176330 Score: 84
Period size: 15 Copynumber: 4.0 Consensus size: 15
8176261 TGTCTGATGT
8176271 TGATGTGTCTAATAG
1 TGATGTGTCTAATAG
**
8176286 TGATGTGTCTGTTAG
1 TGATGTGTCTAATAG
*
8176301 TGATGTATCTAATAG
1 TGATGTGTCTAATAG
*
8176316 TTATGTGTCTAATAG
1 TGATGTGTCTAATAG
8176331 GATTAAGGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (15 bp):
TGATGTGTCTAATAG
Found at i:8176295 original size:30 final size:30
Alignment explanation
Indices: 8176261--8176330 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
8176251 GAAGAAGAAA
*
8176261 TGTCTGAT-GTTGATGTGTCTAATAGTGATG
1 TGTCTGATAG-TGATGTATCTAATAGTGATG
* *
8176291 TGTCTGTTAGTGATGTATCTAATAGTTATG
1 TGTCTGATAGTGATGTATCTAATAGTGATG
*
8176321 TGTCTAATAG
1 TGTCTGATAG
8176331 GATTAAGGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 33 0.97
31 1 0.03
ACGTcount: A:0.23, C:0.07, G:0.26, T:0.44
Consensus pattern (30 bp):
TGTCTGATAGTGATGTATCTAATAGTGATG
Found at i:8178369 original size:45 final size:45
Alignment explanation
Indices: 8178293--8178400 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
8178283 GTAGCAGTAG
* ** * * *
8178293 CAGTAATAGTAATAGTAACAGTATTCAACACACAAAGTGTTGAAT
1 CAGTAACAGTAACGGTAACAATATTCAACACACAAAATGTCGAAT
* *
8178338 CTGTAACAGTAACGGTAACAATATTCGACACACAAAATGTCGAAT
1 CAGTAACAGTAACGGTAACAATATTCAACACACAAAATGTCGAAT
8178383 CAGTAACAGTAACGGTAA
1 CAGTAACAGTAACGGTAA
8178401 TAGTAACAGT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.23
Consensus pattern (45 bp):
CAGTAACAGTAACGGTAACAATATTCAACACACAAAATGTCGAAT
Found at i:8178693 original size:40 final size:40
Alignment explanation
Indices: 8178617--8178697 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
8178607 CTTCATTAGA
* * *
8178617 AATTTTACAGTTCAATGCAATATACATAACATTATTCAGT
1 AATTTCACAGTTCAATGCAATATACAAAACAATATTCAGT
* ** *
8178657 AATTTCACAGTTCAATTCGGTATTCAAAACAATATTCAGT
1 AATTTCACAGTTCAATGCAATATACAAAACAATATTCAGT
8178697 A
1 A
8178698 TCCCATAATT
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:0.40, C:0.16, G:0.09, T:0.36
Consensus pattern (40 bp):
AATTTCACAGTTCAATGCAATATACAAAACAATATTCAGT
Found at i:8179497 original size:13 final size:13
Alignment explanation
Indices: 8179479--8179504 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8179469 ATACAATTAT
8179479 ATAATATAATATA
1 ATAATATAATATA
8179492 ATAATATAATATA
1 ATAATATAATATA
8179505 CTTAATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATATAATATA
Found at i:8179524 original size:26 final size:26
Alignment explanation
Indices: 8179494--8179543 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
8179484 ATAATATAAT
*
8179494 AATATA-ATATACTTAATTATTAAACA
1 AATATATATAT-CTTAATTAATAAACA
*
8179520 AATATATATATTTTAATTAATAAA
1 AATATATATATCTTAATTAATAAA
8179544 ATCTTTGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (26 bp):
AATATATATATCTTAATTAATAAACA
Found at i:8184810 original size:13 final size:14
Alignment explanation
Indices: 8184786--8184814 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
8184776 AAGTACTACA
8184786 ATTTTATATTTTTT
1 ATTTTATATTTTTT
8184800 ATTTT-TATTTTTT
1 ATTTTATATTTTTT
8184813 AT
1 AT
8184815 AAATTTCGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
ATTTTATATTTTTT
Found at i:8185664 original size:45 final size:45
Alignment explanation
Indices: 8185581--8185669 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
8185571 AGCAGTAATA
* * *
8185581 GTAACAGTATTCAACACACAAAGTGCTGAATCTATAACAGTAACG
1 GTAACAATATTCAACACACAAAGTGCTGAAACGATAACAGTAACG
* *
8185626 GTAACAATATTCGACACACAAAGTG-TCGAAACGGTAACAGTAAC
1 GTAACAATATTCAACACACAAAGTGCT-GAAACGATAACAGTAAC
8185670 AGTAGTCGGC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
44 1 0.03
45 37 0.97
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (45 bp):
GTAACAATATTCAACACACAAAGTGCTGAAACGATAACAGTAACG
Found at i:8186741 original size:8 final size:8
Alignment explanation
Indices: 8186728--8186761 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
8186718 TTTCTTTTAT
8186728 ATATAATA
1 ATATAATA
8186736 ATATAATATA
1 ATAT-A-ATA
8186746 ATATAATA
1 ATATAATA
8186754 ATATAATA
1 ATATAATA
8186762 TACTTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 15 0.62
9 2 0.08
10 7 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:8186746 original size:13 final size:14
Alignment explanation
Indices: 8186728--8186763 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
8186718 TTTCTTTTAT
8186728 ATATAATA-ATATA
1 ATATAATATATATA
8186741 ATATAATATA-ATA
1 ATATAATATATATA
8186754 ATATAATATA
1 ATATAATATA
8186764 CTTAATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 21 0.95
14 1 0.05
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATAATATATATA
Found at i:8186751 original size:18 final size:18
Alignment explanation
Indices: 8186728--8186763 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
8186718 TTTCTTTTAT
8186728 ATATAATAATATAATATA
1 ATATAATAATATAATATA
8186746 ATATAATAATATAATATA
1 ATATAATAATATAATATA
8186764 CTTAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATAATAATATAATATA
Found at i:8186783 original size:34 final size:30
Alignment explanation
Indices: 8186725--8186806 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
8186715 TTGTTTCTTT
* *
8186725 TATATATAATAATATAATATAATATAATA-ATA
1 TATATATATTAAT-TAATA-AACA-AATATATA
*
8186757 TA-ATATACTTAATTATTAAACAAATATATA
1 TATATATA-TTAATTAATAAACAAATATATA
8186787 TATATATATTAATTAATAAA
1 TATATATATTAATTAATAAA
8186807 ATCTTTGATA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
29 4 0.09
30 19 0.44
31 14 0.33
32 6 0.14
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (30 bp):
TATATATATTAATTAATAAACAAATATATA
Found at i:8189389 original size:43 final size:43
Alignment explanation
Indices: 8189329--8189419 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 43
8189319 CTAAATCATG
8189329 CTCA-TAACAACCCATATTTTCCATCAAATCACATTTCTACTA
1 CTCATTAACAACCCATATTTTCCATCAAATCACATTTCTACTA
*
8189371 CTCATTAACAGCCCATATTTTCCATCAAATCACATTTCTACTA
1 CTCATTAACAACCCATATTTTCCATCAAATCACATTTCTACTA
8189414 CTCATT
1 CTCATT
8189420 CTTACAACTT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 4 0.09
43 43 0.91
ACGTcount: A:0.33, C:0.31, G:0.01, T:0.35
Consensus pattern (43 bp):
CTCATTAACAACCCATATTTTCCATCAAATCACATTTCTACTA
Found at i:8191791 original size:22 final size:22
Alignment explanation
Indices: 8191766--8191823 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
8191756 GCTTGAAAGG
8191766 GCTTACTGTTTAGCTCAATAGA
1 GCTTACTGTTTAGCTCAATAGA
*
8191788 GCTTACCAT-TTTCATCTCAATAGA
1 GCTTA-C-TGTTT-AGCTCAATAGA
*
8191812 ACTTACTGTTTA
1 GCTTACTGTTTA
8191824 TCAGCTTAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
22 7 0.23
23 8 0.27
24 15 0.50
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.40
Consensus pattern (22 bp):
GCTTACTGTTTAGCTCAATAGA
Found at i:8194858 original size:13 final size:14
Alignment explanation
