Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 121 of 325
Found at i:37731574 original size:48 final size:48
Alignment explanation
Indices: 37731495--37731624 Score: 206
Period size: 48 Copynumber: 2.7 Consensus size: 48
37731485 CATATTGATG
*
37731495 CCATGTCCCAGACATGGTCTTACATGAAATCACATATCGATGCCAACA
1 CCATGTCCCAGACATGGTCTTACATGGAATCACATATCGATGCCAACA
* * **
37731543 CCATATCCCAGATATGGTCTTACATGGAATCACATATCGATGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGAATCACATATCGATGCCAACA
*
37731591 CCATGTCCCAGACATGGTCTTACATGGGATCACA
1 CCATGTCCCAGACATGGTCTTACATGGAATCACA
37731625 CATACCCTAA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACATGGAATCACATATCGATGCCAACA
Found at i:37741488 original size:13 final size:14
Alignment explanation
Indices: 37741464--37741493 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
37741454 GGTTGTTTAT
37741464 TAAACTTAATTAAC
1 TAAACTTAATTAAC
37741478 TAAAC-TAATTAAC
1 TAAACTTAATTAAC
37741491 TAA
1 TAA
37741494 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAACTTAATTAAC
Found at i:37746250 original size:66 final size:68
Alignment explanation
Indices: 37746150--37746293 Score: 197
Period size: 66 Copynumber: 2.1 Consensus size: 68
37746140 ACCGTAGCGA
*
37746150 GGTTATGGCACTATAGGCATAAGACCATGGTTGGA-CTATGGCAGTGTATACATGTA-AGAACAT
1 GGTTATGGCACTATAGACATAAGACCATGGTTGGATC-ATGGCAGTGTATACATGTATA-AACAT
37746213 AACTG
64 AACTG
* * *
37746218 GGTTATGGCACTA-A-ACATAAGACCATGGTTGGATCATGGCAGTGTATATATGTATAACCATAG
1 GGTTATGGCACTATAGACATAAGACCATGGTTGGATCATGGCAGTGTATACATGTATAAACATAA
37746281 CTG
66 CTG
*
37746284 GGCTATGGCA
1 GGTTATGGCA
37746294 TTCTAATGAT
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
66 53 0.77
67 3 0.04
68 13 0.19
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (68 bp):
GGTTATGGCACTATAGACATAAGACCATGGTTGGATCATGGCAGTGTATACATGTATAAACATAA
CTG
Found at i:37746344 original size:33 final size:32
Alignment explanation
Indices: 37746196--37746431 Score: 107
Period size: 33 Copynumber: 7.1 Consensus size: 32
37746186 TATGGCAGTG
*
37746196 TATACATGTAAGAACATAACTGGGTTATGGCAC
1 TATA-ATGTAAGACCATAACTGGGTTATGGCAC
** *** * * *
37746229 TA-AACATAAGACCATGGTTGGATCATGGCAGTG
1 TATAATGTAAGACCATAACTGGGTTATGGCA--C
* * *
37746262 TATATATGTATA-ACCATAGCTGGGCTATGGCAT
1 TATA-ATGTA-AGACCATAACTGGGTTATGGCAC
* *
37746295 TCTAATGATAATACCATAACTGGGTTATGGCAC
1 TATAATG-TAAGACCATAACTGGGTTATGGCAC
* *** *** * *
37746328 TATAGACGTAAGACCATGGTTGGACCATGACAGTG
1 TATA-ATGTAAGACCATAACTGGGTTATGGCA--C
* *
37746363 TATACATGTAAGACCATAACTGGGCTATGGCAT
1 TATA-ATGTAAGACCATAACTGGGTTATGGCAC
* * *
37746396 TTTGATGATCAGACCATAACTGGGTTATGGCAC
1 TATAATG-TAAGACCATAACTGGGTTATGGCAC
37746429 TAT
1 TAT
37746432 GAACATAAAA
Statistics
Matches: 145, Mismatches: 47, Indels: 22
0.68 0.22 0.10
Matches are distributed among these distances:
31 19 0.13
32 8 0.06
33 72 0.50
34 3 0.02
35 42 0.29
36 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (32 bp):
TATAATGTAAGACCATAACTGGGTTATGGCAC
Found at i:37746349 original size:101 final size:100
Alignment explanation
Indices: 37746204--37746448 Score: 341
Period size: 101 Copynumber: 2.4 Consensus size: 100
37746194 TGTATACATG
* * * *
37746204 TAAGAACATAACTGGGTTATGGCACTA-AACATAAGACCATGGTTGGATCATGGCAGTGTATATA
1 TAAGACCATAACTGGGTTATGGCACTATAACATAAGACCATGGTTGGACCATGACAGTGTATACA
*
37746268 TGTATA-ACCATAGCTGGGCTATGGCATTCTAATGA
66 TGTA-AGACCATAACTGGGCTATGGCATTCTAATGA
* *
37746303 TAATACCATAACTGGGTTATGGCACTATAGACGTAAGACCATGGTTGGACCATGACAGTGTATAC
1 TAAGACCATAACTGGGTTATGGCACTATA-ACATAAGACCATGGTTGGACCATGACAGTGTATAC
* *
37746368 ATGTAAGACCATAACTGGGCTATGGCATTTTGATGA
65 ATGTAAGACCATAACTGGGCTATGGCATTCTAATGA
* * *
37746404 TCAGACCATAACTGGGTTATGGCACTATGAACATAAAAACATGGT
1 TAAGACCATAACTGGGTTATGGCACTAT-AACATAAGACCATGGT
37746449 AGGGCAATGG
Statistics
Matches: 128, Mismatches: 14, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
99 25 0.20
100 2 0.02
101 100 0.78
102 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.27
Consensus pattern (100 bp):
TAAGACCATAACTGGGTTATGGCACTATAACATAAGACCATGGTTGGACCATGACAGTGTATACA
TGTAAGACCATAACTGGGCTATGGCATTCTAATGA
Found at i:37754844 original size:12 final size:13
Alignment explanation
Indices: 37754827--37754859 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
37754817 ATAAATACCG
*
37754827 AAAATAAAC-TAT
1 AAAATAAACATAA
37754839 AAAATAAACATAA
1 AAAATAAACATAA
37754852 AAAATAAA
1 AAAATAAA
37754860 AACCAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAATAAACATAA
Found at i:37755754 original size:3 final size:3
Alignment explanation
Indices: 37755746--37755773 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
37755736 GGCAAGTTGG
37755746 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
37755774 TTTGCCACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:37757840 original size:13 final size:13
Alignment explanation
Indices: 37757822--37757846 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37757812 TAATATATTT
37757822 ATTAATTAAAAAC
1 ATTAATTAAAAAC
37757835 ATTAATTAAAAA
1 ATTAATTAAAAA
37757847 AATGCTTGAA
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:37758331 original size:41 final size:42
Alignment explanation
Indices: 37758261--37758436 Score: 169
Period size: 43 Copynumber: 4.2 Consensus size: 42
37758251 AAAAAATGCT
* *
37758261 GCTAAAGAACATGACCTTTAACGGTGCTTTCTCCACAAACGCC
1 GCTAAAGAACATGA-CTTTAGCGGCGCTTTCTCCACAAACGCC
** *
37758304 GCTAAAGGTCAT-TCTTTAGCGGCGCTTT-TCCCACAAACGCC
1 GCTAAAGAACATGACTTTAGCGGCGCTTTCT-CCACAAACGCC
* * *
37758345 GTTAAAGAACATGACTTTTAGTGGCGCTTTCCCCAC-AACGCC
1 GCTAAAGAACATGAC-TTTAGCGGCGCTTTCTCCACAAACGCC
* * * * * *
37758387 GCTAAAGAACATGACCTTCAGCGTCACTTTTTCCAAAAACACC
1 GCTAAAGAACATGA-CTTTAGCGGCGCTTTCTCCACAAACGCC
37758430 GCTAAAG
1 GCTAAAG
37758437 CTCATGAAAT
Statistics
Matches: 107, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
40 1 0.01
41 33 0.31
42 33 0.31
43 40 0.37
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (42 bp):
GCTAAAGAACATGACTTTAGCGGCGCTTTCTCCACAAACGCC
Found at i:37758393 original size:42 final size:42
Alignment explanation
Indices: 37758261--37758401 Score: 169
Period size: 41 Copynumber: 3.4 Consensus size: 42
37758251 AAAAAATGCT
* * *
37758261 GCTAAAGAACATGACCTTTAACGGTGCTTTCTCCACAAACGCC
1 GCTAAAGAACATGA-CTTTAGCGGCGCTTTCCCCACAAACGCC
** * *
37758304 GCTAAAGGTCAT-TCTTTAGCGGCGCTTTTCCCACAAACGCC
1 GCTAAAGAACATGACTTTAGCGGCGCTTTCCCCACAAACGCC
* *
37758345 GTTAAAGAACATGACTTTTAGTGGCGCTTTCCCCAC-AACGCC
1 GCTAAAGAACATGAC-TTTAGCGGCGCTTTCCCCACAAACGCC
37758387 GCTAAAGAACATGAC
1 GCTAAAGAACATGAC
37758402 CTTCAGCGTC
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
41 33 0.40
42 21 0.26
43 28 0.34
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (42 bp):
GCTAAAGAACATGACTTTAGCGGCGCTTTCCCCACAAACGCC
Found at i:37758568 original size:11 final size:11
Alignment explanation
Indices: 37758552--37758580 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
37758542 TATAAAAATT
37758552 TTCTATTAAAA
1 TTCTATTAAAA
37758563 TTCTATTAAAA
1 TTCTATTAAAA
37758574 TTC-ATTA
1 TTCTATTA
37758581 TCAAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (11 bp):
TTCTATTAAAA
Found at i:37760967 original size:16 final size:16
Alignment explanation
Indices: 37760946--37760980 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
37760936 CAAAAGATAG
* *
37760946 ATATAGGCATTCATAC
1 ATATAGGCAGTCACAC
37760962 ATATAGGCAGTCACAC
1 ATATAGGCAGTCACAC
37760978 ATA
1 ATA
37760981 AAATGAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (16 bp):
ATATAGGCAGTCACAC
Found at i:37763405 original size:18 final size:18
Alignment explanation
Indices: 37763372--37763427 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
37763362 TTCAGATGCC
*
37763372 TAGGGATTTGGGGGAAATT
1 TAGGGA-TTAGGGGAAATT
*
37763391 TAGGGATTAGGGGAAATG
1 TAGGGATTAGGGGAAATT
*
37763409 TAGAGAATTA-GGGAAATT
1 TAG-GGATTAGGGGAAATT
37763427 T
1 T
37763428 GTTTTGGGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 21 0.66
19 11 0.34
ACGTcount: A:0.34, C:0.00, G:0.38, T:0.29
Consensus pattern (18 bp):
TAGGGATTAGGGGAAATT
Found at i:37763469 original size:44 final size:44
Alignment explanation
Indices: 37763419--37763502 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
37763409 TAGAGAATTA
* *
37763419 GGGAAATTTGTTTTGGGGTTTT-GGCCAAAATGGCTAAGTGGTTG
1 GGGAAATCTATTTTGGGGTTTTAGG-CAAAATGGCTAAGTGGTTG
**
37763463 GGGAAATCTATTTTGGGGTTTTAGGGGAAATGGCTAAGTG
1 GGGAAATCTATTTTGGGGTTTTAGGCAAAATGGCTAAGTG
37763503 TCGGGCATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
44 33 0.94
45 2 0.06
ACGTcount: A:0.23, C:0.06, G:0.37, T:0.35
Consensus pattern (44 bp):
GGGAAATCTATTTTGGGGTTTTAGGCAAAATGGCTAAGTGGTTG
Found at i:37763896 original size:7 final size:7
Alignment explanation
Indices: 37763884--37763947 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
37763874 AACACATGTC
37763884 CCCTTAA
1 CCCTTAA
37763891 CCCTTAAA
1 CCCTT-AA
* *
37763899 CCATTGA
1 CCCTTAA
*
37763906 CCATTAA
1 CCCTTAA
*
37763913 CCCCTAA
1 CCCTTAA
*
37763920 CCCCTAA
1 CCCTTAA
37763927 CCCTTAA
1 CCCTTAA
*
37763934 ACCTTAA
1 CCCTTAA
*
37763941 ACCTTAA
1 CCCTTAA
37763948 GCCCCAACCT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
7 43 0.88
8 6 0.12
ACGTcount: A:0.34, C:0.39, G:0.02, T:0.25
Consensus pattern (7 bp):
CCCTTAA
Found at i:37763945 original size:14 final size:14
Alignment explanation
Indices: 37763928--37764005 Score: 50
Period size: 14 Copynumber: 5.5 Consensus size: 14
37763918 AACCCCTAAC
*
37763928 CCTTAAACCTTAAA
1 CCTTAAACCATAAA
* **
37763942 CCTTAAGCC-CCAA
1 CCTTAAACCATAAA
37763955 CCTTTAAACCATAAA
1 CC-TTAAACCATAAA
* * *
37763970 CCATAACCCCTAAA
1 CCTTAAACCATAAA
* *
37763984 CCCATAATCCATAAA
1 -CCTTAAACCATAAA
37763999 CCTTAAA
1 CCTTAAA
37764006 ATATTAACTC
Statistics
Matches: 48, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
13 4 0.08
14 28 0.58
15 16 0.33
ACGTcount: A:0.42, C:0.35, G:0.01, T:0.22
Consensus pattern (14 bp):
CCTTAAACCATAAA
Found at i:37763971 original size:7 final size:7
Alignment explanation
Indices: 37763959--37764029 Score: 52
Period size: 7 Copynumber: 9.9 Consensus size: 7
37763949 CCCCAACCTT
37763959 TAAACCA
1 TAAACCA
37763966 TAAACCA
1 TAAACCA
* *
37763973 TAACCCC
1 TAAACCA
37763980 TAAACCCA
1 TAAA-CCA
*
37763988 TAATCCA
1 TAAACCA
*
37763995 TAAACCT
1 TAAACCA
**
37764002 TAAAATA
1 TAAACCA
*
37764009 TTAACTCA
1 TAAAC-CA
*
37764017 TAAACTA
1 TAAACCA
37764024 TAAACC
1 TAAACC
37764030 CCTAACCCCT
Statistics
Matches: 46, Mismatches: 16, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
7 36 0.78
8 10 0.22
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACCA
Found at i:37763988 original size:15 final size:15
Alignment explanation
Indices: 37763963--37764000 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
37763953 AACCTTTAAA
37763963 CCATAAA-CCATAAC
1 CCATAAACCCATAAC
* *
37763977 CCCTAAACCCATAAT
1 CCATAAACCCATAAC
37763992 CCATAAACC
1 CCATAAACC
37764001 TTAAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (15 bp):
CCATAAACCCATAAC
Found at i:37764005 original size:22 final size:21
Alignment explanation
Indices: 37763931--37764005 Score: 62
Period size: 22 Copynumber: 3.5 Consensus size: 21
37763921 CCCTAACCCT
* *
37763931 TAAACCTTAAACCTTAAGCC-
1 TAAACCTTAAACCATAAACCA
**
37763951 CCAACCTTTAAACCATAAACCA
1 TAAACC-TTAAACCATAAACCA
* * *
37763973 TAACCCCTAAACCCATAATCCA
1 TAAACCTTAAA-CCATAAACCA
37763995 TAAACCTTAAA
1 TAAACCTTAAA
37764006 ATATTAACTC
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
20 4 0.10
21 16 0.39
22 21 0.51
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.21
Consensus pattern (21 bp):
TAAACCTTAAACCATAAACCA
Found at i:37764036 original size:7 final size:7
Alignment explanation
Indices: 37764026--37764098 Score: 74
Period size: 7 Copynumber: 10.3 Consensus size: 7
37764016 ATAAACTATA
37764026 AACCCCT
1 AACCCCT
37764033 AACCCCT
1 AACCCCT
*
37764040 ATCCCCTT
1 AACCCC-T
*
37764048 AACCCTT
1 AACCCCT
*
37764055 AACCCTT
1 AACCCCT
37764062 AACCCCT
1 AACCCCT
*
37764069 AACCACT
1 AACCCCT
*
37764076 AACCACT
1 AACCCCT
*
37764083 AACCACT
1 AACCCCT
*
37764090 AACCTCT
1 AACCCCT
37764097 AA
1 AA
37764099 ATCTTAAACC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
7 54 0.92
8 5 0.08
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.21
Consensus pattern (7 bp):
AACCCCT
Found at i:37764071 original size:21 final size:21
Alignment explanation
Indices: 37764026--37764119 Score: 68
Period size: 21 Copynumber: 4.4 Consensus size: 21
37764016 ATAAACTATA
* * *
37764026 AACCCCTAACCCCTATCCCCTT
1 AACCCTTAACCCTTAACCCC-T
37764048 AACCCTTAACCCTTAACCCCT
1 AACCCTTAACCCTTAACCCCT