Indices: 8194840--8194870 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
8194830 TTATCTTTAG
8194840 TTTAAA-TTTGATT
1 TTTAAATTTTGATT
8194853 TTTAAATTTTGATT
1 TTTAAATTTTGATT
8194867 TTTA
1 TTTA
8194871 GTTGATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
TTTAAATTTTGATT
Found at i:8198298 original size:21 final size:21
Alignment explanation
Indices: 8198272--8198324 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
8198262 CAAGTGGTTG
*
8198272 CCCCAACTCAGCAATAGACTA
1 CCCCAACTCAGCAAGAGACTA
* *
8198293 CCCCAAATCAGTAAGAGACTA
1 CCCCAACTCAGCAAGAGACTA
* *
8198314 CTCTAACTCAG
1 CCCCAACTCAG
8198325 GAGGAGGTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.34, G:0.11, T:0.17
Consensus pattern (21 bp):
CCCCAACTCAGCAAGAGACTA
Found at i:8203584 original size:55 final size:55
Alignment explanation
Indices: 8203517--8203628 Score: 127
Period size: 55 Copynumber: 2.0 Consensus size: 55
8203507 CGGGATGCGA
* * * *
8203517 TAAAACGCCACGGCCGTGCGACATGCCCGTGTGGAAGAACCGTGGGCGAACCTGT
1 TAAAACGCCACGGCCGTGCAACACGCCCGTGTCGAACAACCGTGGGCGAACCTGT
* * * * *
8203572 TAAAACAG-CACGGGCGTGTAACACGCCTGTGTCTAACAACCGTGGTCGAACCTGT
1 TAAAAC-GCCACGGCCGTGCAACACGCCCGTGTCGAACAACCGTGGGCGAACCTGT
8203627 TA
1 TA
8203629 GATTGACATG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
55 46 0.98
56 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.29, T:0.18
Consensus pattern (55 bp):
TAAAACGCCACGGCCGTGCAACACGCCCGTGTCGAACAACCGTGGGCGAACCTGT
Found at i:8207682 original size:13 final size:13
Alignment explanation
Indices: 8207664--8207690 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8207654 AAAGTAATCG
8207664 CACACGGGCGTGT
1 CACACGGGCGTGT
8207677 CACACGGGCGTGT
1 CACACGGGCGTGT
8207690 C
1 C
8207691 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:8209875 original size:29 final size:29
Alignment explanation
Indices: 8209843--8210028 Score: 185
Period size: 29 Copynumber: 6.4 Consensus size: 29
8209833 ATCATCGAAC
*
8209843 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTTGGCTATCGATT
* *** *
8209872 ATGAAAAAGGATAGCTTCAACTATCGAAT
1 ATGAAAAGGGATAGCTTTGGCTATCGATT
8209901 ATGAAAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTTGGCTATCGATT
* * * * * * * *
8209930 ATGACACGGGATCG-TGATGACCATTGAAT
1 ATGAAAAGGGATAGCT-TTGGCTATCGATT
*
8209959 ATGAAAAGGGATAGTTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTTGGCTATCGATT
* * * *
8209988 ATGAAAATGGATAGTTTTGTCTATCAATT
1 ATGAAAAGGGATAGCTTTGGCTATCGATT
8210017 ATGAAAAGGGAT
1 ATGAAAAGGGAT
8210029 GGTGACGACC
Statistics
Matches: 126, Mismatches: 29, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
28 1 0.01
29 124 0.98
30 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.30
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTTGGCTATCGATT
Found at i:8209926 original size:58 final size:56
Alignment explanation
Indices: 8209836--8210028 Score: 208
Period size: 58 Copynumber: 3.3 Consensus size: 56
8209826 ATCGGCAATC
* * *
8209836 ATCGAACATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAAGGATAGCTTCAACT
1 ATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAAGGATAG-TT-GACT
* ** * *
8209894 ATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGACACGGGATCGTGATGACC
1 ATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAAGGATAGT--TGACT
* * * *
8209952 ATTGAATATGAAAAGGGATAGTTTTGGCTATCGATTATGAAAATGGATAGTTTTGTCT
1 ATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAAGGATAG--TTGACT
8210010 ATC-AATTATGAAAAGGGAT
1 ATCGAA-TATGAAAAGGGAT
8210029 GGTGACGACC
Statistics
Matches: 113, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
57 3 0.03
58 108 0.96
59 1 0.01
60 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (56 bp):
ATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAAGGATAGTTGACT
Found at i:8209983 original size:87 final size:87
Alignment explanation
Indices: 8209892--8210053 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
8209882 ATAGCTTCAA
* * * * *
8209892 CTATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGACACGGGATCGTGATGACCATTGA
1 CTATCGAATATGAAAAGGGATAGCTTTGGCTATCAATTATGAAAAGGGATCGTGACGACCA-TCA
8209957 A-TATGAAAAGGGATAGTTTTGG
65 ACTATGAAAAGGGATAGTTTTGG
* * * * *
8209979 CTATCGATTATGAAAATGGATAGTTTTGTCTATCAATTATGAAAAGGGATGGTGACGACCATCAA
1 CTATCGAATATGAAAAGGGATAGCTTTGGCTATCAATTATGAAAAGGGATCGTGACGACCATCAA
8210044 CTATGAAAAG
66 CTATGAAAAG
8210054 TGATGGTGAC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
86 3 0.05
87 61 0.95
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (87 bp):
CTATCGAATATGAAAAGGGATAGCTTTGGCTATCAATTATGAAAAGGGATCGTGACGACCATCAA
CTATGAAAAGGGATAGTTTTGG
Found at i:8210075 original size:87 final size:87
Alignment explanation
Indices: 8209894--8210129 Score: 217
Period size: 87 Copynumber: 2.7 Consensus size: 87
8209884 AGCTTCAACT
* * * * * * * *
8209894 ATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGACACGGGATCGTGATGACCATTGAAT
1 ATCGATTATGAAAAGGGATAGTTTTGACTATCAATTATGAAAAGGGATCGTGACGACCATTCAAT
*** *
8209959 ATGAAAAGGGATAGTTTTGGCT
66 ATGAAAAGGGATAGTGACGGCC
* * *
8209981 ATCGATTATGAAAATGGATAGTTTTGTCTATCAATTATGAAAAGGGATGGTGACGACCA-TCAAC
1 ATCGATTATGAAAAGGGATAGTTTTGACTATCAATTATGAAAAGGGATCGTGACGACCATTCAA-
* *
8210045 TATGAAAAGTGATGGTGACGGCC
65 TATGAAAAGGGATAGTGACGGCC
* * * * *
8210068 ATTGATTAATGAAAAGGGATGGTTTTAACCATCGAA-TATGAAAAGGGA-CGATTACGACCATT
1 ATCGATT-ATGAAAAGGGATAGTTTTGACTATC-AATTATGAAAAGGGATCG-TGACGACCATT
8210130 GTTTAGCACA
Statistics
Matches: 120, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
86 3 0.03
87 74 0.62
88 40 0.33
89 3 0.03
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (87 bp):
ATCGATTATGAAAAGGGATAGTTTTGACTATCAATTATGAAAAGGGATCGTGACGACCATTCAAT
ATGAAAAGGGATAGTGACGGCC
Found at i:8210113 original size:29 final size:29
Alignment explanation
Indices: 8209835--8210115 Score: 152
Period size: 29 Copynumber: 9.7 Consensus size: 29
8209825 TATCGGCAAT
* * * *
8209835 CATCGAACATGAAAAGGGATAGCTTCGGC
1 CATCGAATATGAAAAGGGATAGTTTTGAC
* * * * **
8209864 TATCGATTATGAAAAAGGATAGCTTCAAC
1 CATCGAATATGAAAAGGGATAGTTTTGAC
* * *
8209893 TATCGAATATGAAAAGGGATAGCTTTGGC
1 CATCGAATATGAAAAGGGATAGTTTTGAC
* * * * * **
8209922 TATCGATTATGACACGGGATCGTGATGAC
1 CATCGAATATGAAAAGGGATAGTTTTGAC
* *
8209951 CATTGAATATGAAAAGGGATAGTTTTGGC
1 CATCGAATATGAAAAGGGATAGTTTTGAC
* * * *
8209980 TATCGATTATGAAAATGGATAGTTTTGTC
1 CATCGAATATGAAAAGGGATAGTTTTGAC
* * ***
8210009 TATC-AATTATGAAAAGGGATGGTGACGAC
1 CATCGAA-TATGAAAAGGGATAGTTTTGAC
* * *** *
8210038 CATC-AACTATGAAAAGTGATGGTGACGGC
1 CATCGAA-TATGAAAAGGGATAGTTTTGAC
* * * *
8210067 CATTGATTAATGAAAAGGGATGGTTTTAAC
1 CATCGAAT-ATGAAAAGGGATAGTTTTGAC
8210097 CATCGAATATGAAAAGGGA
1 CATCGAATATGAAAAGGGA
8210116 CGATTACGAC
Statistics
Matches: 195, Mismatches: 54, Indels: 6
0.76 0.21 0.02
Matches are distributed among these distances:
28 1 0.01
29 172 0.88
30 22 0.11
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (29 bp):
CATCGAATATGAAAAGGGATAGTTTTGAC
Found at i:8210129 original size:59 final size:59
Alignment explanation
Indices: 8210017--8210130 Score: 131
Period size: 59 Copynumber: 1.9 Consensus size: 59
8210007 TCTATCAATT
* * * * *
8210017 ATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGTGATGGTGACGGCCATTGATTA
1 ATGAAAAGGGATGGTGACAACCATCAACTATGAAAAGGGACGATGACGACCATTGATTA
*** *
8210076 ATGAAAAGGGATGGTTTTAACCATCGAA-TATGAAAAGGGACGATTACGACCATTG
1 ATGAAAAGGGATGGTGACAACCATC-AACTATGAAAAGGGACGATGACGACCATTG
8210131 TTTAGCACAC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
59 43 0.96
60 2 0.04
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (59 bp):
ATGAAAAGGGATGGTGACAACCATCAACTATGAAAAGGGACGATGACGACCATTGATTA
Found at i:8214523 original size:9 final size:8
Alignment explanation
Indices: 8214506--8214535 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
8214496 TATGGACCTC
8214506 TTCTTTTT
1 TTCTTTTT
8214514 TTCTTTTT
1 TTCTTTTT
8214522 TTCTTTTT
1 TTCTTTTT
8214530 TT-TTTT
1 TTCTTTT
8214536 GGGGGGGGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.18
8 18 0.82
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TTCTTTTT
Found at i:8216362 original size:30 final size:28
Alignment explanation
Indices: 8216309--8216364 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 28
8216299 TGGCCTAAAA
8216309 ATTAAAAAAAAATTAAGTAAAAATATAG
1 ATTAAAAAAAAATTAAGTAAAAATATAG
8216337 ATTAAAAAATAAATTTTAA-TAAAAATAT
1 ATTAAAAAA-AAA--TTAAGTAAAAATAT
8216365 GTCCAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 9 0.36
29 3 0.12
30 9 0.36
31 4 0.16
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (28 bp):
ATTAAAAAAAAATTAAGTAAAAATATAG
Found at i:8221953 original size:41 final size:41
Alignment explanation
Indices: 8221906--8221986 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
8221896 ATATTTTATT
8221906 TTATCTTTTAGTAGTCTATTAGAATAA-GAGAATTATTTTCC
1 TTATCTTTTAGTAGTCTATTAGAATAAGGA-AATTATTTTCC
*
8221947 TTATCTTTTAGTAGTTTATTAGAATAAGGAAATTATTTTC
1 TTATCTTTTAGTAGTCTATTAGAATAAGGAAATTATTTTC
8221987 TCAATTAAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 36 0.95
42 2 0.05
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.48
Consensus pattern (41 bp):
TTATCTTTTAGTAGTCTATTAGAATAAGGAAATTATTTTCC
Found at i:8226054 original size:15 final size:15
Alignment explanation
Indices: 8226036--8226074 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
8226026 GGATAGGAGG
*
8226036 GAGAGGGAGGAGAAA
1 GAGAGGGAAGAGAAA
* *
8226051 GAGAGGAAAGATAAA
1 GAGAGGGAAGAGAAA
8226066 GAGAGGGAA
1 GAGAGGGAA
8226075 TTTGTCGTGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.46, T:0.03
Consensus pattern (15 bp):
GAGAGGGAAGAGAAA
Found at i:8229176 original size:18 final size:18
Alignment explanation
Indices: 8229153--8229202 Score: 84
Period size: 17 Copynumber: 2.8 Consensus size: 18
8229143 CCATTAAGCC
8229153 CCCCCAAAAAAAACCTAA
1 CCCCCAAAAAAAACCTAA
8229171 CCCCCAAAAAAAA-CTAA
1 CCCCCAAAAAAAACCTAA
*
8229188 CCCCAAAAAAAAACC
1 CCCCCAAAAAAAACC
8229203 AAGAAACCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.58, C:0.38, G:0.00, T:0.04
Consensus pattern (18 bp):
CCCCCAAAAAAAACCTAA
Found at i:8229181 original size:16 final size:16
Alignment explanation
Indices: 8229154--8229199 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
8229144 CATTAAGCCC
8229154 CCCCAAAAAAAACCTAA
1 CCCCAAAAAAAA-CTAA
8229171 CCCCCAAAAAAAACTAA
1 -CCCCAAAAAAAACTAA
8229188 CCCCAAAAAAAA
1 CCCCAAAAAAAA
8229200 ACCAAGAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 12 0.43
17 4 0.14
18 12 0.43
ACGTcount: A:0.61, C:0.35, G:0.00, T:0.04
Consensus pattern (16 bp):
CCCCAAAAAAAACTAA
Found at i:8230022 original size:39 final size:36
Alignment explanation
Indices: 8229968--8230076 Score: 103
Period size: 37 Copynumber: 2.9 Consensus size: 36
8229958 TTATGTATTT
* *
8229968 TATATATAT-TATGTATATATTTTTTAATGCCATTA
1 TATATACATATATGTATATATTTTTTAATACCATTA
** * * *
8230003 GTTATATATTTCATATGTATATATTCTTAAATACTATTA
1 --TATATACAT-ATATGTATATATTTTTTAATACCATTA
*
8230042 TATATACATATATATATATATTTTTTAAATACCAT
1 TATATACATATATGTATATATTTTTT-AATACCAT
8230077 ATTGTGTATA
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
36 14 0.24
37 22 0.38
39 22 0.38
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (36 bp):
TATATACATATATGTATATATTTTTTAATACCATTA
Found at i:8242413 original size:52 final size:52
Alignment explanation
Indices: 8242347--8242455 Score: 184
Period size: 52 Copynumber: 2.1 Consensus size: 52
8242337 ATTTTTAACA
* * *
8242347 TATTTTTGTTGCGTTTTGTCTAAAAATGCCACTATTGCTTAATTTTTATTTT
1 TATTTTTGTGGCGTTTTGTCTAAAAACGCCACTATTGCTTAATTTTAATTTT
8242399 TATTTTTGTGGCGTTTTGTCTAAAAACGCCACTATTGCTTAATTTTAATTTT
1 TATTTTTGTGGCGTTTTGTCTAAAAACGCCACTATTGCTTAATTTTAATTTT
8242451 T-TTTT
1 TATTTT
8242456 AACAAAAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 4 0.07
52 50 0.93
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.55
Consensus pattern (52 bp):
TATTTTTGTGGCGTTTTGTCTAAAAACGCCACTATTGCTTAATTTTAATTTT
Found at i:8243097 original size:15 final size:15
Alignment explanation
Indices: 8243074--8243124 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
8243064 ATACCCATGG
*
8243074 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
8243089 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
* *
8243104 TCAT-ATACCTTAAA
1 CCATAAAACCTTAAA
*
8243118 CCTTAAA
1 CCATAAA
8243125 TATTAAACCG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.25
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:8243423 original size:41 final size:41
Alignment explanation
Indices: 8243366--8243480 Score: 144
Period size: 41 Copynumber: 2.8 Consensus size: 41
8243356 GGGGTTATAT
8243366 GACTTTTAGCAGCGTTTTATCAAAAGCGCCGCTAATGCTCC
1 GACTTTTAGCAGCGTTTTATCAAAAGCGCCGCTAATGCTCC
* * *
8243407 GACTTTTAGCAGCGTTTTATCAAAAGTGCCGCTATTGCTCT
1 GACTTTTAGCAGCGTTTTATCAAAAGCGCCGCTAATGCTCC
* * * *
8243448 G-TTTTTAGC-GGGTTTTAACAAAAAACGCCGCTA
1 GACTTTTAGCAGCGTTTTATC-AAAAGCGCCGCTA
8243481 TTGCACTGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
39 8 0.12
40 18 0.28
41 39 0.60
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (41 bp):
GACTTTTAGCAGCGTTTTATCAAAAGCGCCGCTAATGCTCC
Found at i:8243478 original size:40 final size:40
Alignment explanation
Indices: 8243369--8243535 Score: 138
Period size: 40 Copynumber: 4.1 Consensus size: 40
8243359 GTTATATGAC
* ** * * * *
8243369 TTTTAGCAGCGTTTTATCAAAAGCGCCGCTAATGCTCCGAC
1 TTTTAGCGGCGTTTTAAAAAAAACGCCGCTATTGCTCTG-T
* ** **
8243410 TTTTAGCAGCGTTTTATCAAAAGTGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTAAAAAAAACGCCGCTATTGCTCTGT
*
8243450 TTTTAGCGG-GTTTTAACAAAAAACGCCGCTATTGCACTGT
1 TTTTAGCGGCGTTTTAA-AAAAAACGCCGCTATTGCTCTGT
* ** * *
8243490 TTTTAGCGGCGTTTTTAGTAAAACGCTGCTTTTGCTCTGT
1 TTTTAGCGGCGTTTTAAAAAAAACGCCGCTATTGCTCTGT
8243530 GTTTTA
1 -TTTTA
8243536 CAATTTTTAC
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 6 0.06