*
37764069 AACCAC-TAACCAC-TAACCACT
1 AACC-CTTAACC-CTTAACCCCT
** *
37764090 AA-CCTCTAAATCTTAAACCCT
1 AACCCT-TAACCCTTAACCCCT
37764111 AACCCTTAA
1 AACCCTTAA
37764120 ACACTAAACT
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
19 1 0.02
20 2 0.03
21 33 0.57
22 22 0.38
ACGTcount: A:0.34, C:0.44, G:0.00, T:0.22
Consensus pattern (21 bp):
AACCCTTAACCCTTAACCCCT
Found at i:37764112 original size:14 final size:15
Alignment explanation
Indices: 37764090--37764149 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 15
37764080 ACTAACCACT
* *
37764090 AACCTCTAAATCTTA
1 AACCACTAAACCTTA
*
37764105 AACC-CTAACCCTTA
1 AACCACTAAACCTTA
*
37764119 AA-CACTAAA-CTCA
1 AACCACTAAACCTTA
37764132 TAACCACTAAACCTTA
1 -AACCACTAAACCTTA
37764148 AA
1 AA
37764150 ATATTAACTC
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
13 4 0.11
14 16 0.44
15 13 0.36
16 3 0.08
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (15 bp):
AACCACTAAACCTTA
Found at i:37764147 original size:29 final size:30
Alignment explanation
Indices: 37764103--37764179 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 30
37764093 CTCTAAATCT
*
37764103 TAAACC-CTAACCCTTAAACACTA-AACTCA
1 TAAACCACTAAACCTTAAACA-TATAACTCA
37764132 T-AACCACTAAACCTTAAA-ATATTAACTCA
1 TAAACCACTAAACCTTAAACATA-TAACTCA
*
37764161 TAAACCA-TAAACCCTAAAC
1 TAAACCACTAAACCTTAAAC
37764180 CATAATGATA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
27 2 0.05
28 5 0.12
29 29 0.71
30 5 0.12
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (30 bp):
TAAACCACTAAACCTTAAACATATAACTCA
Found at i:37764149 original size:22 final size:20
Alignment explanation
Indices: 37764083--37764149 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 20
37764073 ACTAACCACT
*
37764083 AACCACTAACCTCTAAATCTTA
1 AACCA-TAACC-CTAAACCTTA
*
37764105 AACCCTAACCCTTAAACAC-TA
1 AACCATAACCC-TAAAC-CTTA
37764126 AACTCATAACCACTAAACCTTA
1 AAC-CATAACC-CTAAACCTTA
37764148 AA
1 AA
37764150 ATATTAACTC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
20 1 0.03
21 15 0.41
22 20 0.54
23 1 0.03
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (20 bp):
AACCATAACCCTAAACCTTA
Found at i:37764548 original size:40 final size:39
Alignment explanation
Indices: 37764488--37764633 Score: 150
Period size: 40 Copynumber: 3.7 Consensus size: 39
37764478 TGTTTTTTAC
** *
37764488 GGCTTTTTTAAAAAATGCCGCTAATGCTCAATCTATAGCG
1 GGCTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAG-G
*
37764528 GCGCTTTTTTAAAAA-CGCCGCTAATGCTCGATCTATAGT
1 G-GCTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGG
** * * * *
37764567 GGAGTTTTTAAAAAGTGCTGCTAATTCTCGATCTGTAGG
1 GGCTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGG
* *
37764606 GGCATTTTTAAAAAAGCGTCGCTAATGC
1 GGC-TTTTTTAAAAAGCGCCGCTAATGC
37764634 CACTAAGGCT
Statistics
Matches: 86, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
38 11 0.13
39 22 0.26
40 40 0.47
41 13 0.15
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (39 bp):
GGCTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGG
Found at i:37764746 original size:40 final size:40
Alignment explanation
Indices: 37764697--37764793 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 40
37764687 TTCCAAAAAT
* * *
37764697 GCCGTTAATGCTAGA-CATATAGCGGCGCTTTTACCAAAGC
1 GCCGCTAATGCTAGATC-TATAGCGGCACTTTTACAAAAGC
* * **
37764737 GCCGCTAATGCTCGATCTATAGCGGCATTTTTGGAAAAGC
1 GCCGCTAATGCTAGATCTATAGCGGCACTTTTACAAAAGC
*
37764777 GCCGCTAATGCTTGATC
1 GCCGCTAATGCTAGATC
37764794 CATAACGGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 47 0.98
41 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
GCCGCTAATGCTAGATCTATAGCGGCACTTTTACAAAAGC
Found at i:37764807 original size:40 final size:40
Alignment explanation
Indices: 37764732--37764808 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
37764722 CGCTTTTACC
* *
37764732 AAAGCGCCGCTAATGCTCGATCTATAGCGGCATTTTTGGA
1 AAAGCGCCGCTAATGCTCGATCCATAACGGCATTTTTGGA
* *
37764772 AAAGCGCCGCTAATGCTTGATCCATAACGGTATTTTT
1 AAAGCGCCGCTAATGCTCGATCCATAACGGCATTTTT
37764809 TATTCAAACG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (40 bp):
AAAGCGCCGCTAATGCTCGATCCATAACGGCATTTTTGGA
Found at i:37766124 original size:3 final size:3
Alignment explanation
Indices: 37766097--37766135 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
37766087 GATGATAATG
* * *
37766097 TAA TAA AAA TAA TAC TAA TAC TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
37766136 CGAATAACCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:37766233 original size:11 final size:10
Alignment explanation
Indices: 37766217--37766279 Score: 58
Period size: 11 Copynumber: 6.1 Consensus size: 10
37766207 TAATGAGGAC
37766217 AAAAATAAAAT
1 AAAAAT-AAAT
37766228 AAAAATAAAT
1 AAAAATAAAT
37766238 -AAAAT-AAT
1 AAAAATAAAT
**
37766246 AAAAAGGAAT
1 AAAAATAAAT
37766256 AATAAATGAAAT
1 AA-AAAT-AAAT
37766268 AACAAATAAAT
1 AA-AAATAAAT
37766279 A
1 A
37766280 TCAGTAAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
8 3 0.07
9 9 0.20
10 9 0.20
11 14 0.32
12 9 0.20
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.19
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:37766362 original size:3 final size:3
Alignment explanation
Indices: 37766354--37766384 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
37766344 TAAAATGGTT
*
37766354 TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
37766385 TGAAGTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:37767988 original size:3 final size:3
Alignment explanation
Indices: 37767961--37768002 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
37767951 GATGATAATG
* * *
37767961 TAA TAA AAA TAA TAC TAA TAC TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
37768003 CGAATAACCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:37768100 original size:11 final size:10
Alignment explanation
Indices: 37768084--37768146 Score: 58
Period size: 11 Copynumber: 6.1 Consensus size: 10
37768074 TAATGAGGAC
37768084 AAAAATAAAAT
1 AAAAAT-AAAT
37768095 AAAAATAAAT
1 AAAAATAAAT
37768105 -AAAAT-AAT
1 AAAAATAAAT
**
37768113 AAAAAGGAAT
1 AAAAATAAAT
37768123 AATAAATGAAAT
1 AA-AAAT-AAAT
37768135 AACAAATAAAT
1 AA-AAATAAAT
37768146 A
1 A
37768147 TCAGTAAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
8 3 0.07
9 9 0.20
10 9 0.20
11 14 0.32
12 9 0.20