40 54 0.50
41 47 0.44
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTAAAAAAAACGCCGCTATTGCTCTGT
Found at i:8248781 original size:24 final size:23
Alignment explanation
Indices: 8248746--8248792 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
8248736 TTTGATTATG
* *
8248746 AAAAAATTAAAATAGTTAAAATA
1 AAAAAATAAAAAAAGTTAAAATA
*
8248769 AAAAAATAAAAAAAATTTAAAATA
1 AAAAAAT-AAAAAAAGTTAAAATA
8248793 TCAAAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (23 bp):
AAAAAATAAAAAAAGTTAAAATA
Found at i:8250465 original size:34 final size:33
Alignment explanation
Indices: 8250424--8250516 Score: 107
Period size: 34 Copynumber: 2.7 Consensus size: 33
8250414 CCCAACCCTT
*
8250424 TCTTTTTTACCCAAATCAATTCCC-TCCCCAAA
1 TCTTTTTTACCCAAATCAGTTCCCTTCCCCAAA
*
8250456 TCATTTTTTTTCCCAAATCAGTTCCCCCTTCCCCAAA
1 TC--TTTTTTACCCAAATCAGTT--CCCTTCCCCAAA
* *
8250493 TCGTTTTTCCCCAAATCAGTTCCC
1 TCTTTTTTACCCAAATCAGTTCCC
8250517 CCCTCCCCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
32 2 0.04
33 3 0.06
34 17 0.33
35 17 0.33
36 3 0.06
37 10 0.19
ACGTcount: A:0.23, C:0.38, G:0.03, T:0.37
Consensus pattern (33 bp):
TCTTTTTTACCCAAATCAGTTCCCTTCCCCAAA
Found at i:8250507 original size:35 final size:35
Alignment explanation
Indices: 8250427--8250524 Score: 112
Period size: 35 Copynumber: 2.8 Consensus size: 35
8250417 AACCCTTTCT
* *
8250427 TTTTTACCCAAATCAATT--CCCTCCCCAAATCATT
1 TTTTTACCCAAATCAGTTCCCCCTCCCCAAATCA-G
*
8250461 TTTTTTCCCAAATCAGTTCCCCCTTCCCCAAATC-G
1 TTTTTACCCAAATCAGTTCCCCC-TCCCCAAATCAG
*
8250496 TTTTTCCCCAAATCAGTTCCCCCCTCCCC
1 TTTTTACCCAAATCAGTT-CCCCCTCCCC
8250525 CTCCCCCAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
34 16 0.29
35 22 0.39
36 8 0.14
37 10 0.18
ACGTcount: A:0.21, C:0.42, G:0.03, T:0.34
Consensus pattern (35 bp):
TTTTTACCCAAATCAGTTCCCCCTCCCCAAATCAG
Found at i:8257118 original size:19 final size:19
Alignment explanation
Indices: 8257080--8257119 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
8257070 TGATTTGCTT
8257080 TCACTAGCCTCATCAATTTC
1 TCACTAGCCTCA-CAATTTC
8257100 TCACATAGCCTCA-AATTTC
1 TCAC-TAGCCTCACAATTTC
8257119 T
1 T
8257120 TGACTTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.28, C:0.33, G:0.05, T:0.35
Consensus pattern (19 bp):
TCACTAGCCTCACAATTTC
Found at i:8262494 original size:230 final size:230
Alignment explanation
Indices: 8262084--8262774 Score: 1328
Period size: 230 Copynumber: 3.0 Consensus size: 230
8262074 CTATATCCCC
*
8262084 CTCCTTGAGGTTTTGGAGGATTTCCATCCACTTCTCCTCCGAGATATCCTCTCTCCTTTGTATAG
1 CTCCTTAAGGTTTTGGAGGATTTCCATCCACTTCTCCTCCGAGATATCCTCTCTCCTTTGTATAG
8262149 CTGTCTCCTCTCTTAGCGGGGAATAACCTTCGAAAAAGACCCAATAAGAAACCTTGTCTACCTTC
66 CTGTCTCCTCTCTTAGCGGGGAATAACCTTCGAAAAAGACCCAATAAGAAACCTTGTCTACCTTC
8262214 CAAAAGTGTCCATGAAACCATACCATCAATAATTGAGCACATCCAATAAACCGTCCCTCGCCTGT
131 CAAAAGTGTCCATGAAACCATACCATCAATAATTGAGCACATCCAATAAACCGTCCCTCGCCTGT
*
8262279 CTTCTGACATGAGCTCAAAGACCTGAACGTCTCAA
196 CTTCCGACATGAGCTCAAAGACCTGAACGTCTCAA
*
8262314 CTCCTTAAGGTTTTGGAGGATTTCCATCCATTTCTCCTCCGAGATATCCTCTCTCCTTTGTATAG
1 CTCCTTAAGGTTTTGGAGGATTTCCATCCACTTCTCCTCCGAGATATCCTCTCTCCTTTGTATAG
8262379 CTGTCTCCTCTCTTAGCGGGGAATAACCTTCGAAAAAGACCCAATAAGAAACCTTGTCTACCTTC
66 CTGTCTCCTCTCTTAGCGGGGAATAACCTTCGAAAAAGACCCAATAAGAAACCTTGTCTACCTTC
8262444 CAAAAGTGTCCATGAAACCATACCATCAATAATTGAGCACATCCAATAAACCGTCCCTCGCCTGT
131 CAAAAGTGTCCATGAAACCATACCATCAATAATTGAGCACATCCAATAAACCGTCCCTCGCCTGT
8262509 CTTCCGACATGAGCTCAAAGACCTGAACGTCTCAA
196 CTTCCGACATGAGCTCAAAGACCTGAACGTCTCAA
8262544 CTCCTTAAGGTTTTGGAGGATTTCCATCCACTTCTCCTCCGAGATATCCTCTCTCCTTTGTATAG
1 CTCCTTAAGGTTTTGGAGGATTTCCATCCACTTCTCCTCCGAGATATCCTCTCTCCTTTGTATAG
*
8262609 CTGCCTCCTCTCTTAGCGGGGAATAACCTTCGAAAAAGACCCAATAAGAAACCTTGTCTACCTTC
66 CTGTCTCCTCTCTTAGCGGGGAATAACCTTCGAAAAAGACCCAATAAGAAACCTTGTCTACCTTC
* *
8262674 CAAAAGTGTCCATGAAACCATACTATCAATAATTGAGCACATCCAATAAACCGTCCCTTGCCTGT
131 CAAAAGTGTCCATGAAACCATACCATCAATAATTGAGCACATCCAATAAACCGTCCCTCGCCTGT
8262739 CTTCCGACATGAGCTCAAAGACCTGAACGTCTCAA
196 CTTCCGACATGAGCTCAAAGACCTGAACGTCTCAA
8262774 C
1 C
8262775 CAATATCGCT
Statistics
Matches: 454, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
230 454 1.00
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (230 bp):
CTCCTTAAGGTTTTGGAGGATTTCCATCCACTTCTCCTCCGAGATATCCTCTCTCCTTTGTATAG
CTGTCTCCTCTCTTAGCGGGGAATAACCTTCGAAAAAGACCCAATAAGAAACCTTGTCTACCTTC
CAAAAGTGTCCATGAAACCATACCATCAATAATTGAGCACATCCAATAAACCGTCCCTCGCCTGT
CTTCCGACATGAGCTCAAAGACCTGAACGTCTCAA
Found at i:8265456 original size:40 final size:40
Alignment explanation
Indices: 8265364--8265594 Score: 304
Period size: 40 Copynumber: 5.8 Consensus size: 40
8265354 TGGATGATAA
* * * * * **
8265364 CCGGGCTAAGTCCCAAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
8265404 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
8265443 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
8265483 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
** * *
8265523 CCGGGCTAAGTTTCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
8265563 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
8265595 AGCTATATCC
Statistics
Matches: 169, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 31 0.18
40 136 0.80
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:8274704 original size:43 final size:43
Alignment explanation
Indices: 8274647--8274767 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 43
8274637 TCATATATCG
** * *
8274647 ATGCCACTATCCCACACAAGGTCTTACATGAAATCG-ATTAACA
1 ATGCCACTGCCCCACACAAGGTCTTACATGTAATCGCAAT-ACA
* * * *
8274690 ATGTCGA-TGCCCCACACATGGTCTTAAACGTAATCGCAATACA
1 ATG-CCACTGCCCCACACAAGGTCTTACATGTAATCGCAATACA
* *
8274733 ATGCCACTGTCCCACACAGGGTCTTACATGTAATC
1 ATGCCACTGCCCCACACAAGGTCTTACATGTAATC
8274768 ACATCTCAAT
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 2 0.03
43 56 0.90
44 4 0.06
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (43 bp):
ATGCCACTGCCCCACACAAGGTCTTACATGTAATCGCAATACA
Found at i:8281547 original size:27 final size:26
Alignment explanation
Indices: 8281477--8281549 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 26
8281467 TAGCTTTTAG
* *
8281477 ATTTTAATTGT-GTTATT-AATTTATT
1 ATTTTAATTTTAGTT-TTAAATTCATT
**
8281502 ATTTTAAATTTTAAATTTAAATTCATT
1 ATTTT-AATTTTAGTTTTAAATTCATT
8281529 AATTTTAATTTTAGTTTTAAA
1 -ATTTTAATTTTAGTTTTAAA
8281550 GTTAAAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 5 0.13
26 7 0.18
27 21 0.55
28 5 0.13
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (26 bp):
ATTTTAATTTTAGTTTTAAATTCATT
Found at i:8281758 original size:43 final size:43
Alignment explanation
Indices: 8281711--8281854 Score: 180
Period size: 43 Copynumber: 3.3 Consensus size: 43
8281701 TTTAATGGCA
* * *
8281711 TTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTATAGAGACG
1 TTTGTGGGAAAAGCGCCGCTAAAGGCCATGTTCTTTAGCGACG
* ** *