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.19
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:37770687 original size:20 final size:20
Alignment explanation
Indices: 37770659--37770699 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
37770649 GCACCATGTC
37770659 ATTGATGACATGGCAAGTTG
1 ATTGATGACATGGCAAGTTG
* *
37770679 ATTGGTGACATGGCATGTTG
1 ATTGATGACATGGCAAGTTG
37770699 A
1 A
37770700 CCATGCATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.10, G:0.32, T:0.32
Consensus pattern (20 bp):
ATTGATGACATGGCAAGTTG
Found at i:37773474 original size:27 final size:27
Alignment explanation
Indices: 37773426--37773584 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
37773416 GCGAGGCTGC
* *
37773426 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
37773453 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
37773479 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
37773506 CAGACAATTGTGGCATAGCCACCAG-GA
1 CAGA-TATTGTGGCAGAGCCACCAGATA
*
37773533 CAGATATATGTGGCAGAGCCACCAAAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
37773560 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
37773585 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 98 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:37773585 original size:54 final size:54
Alignment explanation
Indices: 37773444--37773587 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
37773434 GTGACGAAGT
* *
37773444 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
37773498 CACCAGATCAGACAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
37773552 CACCAAATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
37773588 GCTTCCTCCA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 4 0.05
54 80 0.95
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:37775212 original size:26 final size:26
Alignment explanation
Indices: 37775182--37775237 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
37775172 AGAAATGCCC
37775182 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
37775208 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
37775234 ATCA
1 ATCA
37775238 ATTTTATCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:37776016 original size:19 final size:17
Alignment explanation
Indices: 37775984--37776018 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
37775974 TTAGTGTGAG
37775984 GGTTTTTTAGGGTTTAT
1 GGTTTTTTAGGGTTTAT
37776001 GGTTTTTGTAAGGGTTTA
1 GGTTTTT-T-AGGGTTTA
37776019 GTTAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.14, C:0.00, G:0.31, T:0.54
Consensus pattern (17 bp):
GGTTTTTTAGGGTTTAT
Found at i:37776080 original size:16 final size:17
Alignment explanation
Indices: 37776041--37776081 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
37776031 AGGGTGTAAG
37776041 ATTAATTAATTAAATTAA
1 ATTAATTAATTAAA-TAA
37776059 A-T-ATTAATTAAA-AA
1 ATTAATTAATTAAATAA
37776073 ATTAATTAA
1 ATTAATTAA
37776082 ATTTGGGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.14
15 1 0.05
16 15 0.71
17 1 0.05
18 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAATTAATTAAATAA
Found at i:37776330 original size:126 final size:125
Alignment explanation
Indices: 37776187--37776572 Score: 481
Period size: 126 Copynumber: 3.1 Consensus size: 125
37776177 TTTTGGTTTT
* * * * *
37776187 TTTTTCT-TCAGTAGTATCTGGAAAAAA-AATTTTAAGAAGAAGTTTCTGAAGAAATAGTATCCA
1 TTTTTCTAT-AGTGGTATCT-GAAAAAATAATTTTGAGAAGACGTTTCTGAA-AAATAGTGTCAA
* * * * *
37776250 AAACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAATGCTCTCATGTGGACGCTT
63 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCACACGTGGACGCTC
*
37776313 TTTTTCTATAGTGGTATCT-AAGAAAATAATTTTGAGAAGACGTTTCTGGAAAAATAGTGTAAAA
1 TTTTTCTATAGTGGTATCTGAA-AAAATAATTTTGAGAAGACGTTTCT-GAAAAATAGTGTCAAA
* * * *
37776377 AACGCTTTAAGCAGGATGCACTGTCAGGAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTC
64 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCACACGTGGACGCTC
** * * * *
37776439 TTTTGATATAGTGGTATCTGAAAAAATAATTGTGAGATGACCTTTTTGAACAAATAGTGTCAAAA
1 TTTTTCTATAGTGGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAA-AAATAGTGTCAAAA
* * *
37776504 ACGCTTCATGCAGTATGCACTTTCAGCAAAATTACTGAAAAAAGCTCACACGTGGACGCTC
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCACACGTGGACGCTC
37776565 TTTTTCTA
1 TTTTTCTA
37776573 CAGTAGTTCC
Statistics
Matches: 224, Mismatches: 30, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
124 2 0.01
125 7 0.03
126 209 0.93
127 6 0.03
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.30
Consensus pattern (125 bp):
TTTTTCTATAGTGGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAAAAATAGTGTCAAAAA
CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCACACGTGGACGCTC
Found at i:37779639 original size:56 final size:56
Alignment explanation
Indices: 37779548--37779680 Score: 230
Period size: 56 Copynumber: 2.4 Consensus size: 56
37779538 TTCCTTATTC
*
37779548 AAAACAACTTTTATTCTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
1 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
* * *
37779604 AAAATAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAGATATTA
1 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
37779660 AAAACAACTTTTATTTTATTA
1 AAAACAACTTTTATTTTATTA
37779681 AATGAAAGAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 72 1.00
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (56 bp):
AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
Found at i:37780103 original size:18 final size:18
Alignment explanation
Indices: 37780077--37780118 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
37780067 GACTAGAAAA
* *
37780077 AGGAAATATATAAGGGTT
1 AGGATATATATAAGGGCT
37780095 AGGATATATATAAGGGCT
1 AGGATATATATAAGGGCT
37780113 AGGATA
1 AGGATA
37780119 CGCACTTGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.29, T:0.26
Consensus pattern (18 bp):
AGGATATATATAAGGGCT
Found at i:37780745 original size:7 final size:7
Alignment explanation
Indices: 37780735--37780771 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
37780725 TTGTATACAT
37780735 AATACTA
1 AATACTA
37780742 AATACTA
1 AATACTA
37780749 AATACTA
1 AATACTA
*
37780756 AATATTA
1 AATACTA
37780763 AATACTA
1 AATACTA
37780770 AA
1 AA
37780772 CACGAAACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (7 bp):
AATACTA
Found at i:37781810 original size:48 final size:49
Alignment explanation
Indices: 37781719--37781817 Score: 146
Period size: 48 Copynumber: 2.0 Consensus size: 49
37781709 ATAAAATTAA
**
37781719 AATTAAAATTGCATAAATGAAAAAAAATATTAAATTGTATTGAAAAATT
1 AATTAAAATTGCATAAATGAAAAAAAATATTAAATACTATTGAAAAATT
* * *
37781768 AATTAAAATTGCATAAAT-TAAAAAGATATTAAATACTATTGAAATATT
1 AATTAAAATTGCATAAATGAAAAAAAATATTAAATACTATTGAAAAATT
37781816 AA
1 AA
37781818 AATTATCACT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 27 0.60
49 18 0.40
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (49 bp):
AATTAAAATTGCATAAATGAAAAAAAATATTAAATACTATTGAAAAATT
Found at i:37790240 original size:206 final size:206
Alignment explanation
Indices: 37789691--37790247 Score: 907
Period size: 207 Copynumber: 2.7 Consensus size: 206
37789681 GCAGATCTGG
*
37789691 CTGAAGCAAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
37789756 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGTTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * **
37789821 AGAACAAATCAAAGTTTGGCGTCTCCATATTCGACAGAGAGCAGACACATAGCAGATCTGGCCTT
130 AGAACAAATCGAAGTTTGGCATCTCCATATTCGACAGAGAGCAGACACATAGCAGATCTAACCTT
* *
37789886 CAGATGTTTATA
195 CAGATGATTAGA
* *
37789898 CTGAAGTAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAG-CAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
37789963 GATTTGGTTTTCACGTGCTTACGATGAAGAAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGTTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* *
37790028 AGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTT
130 AGAACAAATCGAAGTTTGGCATCTCCATATTCGACAGAGAGCAGACACATAGCAGATCTAACCTT
37790093 CAGATGATTAGA
195 CAGATGATTAGA
* *
37790105 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
** ** * *
37790170 ATTTGGTTTTTGCGTGCTTACCCTGAAGCAAATCTAAGATAATTTGGCATCTCTGTATTGTCAAA
66 ATTTGGTTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
37790235 GAACAAATCGAAG
131 GAACAAATCGAAG
37790248 AAGCAGATTT
Statistics
Matches: 325, Mismatches: 24, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
206 126 0.39
207 199 0.61
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGTTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTTTGGCATCTCCATATTCGACAGAGAGCAGACACATAGCAGATCTAACCTTC
AGATGATTAGA
Found at i:37794496 original size:87 final size:87
Alignment explanation
Indices: 37794342--37794832 Score: 829
Period size: 87 Copynumber: 5.6 Consensus size: 87
37794332 CAGCCTGTTA
* * * *
37794342 CCCTACTACTTAGAGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGTTTAGGGGGTTAAG
1 CCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
37794407 GCCCTTCGTCTTCGATCTCTTT
66 GCCCTTCGTCTTCGATCTCTTT
* * * *
37794429 CCCTGCTGCTTAGGGCGTTAAGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
1 CCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
*
37794494 GCCCTTCGTCTTCGATCTGTTT
66 GCCCTTCGTCTTCGATCTCTTT
* *
37794516 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCATGTTACCCTACTGCTTAGGGGGTTAAG
1 CCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
*
37794581 GCCCTTCGTCTTCGATCTATTT
66 GCCCTTCGTCTTCGATCTCTTT
*
37794603 CCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGCTTAAG
1 CCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
* *
37794668 GCCCTTTGTCTTCGATCTGTTT
66 GCCCTTCGTCTTCGATCTCTTT
* *
37794690 CCCTACTGCTTAGGGAGCTAAAATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
1 CCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
37794755 GCCCTTCGTCTTCGATCTCTTT
66 GCCCTTCGTCTTCGATCTCTTT
37794777 CCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG
1 CCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG
37794833 AGGGCTGTTA
Statistics
Matches: 380, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 380 1.00
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (87 bp):
CCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
GCCCTTCGTCTTCGATCTCTTT
Found at i:37794806 original size:261 final size:268
Alignment explanation
Indices: 37794342--37794972 Score: 900
Period size: 261 Copynumber: 2.3 Consensus size: 268
37794332 CAGCCTGTTA
* * *
37794342 CCCTACTACTTAGAGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGTTTAGGGGGTTAAG
1 CCCTACTACTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTA-GGGGTTAAG
* * * * *
37794407 GCCCTTCGTCTTCGATCTCTTTCCCTGCTGCTTAGGGCGTTAAGATCTATAAATTCAGCCTGTTA
65 GCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGCTAAAATCTATAAATTCAGCCTGTTA
* *
37794472 CCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAA
130 CCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATCTCTTTCCCTACTGCTTAGGGGGCTAA
*
37794537 GATCTGTAAATTCA-G-C-A-TG-TT-A-C-CCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTC
195 GATCTGTAAATTCACGCCTACTGCTTAAGCTCCTACTGCTTAGGGGGTTAAGGCCCTTCATCTTC
37794594 GATCTATTT
260 GATCTATTT
*
37794603 CCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGCTTAAG
1 CCCTACTACTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG-TTAAG
* *
37794668 GCCCTTTGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGCTAAAATCTGTAAATTCAGCCTGTTA
65 GCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGCTAAAATCTATAAATTCAGCCTGTTA
37794733 CCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATCTCTTTCCCTACTGCTTAGGGGGCTAA
130 CCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATCTCTTTCCCTACTGCTTAGGGGGCTAA
37794798 GATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGAGGGCTGTTACCCTACTGCTTAGGGGGTTA
195 GATCTGTAAATTCA--C-G----CCTACTGCTTA-A--GC---T--CCTACTGCTTAGGGGGTTA
*
37794863 AGGCCCTTCATCTTCGATCTCTTT
245 AGGCCCTTCATCTTCGATCTATTT
*
37794887 CCCTACTACTTAGGGGGCTAAGATCTGTATATTCAGCCTGTTACCCTACTGCTTAAGGGGTTAAG
1 CCCTACTACTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTT-AGGGGTTAAG
37794952 GCCCTTCGTCTTCGATCTGTT
65 GCCCTTCGTCTTCGATCTGTT
37794973 ACACCATTCT
Statistics
Matches: 327, Mismatches: 18, Indels: 27
0.88 0.05 0.07
Matches are distributed among these distances:
260 4 0.01
261 191 0.58
265 1 0.00
270 1 0.00
271 1 0.00
272 2 0.01
273 2 0.01
275 1 0.00
278 1 0.00
284 118 0.36
285 5 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (268 bp):
CCCTACTACTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGG
CCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGCTAAAATCTATAAATTCAGCCTGTTAC
CCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATCTCTTTCCCTACTGCTTAGGGGGCTAAG
ATCTGTAAATTCACGCCTACTGCTTAAGCTCCTACTGCTTAGGGGGTTAAGGCCCTTCATCTTCG
ATCTATTT
Found at i:37794921 original size:110 final size:109
Alignment explanation
Indices: 37794727--37794945 Score: 402
Period size: 110 Copynumber: 2.0 Consensus size: 109
37794717 TAAATTCAGC
* *
37794727 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATCTCTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCATCTTCGATCTCTTTCCCTACTACTTAGGG
37794792 GGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGAGGG
66 GGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTA-AGGG
37794837 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCATCTTCGATCTCTTTCCCTACTACTTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCATCTTCGATCTCTTTCCCTACTACTTAGGG
*
37794902 GGCTAAGATCTGTATATTCAGCCTGTTACCCTACTGCTTAAGGG
66 GGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGG
37794946 GTTAAGGCCC
Statistics
Matches: 106, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
109 4 0.04
110 102 0.96
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.33
Consensus pattern (109 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCATCTTCGATCTCTTTCCCTACTACTTAGGG
GGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGG
Found at i:37794972 original size:44 final size:44
Alignment explanation
Indices: 37794837--37794974 Score: 147
Period size: 44 Copynumber: 3.2 Consensus size: 44
37794827 GCTTAGAGGG
37794837 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCATCTTCGAT
* * * * ** * *
37794881 CTCTTTCCCTACTACTTAGGGGGCTAA-GATCTGT-ATATTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCT-TCATCTTCGA-T
* *
37794924 CTGTTACCCTACTGCTTAAGGGGTTAAGGCCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCATCTTCGAT
37794968 CTGTTAC
1 CTGTTAC
37794975 ACCATTCTTT
Statistics
Matches: 71, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
42 1 0.01
43 31 0.44
44 38 0.54
45 1 0.01
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCATCTTCGAT
Found at i:37795704 original size:14 final size:14
Alignment explanation
Indices: 37795685--37795713 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
37795675 TGTTAATTCA
37795685 GAGAAGACAAAACT
1 GAGAAGACAAAACT
37795699 GAGAAGACAAAACT
1 GAGAAGACAAAACT
37795713 G
1 G
37795714 CCGCATGCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.14, G:0.24, T:0.07
Consensus pattern (14 bp):
GAGAAGACAAAACT
Found at i:37803057 original size:19 final size:20
Alignment explanation
Indices: 37803033--37803075 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
37803023 GGTCTTTTCG
* *
37803033 TGAAATTTAATGCACATG-A
1 TGAAATGTAATGCAAATGAA
37803052 TGAAATGTAATGCAAATGAA
1 TGAAATGTAATGCAAATGAA
37803072 TGAA
1 TGAA
37803076 TGCAAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.28
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGAA
Found at i:37809618 original size:5 final size:5
Alignment explanation
Indices: 37809610--37809661 Score: 54
Period size: 5 Copynumber: 10.4 Consensus size: 5
37809600 AAATTACACA
* *
37809610 TATAT TATA- TATTT TATAT TATTAT T-TACT TATAT TTTAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TA-TAT TATA-T TATAT TATAT TATAT TATAT
37809660 TA
1 TA
37809662 CTTCATATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 5 0.13
5 28 0.72
6 6 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (5 bp):
TATAT
Found at i:37809647 original size:23 final size:24
Alignment explanation
Indices: 37809610--37809734 Score: 86
Period size: 24 Copynumber: 5.2 Consensus size: 24
37809600 AAATTACACA
37809610 TATATTA--TATATTTTA-TATTAT
1 TATATTACTTATATTTTATTA-TAT
37809632 TAT-TTACTTATATTTTATTATAT
1 TATATTACTTATATTTTATTATAT
37809655 TATATTACTTCATATTTT-TCTATTAT
1 TATATTACTT-ATATTTTAT-TA-TAT
* * **
37809681 CATATTA-ATATATATTTAACATA-
1 TATATTACTTATAT-TTTATTATAT
*
37809704 TATCATTATTTAT-TATTTATTATAT
1 TAT-ATTACTTATAT-TTTATTATAT
37809729 TATATT
1 TATATT
37809735 TTTTATCACA
Statistics
Matches: 83, Mismatches: 8, Indels: 22
0.73 0.07 0.19
Matches are distributed among these distances:
21 3 0.04
22 3 0.04
23 17 0.20
24 31 0.37
25 20 0.24
26 9 0.11
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (24 bp):
TATATTACTTATATTTTATTATAT
Found at i:37809845 original size:31 final size:32
Alignment explanation
Indices: 37809791--37809868 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 32
37809781 CATTTTAACA
37809791 ATATATTATTTCATATTATTATTA-TC-CATT
1 ATATATTATTTCATATTATTATTATTCACATT
* *
37809821 ATATATTTTTTCATGTATATTATTATTCACATT
1 ATATATTATTTCATAT-TATTATTATTCACATT
37809854 AT-T-TT-TTTCATATTA
1 ATATATTATTTCATATTA
37809869 AATTGATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
29 2 0.05
30 21 0.50
31 10 0.24
32 3 0.07
33 6 0.14
ACGTcount: A:0.31, C:0.09, G:0.01, T:0.59
Consensus pattern (32 bp):
ATATATTATTTCATATTATTATTATTCACATT
Found at i:37816549 original size:101 final size:102
Alignment explanation
Indices: 37816387--37816600 Score: 349
Period size: 101 Copynumber: 2.1 Consensus size: 102
37816377 ACTTCTGATC
* * *
37816387 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
37816452 AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
66 AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
** * *
37816489 AGTGATAAATGATAAGTGGTAGTGT-AGCTACACTTGTCTGATCAGTGACAAGTGATAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
*
37816553 AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGATA
66 AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
37816590 AGTGATAAATG
1 AGTGATAAATG
37816601 TGATCAGTGT
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
101 83 0.80
102 21 0.20
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (102 bp):
AGTGATAAATGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:37816595 original size:51 final size:51
Alignment explanation
Indices: 37816382--37816597 Score: 335
Period size: 51 Copynumber: 4.3 Consensus size: 51
37816372 TGAGTACTTC
* * * *
37816382 TGATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
1 TGATAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
*
37816433 TGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
1 TGATAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
* * * *
37816484 TGACAAGTGATAAATGATAAGTGGTAG-TGTAGCTACACTTGTCTGATCAG