8281754 TTTGTGGGAAAAACGTTGCTAAAGGCCATGTTCTTTAGCGATG
1 TTTGTGGGAAAAGCGCCGCTAAAGGCCATGTTCTTTAGCGACG
* * * *
8281797 TTTGTGAGAAAAGCGCCGCCAAAAGCCATGTTCTTTAGCGGCG
1 TTTGTGGGAAAAGCGCCGCTAAAGGCCATGTTCTTTAGCGACG
*
8281840 TTAGTGGGAAAAGCG
1 TTTGTGGGAAAAGCG
8281855 TTAGTGGGAA
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 84 1.00
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (43 bp):
TTTGTGGGAAAAGCGCCGCTAAAGGCCATGTTCTTTAGCGACG
Found at i:8281857 original size:15 final size:15
Alignment explanation
Indices: 8281837--8281869 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
8281827 TTCTTTAGCG
8281837 GCGTTAGTGGGAAAA
1 GCGTTAGTGGGAAAA
8281852 GCGTTAGTGGGAAAA
1 GCGTTAGTGGGAAAA
8281867 GCG
1 GCG
8281870 CCACTAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.42, T:0.18
Consensus pattern (15 bp):
GCGTTAGTGGGAAAA
Found at i:8283578 original size:4 final size:4
Alignment explanation
Indices: 8283569--8283598 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
8283559 TTACAAGCTG
*
8283569 TTTA TTTA TTTA TTCA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
8283599 ACTTCTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:8283687 original size:18 final size:18
Alignment explanation
Indices: 8283651--8283709 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
8283641 TATTTGCGCA
*
8283651 TTTTTTA-TCATTGTCATT
1 TTTTTTATTC-TTGTTATT
8283669 TTTTTTATTCTTGTTA-T
1 TTTTTTATTCTTGTTATT
*
8283686 TTTATTATTTCTT-TTATT
1 TTTTTTA-TTCTTGTTATT
8283704 ATTTTT
1 -TTTTT
8283710 GATATTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 10 0.29
18 18 0.53
19 6 0.18
ACGTcount: A:0.15, C:0.07, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTTTTATTCTTGTTATT
Found at i:8283688 original size:17 final size:17
Alignment explanation
Indices: 8283668--8283709 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
8283658 TCATTGTCAT
8283668 TTTTTTTA-TTCTTGTTA
1 TTTTTTTATTTCTT-TTA
*
8283685 TTTTATTATTTCTTTTA
1 TTTTTTTATTTCTTTTA
8283702 TTATTTTT
1 TT-TTTTT
8283710 GATATTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTTTTATTTCTTTTA
Found at i:8287473 original size:19 final size:20
Alignment explanation
Indices: 8287432--8287484 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
8287422 GCCTTTTTTT
8287432 GCATT-CATTTCATATATCG
1 GCATTACATTTCATATATCG
8287451 GCATTACATTTCATCATA-C-
1 GCATTACATTTCAT-ATATCG
*
8287470 GCATTAAATTTCATA
1 GCATTACATTTCATA
8287485 AAAAACCCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
18 1 0.03
19 18 0.58
20 9 0.29
21 3 0.10
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.40
Consensus pattern (20 bp):
GCATTACATTTCATATATCG
Found at i:8294289 original size:16 final size:16
Alignment explanation
Indices: 8294270--8294301 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8294260 ACTTGAAAAG
8294270 AAAATATATACATAAA
1 AAAATATATACATAAA
*
8294286 AAAATATTTACATAAA
1 AAAATATATACATAAA
8294302 GTTATATGAA
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:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATATATACATAAA
Found at i:8301807 original size:41 final size:43
Alignment explanation
Indices: 8301746--8301870 Score: 137
Period size: 41 Copynumber: 2.9 Consensus size: 43
8301736 TCACCGTAGT
* *
8301746 AAATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAA-A-C
1 AAATCTTATCTCCCTGAAGTTGCAATAGAGCAGATTAAATAGC
* **
8301787 AAATCTTATCTCCCTAAAGTTGCAACGGAGCAGATTGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAATAGAGCAGATT-AA-ATAGC
* * * *
8301832 AAATCTTATTTCCCTGAAGTTACAATAGAACAAATTAAA
1 AAATCTTATCTCCCTGAAGTTGCAATAGAGCAGATTAAA
8301871 GCTACAATAC
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
41 31 0.46
42 2 0.03
43 2 0.03
44 3 0.04
45 30 0.44
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (43 bp):
AAATCTTATCTCCCTGAAGTTGCAATAGAGCAGATTAAATAGC
Found at i:8302101 original size:132 final size:128
Alignment explanation
Indices: 8301747--8302171 Score: 358
Period size: 132 Copynumber: 3.2 Consensus size: 128
8301737 CACCGTAGTA
* *
8301747 AATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAA--ACAAATCTTATCTCCCTAAAGTTGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAGTAC-AATCTTATCTCCCTAAAGTTGC
** * * * * *
8301810 AACGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTACAATAGAACAAATT-AAAGCT
64 AGTGGAGCAGATTGAAGATA-CAAATCTTATTTCCCTGAAGTTATAGTGGAGCAGATTGAAA-CT
8301874 AC
127 AC
* * * *
8301876 AATACACAAATCCTATTTCCCTGAAGTTACAGTGGAGCAGATTAAAGT-GAACCTTATCTCCCTA
1 AAT---C---T--TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAGTACAATCTTATCTCCCTA
* * * * * *
8301940 AAGTTACAGTGGA-CTGGGTTGAAGCTACAAATCTTATTTCCCTGAAGTTATAGTGGAGCGGGTT
57 AAGTTGCAGTGGAGC-AGATTGAAGATACAAATCTTATTTCCCTGAAGTTATAGTGGAGCAGATT
8302004 GAAACTAC
121 GAAACTAC
* * *
8302012 GAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGTTACAAGTCTTATCTCCCTGAAGTT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-AAAG-TACAA-TCTTATCTCCCTAAAGTT
* * * * * * **
8302077 GCAGTGGAGCAGATCGAAGTTACAAGTCTTATCTCCCTGAA-TTTTCAGTGGAGCAGATCGAAGT
62 GCAGTGGAGCAGATTGAAGATACAAATCTTATTTCCCTGAAGTTAT-AGTGGAGCAGATTGAAAC
8302141 TAC
126 TAC
8302144 AAGTCTTATCTCCCTGAAGTTGCAGTGG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGG
8302172 GTTAGAACAA
Statistics
Matches: 238, Mismatches: 38, Indels: 37
0.76 0.12 0.12
Matches are distributed among these distances:
128 1 0.00
129 33 0.14
130 1 0.00
131 8 0.03
132 89 0.37
133 1 0.00
134 1 0.00
135 1 0.00
136 35 0.15
137 68 0.29
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (128 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAGTACAATCTTATCTCCCTAAAGTTGCAG
TGGAGCAGATTGAAGATACAAATCTTATTTCCCTGAAGTTATAGTGGAGCAGATTGAAACTAC
Found at i:8302187 original size:44 final size:44
Alignment explanation
Indices: 8301893--8302171 Score: 298
Period size: 44 Copynumber: 6.4 Consensus size: 44
8301883 AAATCCTATT
* ** * *
8301893 TCCCTGAAGTTACAGTGGAGCAGATTAAAG-T-GAA-CCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATCGAAGTTACAAGTCTTATC
* * * * * * * *
8301934 TCCCTAAAGTTACAGTGGA-CTGGGTTGAAGCTACAAATCTTATT
1 TCCCTGAAGTTGCAGTGGAGC-AGATCGAAGTTACAAGTCTTATC
** * * * ** *
8301978 TCCCTGAAGTTATAGTGGAGCGGGTTGAAACTACGAA-TCTTATT
1 TCCCTGAAGTTGCAGTGGAGCAGATCGAAGTTAC-AAGTCTTATC
8302022 TCCCTGAAGTTGCAGTGGAGCAGATCGAAGTTACAAGTCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATCGAAGTTACAAGTCTTATC
8302066 TCCCTGAAGTTGCAGTGGAGCAGATCGAAGTTACAAGTCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATCGAAGTTACAAGTCTTATC
* *
8302110 TCCCTGAATTTTCAGTGGAGCAGATCGAAGTTACAAGTCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATCGAAGTTACAAGTCTTATC
8302154 TCCCTGAAGTTGCAGTGG
1 TCCCTGAAGTTGCAGTGG
8302172 GTTAGAACAA
Statistics
Matches: 209, Mismatches: 22, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
40 1 0.00
41 24 0.11
42 1 0.00
43 4 0.02
44 176 0.84
45 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
TCCCTGAAGTTGCAGTGGAGCAGATCGAAGTTACAAGTCTTATC
Found at i:8303834 original size:6 final size:6
Alignment explanation
Indices: 8303818--8303852 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
8303808 TTTAATCTGC
8303818 ATTTTT CATTTTT A-TTTT ATTTTT ATTTTT ATTTT
1 ATTTTT -ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
8303853 ATGTTACCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:8303845 original size:17 final size:18
Alignment explanation
Indices: 8303818--8303854 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
8303808 TTTAATCTGC
8303818 ATTTTTCATTTTTATTTT
1 ATTTTTCATTTTTATTTT
8303836 ATTTTT-ATTTTTATTTT
1 ATTTTTCATTTTTATTTT
8303853 AT
1 AT
8303855 GTTACCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (18 bp):
ATTTTTCATTTTTATTTT
Found at i:8311428 original size:2 final size:2
Alignment explanation
Indices: 8311421--8311449 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8311411 CTTGGTTATT
8311421 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
8311450 TTTTACAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8311985 original size:2 final size:2
Alignment explanation
Indices: 8311978--8312017 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8311968 ATAACTGAGC
8311978 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8312018 TCTTTTTTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8313078 original size:23 final size:23
Alignment explanation
Indices: 8313035--8313078 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
8313025 TAATACTATT
*
8313035 TAATAATGGTAACAATGGTAAAA
1 TAATAATGGTAACAATAGTAAAA
*
8313058 TAATAAGTGG-AACATTAGTAA
1 TAATAA-TGGTAACAATAGTAA
8313079 TAACCAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.50, C:0.05, G:0.18, T:0.27
Consensus pattern (23 bp):
TAATAATGGTAACAATAGTAAAA
Found at i:8315076 original size:41 final size:39
Alignment explanation
Indices: 8315031--8315112 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
8315021 TAAAAAATAT
* * * *
8315031 TTATAATAGAAAACACTACTATAAATGTAATAAATGTTTTA
1 TTATAATAAAAAACAC-A-AATAAATATAATAAATATTTTA
*
8315072 TTATATTAAAAAACACAAATAAATATAATAAATATTTTA
1 TTATAATAAAAAACACAAATAAATATAATAAATATTTTA
8315111 TT
1 TT
8315113 GTATTACATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
39 21 0.58
40 1 0.03
41 14 0.39
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (39 bp):
TTATAATAAAAAACACAAATAAATATAATAAATATTTTA
Found at i:8326608 original size:64 final size:62
Alignment explanation
Indices: 8326483--8326622 Score: 147
Period size: 64 Copynumber: 2.2 Consensus size: 62
8326473 TTCAGGGCTT
* * *
8326483 GGGTTTGGGATTTAAAGTTTAGGGTTCGGGGTTCAAGATTCGGGTTTAGGGTTCAAAGGTTTAA
1 GGGTTTGAG-TTTAAAGTTTAGGGTTCGGAGTTCAAGATTCGGGTTCAGGGTTCAAAGGTTT-A
* * * * * *
8326547 GGGTTTGAGTTTAAAGTTTAAGGGTTCGGAGTT-ATGAGTTTGGGTTCAGTGTTTAAGGGTTTG
1 GGGTTTGAGTTTAAAGTTT-AGGGTTCGGAGTTCAAGA-TTCGGGTTCAGGGTTCAAAGGTTTA
*
8326610 GGGTTTGATTTTA
1 GGGTTTGAGTTTA
8326623 GGTTTTGGAT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
63 25 0.39
64 39 0.61
ACGTcount: A:0.20, C:0.04, G:0.36, T:0.40
Consensus pattern (62 bp):
GGGTTTGAGTTTAAAGTTTAGGGTTCGGAGTTCAAGATTCGGGTTCAGGGTTCAAAGGTTTA
Found at i:8331481 original size:2 final size:2
Alignment explanation
Indices: 8331439--8331472 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
8331429 TACATAAAAA
* *
8331439 AT AT AT AT AT AT AT AT AT AT AA AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8331473 GTGTATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:8331693 original size:18 final size:17
Alignment explanation
Indices: 8331670--8331711 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
8331660 AAACATAATG
8331670 ATATATAAAAA-TAATACT
1 ATATATAAAAAGT-ATA-T
8331688 ATATATAAAAAGTATAT
1 ATATATAAAAAGTATAT
8331705 ATATATA
1 ATATATA
8331712 CACGTATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.35
18 14 0.61
19 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
ATATATAAAAAGTATAT
Found at i:8331817 original size:28 final size:28
Alignment explanation
Indices: 8331782--8331845 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
8331772 TAATAACATG
* *
8331782 TACATAATACGGTATTTAAAAATATATA
1 TACATAATACAGTATTTAAAAAAATATA
* * *
8331810 TATATAATATAGTATTTAAAAAAATGTA
1 TACATAATACAGTATTTAAAAAAATATA
8331838 TACATAAT
1 TACATAAT
8331846 GTATATACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.38
Consensus pattern (28 bp):
TACATAATACAGTATTTAAAAAAATATA
Found at i:8332410 original size:21 final size:21
Alignment explanation
Indices: 8332386--8332425 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8332376 TATACTAATA
*
8332386 TTAATAACAAATATAATAAGG
1 TTAAAAACAAATATAATAAGG
* *
8332407 TTAAAAATAGATATAATAA
1 TTAAAAACAAATATAATAA
8332426 TAATATGTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (21 bp):
TTAAAAACAAATATAATAAGG
Found at i:8332653 original size:22 final size:21
Alignment explanation
Indices: 8332615--8332690 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 21
8332605 TACTAATAAT
8332615 AATAATAATAACGATAATGGTAA
1 AATAATAATAA--ATAATGGTAA
* *
8332638 ATATAATAATAAATAAT-ATTA
1 A-ATAATAATAAATAATGGTAA
*
8332659 AA-AATAATAAAAAATGGTAAA
1 AATAATAATAAATAATGGT-AA
8332680 AATAAT-ATAAA
1 AATAATAATAAA
8332691 AACTAAATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
19 12 0.27
20 2 0.05
21 11 0.25
22 8 0.18
23 1 0.02
24 10 0.23
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (21 bp):
AATAATAATAAATAATGGTAA
Found at i:8332692 original size:22 final size:22
Alignment explanation
Indices: 8332630--8332692 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
8332620 TAATAACGAT
*
8332630 AATGGTAAATATAATAATAAATAA
1 AATGGTAAAAATAAT-ATAAA-AA
*
8332654 TAT--TAAAAAT-A-AT-AAAA
1 AATGGTAAAAATAATATAAAAA
8332671 AATGGTAAAAATAATATAAAAA
1 AATGGTAAAAATAATATAAAAA
8332693 CTAAATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 12
0.67 0.07 0.26
Matches are distributed among these distances:
17 4 0.13
18 2 0.06
19 9 0.29
20 1 0.03
21 3 0.10
22 10 0.32
24 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (22 bp):
AATGGTAAAAATAATATAAAAA
Found at i:8333267 original size:25 final size:25
Alignment explanation
Indices: 8333239--8333292 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
8333229 TTCAAAACGG
*
8333239 TATAATTTTTTTTGTATTTTTAATA
1 TATAATTTTTTTTGTATTTATAATA
8333264 TATAATTTTTTTTGTATTTATAATA
1 TATAATTTTTTTTGTATTTATAATA
8333289 TATA
1 TATA
8333293 TAAGTTTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (25 bp):
TATAATTTTTTTTGTATTTATAATA
Found at i:8334479 original size:79 final size:80
Alignment explanation
Indices: 8334344--8334667 Score: 303
Period size: 79 Copynumber: 3.9 Consensus size: 80
8334334 ACAGAATTTG
* * * * * *
8334344 AAAAACAGAAACTGAAAATGCCTCAGCATGTCTCGAGGTTCAACTCACCTCTCGCAATATGAGCT
1 AAAAACAGGAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG-T
**
8334409 TGATTTTTTTAA-A-A