1 TGATAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
*
37816534 TGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
1 TGATAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
37816585 TGATAAGTGATAA
1 TGATAAGTGATAA
37816598 ATGTGATCAG
Statistics
Matches: 152, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
50 47 0.31
51 105 0.69
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (51 bp):
TGATAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
Found at i:37823683 original size:21 final size:21
Alignment explanation
Indices: 37823657--37823697 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37823647 AGACGAGCAA
* *
37823657 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
37823678 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
37823698 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:37827062 original size:14 final size:14
Alignment explanation
Indices: 37827043--37827069 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37827033 TAATGACCTT
37827043 AATTGAGAATGCCC
1 AATTGAGAATGCCC
37827057 AATTGAGAATGCC
1 AATTGAGAATGCC
37827070 TAGAGAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (14 bp):
AATTGAGAATGCCC
Found at i:37829494 original size:40 final size:40
Alignment explanation
Indices: 37829412--37829494 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
37829402 TTCATGCACA
* * * * *
37829412 CAAGAATTCATGCACATAATTTGTCCGGGTAAAGTACGTG
1 CAAGAATCCATGCACATAATTTGCCCGGCTAAAATACATG
37829452 CAAGAATCCATGCACATAAGTTT-CCCGGCTAAAATACATG
1 CAAGAATCCATGCACATAA-TTTGCCCGGCTAAAATACATG
37829492 CAA
1 CAA
37829495 CAGGAGATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 34 0.92
41 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (40 bp):
CAAGAATCCATGCACATAATTTGCCCGGCTAAAATACATG
Found at i:37831525 original size:12 final size:13
Alignment explanation
Indices: 37831507--37831555 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
37831497 AAAAAATATG
37831507 ATATTTAATAATA
1 ATATTTAATAATA
37831520 AT-TTTAA-AATA
1 ATATTTAATAATA
*
37831531 GTATTTAATATATA
1 ATATTTAATA-ATA
*
37831545 ATATATAATAA
1 ATATTTAATAA
37831556 AAAAATTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 5 0.17
12 10 0.33
13 4 0.13
14 11 0.37
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:37831554 original size:24 final size:24
Alignment explanation
Indices: 37831499--37831552 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 24
37831489 ATACTTATAA
*
37831499 AAAATATGATATTTAATAATAATTTT
1 AAAATA-G-TATTTAATAATAATTAT
37831525 AAAATAGTATTTAATATATAATATAT
1 AAAATAGTATTTAATA-ATAAT-TAT
37831551 AA
1 AA
37831553 TAAAAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 9 0.36
25 6 0.24
26 10 0.40
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
AAAATAGTATTTAATAATAATTAT
Found at i:37831870 original size:12 final size:12
Alignment explanation
Indices: 37831836--37831979 Score: 59
Period size: 12 Copynumber: 12.8 Consensus size: 12
37831826 ACTTTTGATA
37831836 ATAATAATATAG
1 ATAATAATATAG
* *
37831848 ATAAAAATATAT
1 ATAATAATATAG
*
37831860 ATAATAGTATA-
1 ATAATAATATAG
*
37831871 A-AATAA-ATGAC
1 ATAATAATAT-AG
37831882 ATAATAATATA-
1 ATAATAATATAG
37831893 A-AATAAATATA-
1 ATAAT-AATATAG
37831904 ATATATAATAT-G
1 ATA-ATAATATAG
*
37831916 AAAAT-ATATATG
1 ATAATAATATA-G
37831928 -TAA-AA-ATA-
1 ATAATAATATAG
*
37831936 ATATATAATATAT
1 ATA-ATAATATAG
37831949 ATAAATAATAT-G
1 AT-AATAATATAG
37831961 AATAATAA-ATA-
1 -ATAATAATATAG
37831972 ATAA-AATA
1 ATAATAATA
37831980 ATTATATAGT
Statistics
Matches: 104, Mismatches: 8, Indels: 42
0.68 0.05 0.27
Matches are distributed among these distances:
9 6 0.06
10 21 0.20
11 19 0.18
12 42 0.40
13 15 0.14
14 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (12 bp):
ATAATAATATAG
Found at i:37831972 original size:20 final size:20
Alignment explanation
Indices: 37831833--37831994 Score: 102
Period size: 20 Copynumber: 7.8 Consensus size: 20
37831823 AAAACTTTTG
*
37831833 ATAATA-ATAATATAGATAA
1 ATAATATATAATATATATAA
*
37831852 AAATATATATAATAGTATA-AA
1 ATA-ATATATAATA-TATATAA
*
37831873 ATAAATGACATAATA-ATATAAA
1 AT-AAT-ATATAATATATAT-AA
*
37831895 ATAA-ATATAATATATA-AT
1 ATAATATATAATATATATAA
* * *
37831913 ATGAAAATAT-ATATGTAAAA
1 AT-AATATATAATATATATAA
37831933 ATAATATATAATATATATAA
1 ATAATATATAATATATATAA
*
37831953 ATAATATGAATAATAAATAATAAA
1 ATAATAT--ATAATATAT-AT-AA
*
37831977 ATAATTATATAGTATATA
1 ATAA-TATATAATATATA
37831995 ATATAAGAAT
Statistics
Matches: 112, Mismatches: 14, Indels: 31
0.71 0.09 0.20
Matches are distributed among these distances:
18 3 0.03
19 23 0.21
20 31 0.28
21 13 0.12
22 24 0.21
23 9 0.08
24 6 0.05
25 3 0.03
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (20 bp):
ATAATATATAATATATATAA
Found at i:37831977 original size:45 final size:41
Alignment explanation
Indices: 37831835--37832000 Score: 109
Period size: 45 Copynumber: 3.8 Consensus size: 41
37831825 AACTTTTGAT
* * * *
37831835 AATAATAATATAGATAAAAATATATATAATAGTAT-AAAATA
1 AATAATAAAATA-ATATAAATATATAAAATAATATGAAAATA
* * *
37831876 AATGACATAATAATATAAAATAAATATAATATATAATATGAAAATA
1 AATAATAAAATAATAT-AAAT--ATATAA-A-ATAATATGAAAATA
* *
37831922 TATATGTAAAAATAATATATAATATATATAAATAATATGAATAATA
1 AATA-AT-AAAATAATATA-AATATATA-AAATAATATGAA-AATA
* *
37831968 AATAATAAAATAATTATATAGTATATAATATAA
1 AATAATAAAATAA-TATA-AATATATAAAATAA
37832001 GAATAAGATT
Statistics
Matches: 97, Mismatches: 16, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
40 3 0.03
41 12 0.12
43 5 0.05
44 13 0.13
45 29 0.30
46 21 0.22
47 2 0.02
48 12 0.12
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (41 bp):
AATAATAAAATAATATAAATATATAAAATAATATGAAAATA
Found at i:37832018 original size:38 final size:37
Alignment explanation
Indices: 37831931--37832006 Score: 93
Period size: 38 Copynumber: 2.1 Consensus size: 37
37831921 ATATATGTAA
* *
37831931 AAATAAT-ATATAATATATATAAATAATATGAATAAT
1 AAATAATAAAATAATATATATAAATAATATGAAGAAT
*
37831967 AAATAATAAAATAATTATATAGTATATAATAT-AAGAAT
1 AAATAATAAAATAA-TATATA-TAAATAATATGAAGAAT
37832005 AA
1 AA
37832007 GATTAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 7 0.21
37 5 0.15
38 13 0.38
39 9 0.26
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (37 bp):
AAATAATAAAATAATATATATAAATAATATGAAGAAT
Found at i:37839179 original size:12 final size:12
Alignment explanation