65 TGATTTTTGAAACATA
*
8334423 AAAAACAGGAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCCCGCAATATGAGTT
1 AAAAACAGGAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
8334488 GATTTTTGAAACATA
66 GATTTTTGAAACATA
* * * * *
8334503 AATTGAAAAATGGAAATTGAAAATACCTTAGCGTGTCCTGAGGCTCAACTCACCTTTCGCAATAC
1 AA---AAACA-GG-AATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
*
8334568 GAGTTGA-TTTTGACGAACAGA
61 GAGTTGATTTTTGA--AACATA
* * ** * *
8334589 AATTGAAAAATAGAGATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAGCTCACCTCTCTCAAT
1 AA---AAACA-GGA-ATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAAT
8334654 ATGAGTTGATTTTT
59 ATGAGTTGATTTTT
8334668 TTGATGAATA
Statistics
Matches: 207, Mismatches: 25, Indels: 16
0.83 0.10 0.06
Matches are distributed among these distances:
78 11 0.05
79 57 0.28
80 3 0.01
83 4 0.02
84 8 0.04
85 54 0.26
86 33 0.16
88 33 0.16
89 4 0.02
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (80 bp):
AAAAACAGGAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAACATA
Found at i:8334811 original size:152 final size:153
Alignment explanation
Indices: 8334530--8334837 Score: 537
Period size: 152 Copynumber: 2.0 Consensus size: 153
8334520 TGAAAATACC
*
8334530 TTAGCGTGTCCTGAGGCTCAACTCACCTTTCGCAATACGAGTTGATTTTGACGAACAGAAATTGA
1 TTAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATACGAGTTGATTTTGACGAACAGAAATTGA
* * *
8334595 AAAATAGAGATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAGCTCACCTCTCTCAATATGAGT
66 AAAACAGAGATTGAAAACACCTCAGCATGTGAGCCGAGGCTCAGCTCACCTCTCGCAATATGAGT
8334660 TGA-TTTTTTTGATGAATAGAAA
131 TGATTTTTTTTGATGAATAGAAA
* * *
8334682 TTAGTGTGTCCTGAGGCTCAACTCATCTATCGCAATATGAGTTGATTTTGACGAACAGAAATTGA
1 TTAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATACGAGTTGATTTTGACGAACAGAAATTGA
8334747 AAAACAGAGATTGAAAACACCTCAGCATGTGAGCCGAGGCTCAGCTCACCTCTCGCAATATGAGT
66 AAAACAGAGATTGAAAACACCTCAGCATGTGAGCCGAGGCTCAGCTCACCTCTCGCAATATGAGT
*
8334812 TGATTTTTTTTTATGAATAGAAA
131 TGATTTTTTTTGATGAATAGAAA
8334835 TTA
1 TTA
8334838 AAATTACCTC
Statistics
Matches: 147, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
152 126 0.86
153 21 0.14
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (153 bp):
TTAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATACGAGTTGATTTTGACGAACAGAAATTGA
AAAACAGAGATTGAAAACACCTCAGCATGTGAGCCGAGGCTCAGCTCACCTCTCGCAATATGAGT
TGATTTTTTTTGATGAATAGAAA
Found at i:8334910 original size:76 final size:76
Alignment explanation
Indices: 8334743--8334970 Score: 275
Period size: 76 Copynumber: 3.0 Consensus size: 76
8334733 CGAACAGAAA
* * * * *
8334743 TTGAAA-AACAGAGATTGAAAACACCTCAGCATGTGAGCC-GAGGCTCAGCTCACCTCTCGCAAT
1 TTGAAAGAACAGAAATTGAAAATACCTCA--ACGTG-TCCTGAGGCTCAACTCACCTCTCGCAAT
8334806 ATGAGTTGATTTTT
63 ATGAGTTGATTTTT
** * * *
8334820 TTTTATGAATAGAAATT-AAAATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAGAACAGAAATTGAAAA-TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
8334884 GAGTTGATTTTT
65 GAGTTGATTTTT
*
8334896 TTCGAAAG-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
1 TT-GAAAGAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
8334960 GAGTTAATTTT
65 GAGTTGATTTT
8334971 GACGAACAGA
Statistics
Matches: 129, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
75 2 0.02
76 100 0.78
77 13 0.10
78 14 0.11
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (76 bp):
TTGAAAGAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTT
Found at i:8337720 original size:26 final size:26
Alignment explanation
Indices: 8337667--8337729 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 26
8337657 TAATAACATG
**
8337667 TACATAATACGGTATTTAAAAATATA
1 TACATAATATAGTATTTAAAAATATA
*
8337693 TA-ATAATATAGTATTTAAAAAATGTA
1 TACATAATATAGTATTT-AAAAATATA
*
8337719 TACATAGTATA
1 TACATAATATA
8337730 TATACTAGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 12 0.39
26 12 0.39
27 7 0.23
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.37
Consensus pattern (26 bp):
TACATAATATAGTATTTAAAAATATA
Found at i:8338175 original size:26 final size:26
Alignment explanation
Indices: 8338146--8338253 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
8338136 TGATACAAAT
8338146 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
8338172 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
8338198 TGATAACGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
8338224 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
8338250 TGAT
1 TGAT
8338254 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:8341030 original size:38 final size:35
Alignment explanation
Indices: 8340949--8341035 Score: 84
Period size: 36 Copynumber: 2.3 Consensus size: 35
8340939 AAATAAAAAA
* * *
8340949 AATATATAAATAATATAGTATTAAAGATGTATACAT
1 AATATATAAA-AATACAATATTAAAGATATATACAT
* *
8340985 AACATATAAAAATACAATATTAAATGATATATATATGT
1 AATATATAAAAATACAATATTAAA-GATATATACA--T
8341023 AATATATATAAAA
1 AATATATA-AAAA
8341036 AATGTATACA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
35 12 0.29
36 17 0.41
38 8 0.20
39 4 0.10
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.34
Consensus pattern (35 bp):
AATATATAAAAATACAATATTAAAGATATATACAT
Found at i:8341062 original size:25 final size:24
Alignment explanation
Indices: 8341013--8341072 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 24
8341003 ATTAAATGAT
**
8341013 ATATATATGTAATATATATAAAAA
1 ATATATACATAATATATATAAAAA
* *
8341037 ATGTATACATAATATAATATTAAAA
1 ATATATACATAATAT-ATATAAAAA
*
8341062 ATATTTACATA
1 ATATATACATA
8341073 GTTATACATA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (24 bp):
ATATATACATAATATATATAAAAA
Found at i:8341350 original size:2 final size:2
Alignment explanation
Indices: 8341311--8341338 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8341301 TATTACATAA
8341311 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
8341339 TAAAGATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8341676 original size:3 final size:3
Alignment explanation
Indices: 8341580--8341657 Score: 52
Period size: 3 Copynumber: 26.0 Consensus size: 3
8341570 AAAATAATTC
* * * * **
8341580 TAA TAA TAG TAA AAA T-A TAC TAA TAA TAA TAA TAA TAA TGA TAA TGG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
8341627 TAA -ATA TAA TAA TAAA TAA TAT TAA AAA TAA
1 TAA TA-A TAA TAA T-AA TAA TAA TAA TAA TAA
8341658 AAAAATGGTA
Statistics
Matches: 55, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
2 3 0.05
3 48 0.87
4 4 0.07
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:8342233 original size:25 final size:25
Alignment explanation
Indices: 8342205--8342258 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
8342195 TTCAAAAAGG
* *
8342205 TATAATTTTTTTTGTATTTTTAATA
1 TATAAATTTTTTTGTATTTATAATA
8342230 TATAAATTTTTTTGTATTTATAATA
1 TATAAATTTTTTTGTATTTATAATA
8342255 TATA
1 TATA
8342259 TAAGTTTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (25 bp):
TATAAATTTTTTTGTATTTATAATA
Found at i:8347097 original size:43 final size:42
Alignment explanation
Indices: 8346976--8347121 Score: 150
Period size: 43 Copynumber: 3.4 Consensus size: 42
8346966 ACGAGACGTA
* * * * *
8346976 ATTATGTGTAAGACCATGTCTGAGAAATTGGAATCATATTTTG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCATA-TATG
8347019 ATTACGTGTAAGACCATGTCTGGGACA-TGGACATCATTATATG
1 ATTACGTGTAAGACCATGTCTGGGACATTGG-CATCA-TATATG
* * *
8347062 ATTTCGTGTAAGACCATGTCTGGGACATTAGCATCAATATGTG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATC-ATATATG
* * *
8347105 ATAACATGTAATACCAT
1 ATTACGTGTAAGACCAT
8347122 ATTTGGGTTA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
42 3 0.03
43 79 0.91
44 5 0.06
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (42 bp):
ATTACGTGTAAGACCATGTCTGGGACATTGGCATCATATATG
Found at i:8352893 original size:27 final size:27
Alignment explanation
Indices: 8352858--8352935 Score: 147
Period size: 27 Copynumber: 2.9 Consensus size: 27
8352848 GGTAAAACGT
*
8352858 TGCTAAAAACCAAAGCAATAGCGGTGC
1 TGCTAAAAACCAGAGCAATAGCGGTGC
8352885 TGCTAAAAACCAGAGCAATAGCGGTGC
1 TGCTAAAAACCAGAGCAATAGCGGTGC
8352912 TGCTAAAAACCAGAGCAATAGCGG
1 TGCTAAAAACCAGAGCAATAGCGG
8352936 CGTTTGTAGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.40, C:0.22, G:0.24, T:0.14
Consensus pattern (27 bp):
TGCTAAAAACCAGAGCAATAGCGGTGC
Found at i:8353033 original size:37 final size:38
Alignment explanation
Indices: 8352981--8353061 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 38
8352971 CCCCTAAAAT
*
8352981 CCTAAACCCCTAAAAATCATAAACACTAATCTATAACC
1 CCTAAACCCCTAAAAATCATAAACACTAAACTATAACC
* *
8353019 CCTAAA-CCCTAAAAATCCTAAACCCTAAACTATAACC
1 CCTAAACCCCTAAAAATCATAAACACTAAACTATAACC
8353056 CCTAAA
1 CCTAAA
8353062 ACCTTAAATC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 34 0.85
38 6 0.15
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (38 bp):
CCTAAACCCCTAAAAATCATAAACACTAAACTATAACC
Found at i:8353040 original size:16 final size:16
Alignment explanation
Indices: 8352972--8353047 Score: 64
Period size: 16 Copynumber: 4.4 Consensus size: 16
8352962 GTCATATAAC
8352972 CCCT-AAAATCCTAAA
1 CCCTAAAAATCCTAAA
*
8352987 CCCCTAAAAATCATAAA
1 -CCCTAAAAATCCTAAA
* *
8353004 CACTAATCTATAACCCCTAAA
1 CCCTAA---A-AA-TCCTAAA
8353025 CCCTAAAAATCCTAAA
1 CCCTAAAAATCCTAAA
8353041 CCCTAAA
1 CCCTAAA
8353048 CTATAACCCC
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
16 22 0.46
17 12 0.25
18 1 0.02
19 1 0.02
20 2 0.04
21 10 0.21
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (16 bp):
CCCTAAAAATCCTAAA
Found at i:8353581 original size:7 final size:7
Alignment explanation
Indices: 8353548--8353626 Score: 61
Period size: 7 Copynumber: 10.9 Consensus size: 7
8353538 AGGGGTAGAA
8353548 GTTTAGG
1 GTTTAGG
*
8353555 GTTTATG
1 GTTTAGG
* *
8353562 TTTTATG
1 GTTTAGG
*
8353569 GCTTAGG
1 GTTTAGG
8353576 GTTTAGGG
1 GTTTA-GG
* *
8353584 GTTAAGA
1 GTTTAGG
8353591 G-TTAGG
1 GTTTAGG
8353597 GATTTACGG
1 G-TTTA-GG
8353606 GTTATAGG
1 GTT-TAGG
8353614 GTTTAGG
1 GTTTAGG
8353621 GTTTAG
1 GTTTAG
8353627 AATTTAGGTG
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
6 4 0.07
7 32 0.56
8 16 0.28
9 5 0.09
ACGTcount: A:0.19, C:0.03, G:0.37, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:8354499 original size:3 final size:3
Alignment explanation
Indices: 8354491--8354546 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
8354481 CATTTTAGTA
8354491 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8354539 AAT AAT AA
1 AAT AAT AA
8354547 AAGAGAAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8357808 original size:13 final size:13
Alignment explanation
Indices: 8357790--8357822 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
8357780 TTTTAAAGTT
8357790 AAAATTTTAATAG
1 AAAATTTTAATAG
8357803 AAAA-TTTAATAG
1 AAAATTTTAATAG
8357815 AAAATTTT
1 AAAATTTT
8357823 TATATTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (13 bp):
AAAATTTTAATAG
Found at i:8364227 original size:25 final size:25
Alignment explanation
Indices: 8364176--8364242 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
8364166 GATTTGATAC
* *
8364176 AATTTAATACTTGAA-TTTTTTCCT
1 AATTTAGTACTTAAATTTTTTTCCT
*
8364200 AATTTAGTA-TCTAAATTTTTTTCTT
1 AATTTAGTACT-TAAATTTTTTTCCT
8364225 AATTTAGTACTTAAATTT
1 AATTTAGTACTTAAATTT
8364243 AGTACTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 1 0.03
24 11 0.30
25 24 0.65
26 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.04, T:0.55
Consensus pattern (25 bp):
AATTTAGTACTTAAATTTTTTTCCT
Found at i:8364243 original size:13 final size:13
Alignment explanation
Indices: 8364225--8364249 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8364215 TTTTTTTCTT
8364225 AATTTAGTACTTA
1 AATTTAGTACTTA
8364238 AATTTAGTACTT
1 AATTTAGTACTT
8364250 TTTTTTAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (13 bp):
AATTTAGTACTTA
Found at i:8367814 original size:15 final size:15
Alignment explanation
Indices: 8367794--8367843 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
8367784 CTTAACGAAC
*
8367794 ACAAACTAAACACGA
1 ACAAACTAAACATGA
* *
8367809 ACAAACTTAAAAATAA
1 ACAAAC-TAAACATGA
8367825 ACAAAC-AAACATGA
1 ACAAACTAAACATGA
8367839 ACAAA
1 ACAAA
8367844 GGTTTATTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 11 0.38
15 6 0.21
16 12 0.41
ACGTcount: A:0.66, C:0.20, G:0.04, T:0.10
Consensus pattern (15 bp):
ACAAACTAAACATGA
Found at i:8369256 original size:2 final size:2
Alignment explanation
Indices: 8369244--8369289 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
8369234 TTTATCTTAT
*
8369244 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8369286 TA TA
1 TA TA
8369290 AAACATATTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8370867 original size:137 final size:137
Alignment explanation
Indices: 8370621--8370868 Score: 336
Period size: 137 Copynumber: 1.8 Consensus size: 137
8370611 GATCATTCTT
* * *
8370621 ATCCAGAAAGTTAATCCACTATAGTTCAACCTCACTCTAAACAAGACCACTCTTGCTCAACAAGT
1 ATCCAAAAAGTTAATCCACTATACTTCAACCTCACTCTAAACAAGACCACTCTTGCTCAAAAAGT
8370686 CTCATATACTCTAAACAACATCACTCTTGCCCAAAAAGTTAATCCATTACACTTCAATTAAGATT
66 CTCATATACTCTAAACAACATCACTCTTGCCCAAAAAGTTAATCCATTACACTTCAATTAAGATT
8370751 TACTGTC
131 TACTGTC
* * * * * * * * *
8370758 ATCCAAAAAGTTAATTCATTGTACTTCAACTTCATTCTAAACACGATCGCTTTTGCTCAAAAAGT
1 ATCCAAAAAGTTAATCCACTATACTTCAACCTCACTCTAAACAAGACCACTCTTGCTCAAAAAGT
* ** *
8370823 CTCATATGCTCTAAACAGGATCACTCTTG-TCAAGAAAGTTAATCCA
66 CTCATATACTCTAAACAACATCACTCTTGCCCAA-AAAGTTAATCCA
8370869 CTATAGTTCA
Statistics
Matches: 94, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
136 3 0.03
137 91 0.97
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (137 bp):
ATCCAAAAAGTTAATCCACTATACTTCAACCTCACTCTAAACAAGACCACTCTTGCTCAAAAAGT
CTCATATACTCTAAACAACATCACTCTTGCCCAAAAAGTTAATCCATTACACTTCAATTAAGATT
TACTGTC
Done.