Indices: 37839162--37839186 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37839152 AACAAGACTC
37839162 AAAAAAAAAAAG
1 AAAAAAAAAAAG
37839174 AAAAAAAAAAAG
1 AAAAAAAAAAAG
37839186 A
1 A
37839187 GAAATACTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:37844153 original size:16 final size:16
Alignment explanation
Indices: 37844120--37844158 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
37844110 TATTATTTTG
*
37844120 AAATTTAAAATATATA
1 AAATTTAAAAAATATA
37844136 AAATCTTAAAAAAT-TA
1 AAAT-TTAAAAAATATA
37844152 AAATTTA
1 AAATTTA
37844159 TAAATTTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 10 0.48
17 8 0.38
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATTTAAAAAATATA
Found at i:37844381 original size:26 final size:24
Alignment explanation
Indices: 37844352--37844400 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
37844342 AAAATATGAT
37844352 ATTTTATAATATTTTACATTTTATAC
1 ATTTT-TAATATTTT-CATTTTATAC
* *
37844378 ATTTTTTATATTTTTATTTTATA
1 ATTTTTAATATTTTCATTTTATA
37844401 TAAATTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 8 0.38
26 5 0.24
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (24 bp):
ATTTTTAATATTTTCATTTTATAC
Found at i:37844390 original size:18 final size:17
Alignment explanation
Indices: 37844350--37844391 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
37844340 ATAAAATATG
37844350 ATATTTTATAATATTTT
1 ATATTTTATAATATTTT
* *
37844367 ACATTTTATACATTTTTT
1 ATATTTTATA-ATATTTT
37844385 ATATTTT
1 ATATTTT
37844392 TATTTTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATTTTATAATATTTT
Found at i:37852711 original size:43 final size:43
Alignment explanation
Indices: 37852658--37852810 Score: 150
Period size: 43 Copynumber: 3.6 Consensus size: 43
37852648 ATCGATATGT
* *
37852658 GATTATATGTAAGACCATGTTTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
* *
37852701 GATTACATGTAAGACCATGTCTGGGACATTGGCATCAT-TAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTATTGA
* * * * * *
37852744 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGA
* *
37852787 GATAACATGTAAGACCATATCTGG
1 GATTACATGTAAGACCATGTCTGG
37852811 AATATGACAT
Statistics
Matches: 89, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 83 0.93
44 3 0.03
45 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
Found at i:37857067 original size:42 final size:42
Alignment explanation
Indices: 37857008--37857129 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
37856998 TTAGGGTTAT
* *
37857008 TGAGACTTCGTGTAAGACCATATTTGGGATATGGCATCGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCAATA
* * * *
37857050 TGAGACTTCGTATAAGACCATAGCTGGGCTATTGGCATCAATT
1 TGAGACTTCGTGTAAGACCATATCTGGGATA-TGGCATCAATA
* *
37857093 TGAGA-TCCCATGTAAGACCATATCTGGGATATGGCAT
1 TGAGACT-TCGTGTAAGACCATATCTGGGATATGGCAT
37857130 TGGTATGGTA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 34 0.51
43 33 0.49
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCAATA
Found at i:37857930 original size:47 final size:46
Alignment explanation
Indices: 37857871--37857963 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 46
37857861 TATGTGAACC
*
37857871 GAAGGGTGACAAAATGGCTTGGTAAATAGCCTTATTTTATGTGCATA
1 GAAGGGTGACAAAATGGCTTGGTAAATAGCCTTATTTT-TGTCCATA
*
37857918 GAAGGGTGACAAAATGGCTTGGTAAATAGCCTTGTTTTTGTCCATA
1 GAAGGGTGACAAAATGGCTTGGTAAATAGCCTTATTTTTGTCCATA
37857964 TGGGTAGACA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 7 0.16
47 37 0.84
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (46 bp):
GAAGGGTGACAAAATGGCTTGGTAAATAGCCTTATTTTTGTCCATA
Found at i:37877576 original size:18 final size:17
Alignment explanation
Indices: 37877540--37877582 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
37877530 AGGCCAAGTT
*
37877540 GGGCATGTAGGCTACAC
1 GGGCATGTAGGCCACAC
*
37877557 GGGCATGTGGGACCACAC
1 GGGCATGTAGG-CCACAC
*
37877575 GGCCATGT
1 GGGCATGT
37877583 CACACGGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.21, C:0.26, G:0.37, T:0.16
Consensus pattern (17 bp):
GGGCATGTAGGCCACAC
Found at i:37884897 original size:27 final size:27
Alignment explanation
Indices: 37884863--37884914 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
37884853 ATACTTGAAT
37884863 TCATTTCA-AGTTTCACATCTCATTTCA
1 TCATTTCATA-TTTCACATCTCATTTCA
**
37884890 TCATTTCATATTTCATTTCTCATTT
1 TCATTTCATATTTCACATCTCATTT
37884915 TTGCCATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.23, C:0.23, G:0.02, T:0.52
Consensus pattern (27 bp):
TCATTTCATATTTCACATCTCATTTCA
Found at i:37885208 original size:37 final size:37
Alignment explanation
Indices: 37885111--37885208 Score: 160
Period size: 37 Copynumber: 2.6 Consensus size: 37
37885101 AGCGCTATAT
* * *
37885111 AAATTGACACCTAGTGTCTCATCAGTTAAACGGAAGC
1 AAATTGACACCCAGTGCCTCATCGGTTAAACGGAAGC
*
37885148 AAATTGACACCCAGTGCCTCATCGGTTAAACTGAAGC
1 AAATTGACACCCAGTGCCTCATCGGTTAAACGGAAGC
37885185 AAATTGACACCCAGTGCCTCATCG
1 AAATTGACACCCAGTGCCTCATCG
37885209 AATTCACGTT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (37 bp):
AAATTGACACCCAGTGCCTCATCGGTTAAACGGAAGC
Found at i:37887758 original size:29 final size:29
Alignment explanation
Indices: 37887725--37887783 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
37887715 GTGAGTAAAG
37887725 ATATCGTATCCACAAGGACTAAAATTACT
1 ATATCGTATCCACAAGGACTAAAATTACT
*
37887754 ATATCGTATCCACGAGGACTAAAATTACT
1 ATATCGTATCCACAAGGACTAAAATTACT
37887783 A
1 A
37887784 GTAATTACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (29 bp):
ATATCGTATCCACAAGGACTAAAATTACT
Found at i:37888073 original size:207 final size:207
Alignment explanation
Indices: 37887707--37888123 Score: 762
Period size: 207 Copynumber: 2.0 Consensus size: 207
37887697 ATAAATAGTA
* *
37887707 TAGCTACTGTGAGTAAAGATATCGTATCCACAAGGACTAAAATTACTATATCGTATCCACGAGGA
1 TAGCTAATGTAAGTAAAGATATCGTATCCACAAGGACTAAAATTACTATATCGTATCCACGAGGA
37887772 CTAAAATTACTAGTAATTACCATTTTCATATTATTTAACCGACAAATTGGAGTGATTGATTTAAG
66 CTAAAATTACTAGTAATTACCATTTTCATATTATTTAACCGACAAATTGGAGTGATTGATTTAAG
*
37887837 CTAAATATACTAAATTAATTAATTAAAGAACTCAGCAGAGAATAAATCAGGAAAATAATTGAAAA
131 CTAAATATACTAAATTAATTAACTAAAGAACTCAGCAGAGAATAAATCAGGAAAATAATTGAAAA
37887902 ATAACCAAGAAG
196 ATAACCAAGAAG
* **
37887914 TAGCTAATGTAAGTAAAGATATCGTATCCACGAGGACTAAAATTACTATATTTTATCCACGAGGA
1 TAGCTAATGTAAGTAAAGATATCGTATCCACAAGGACTAAAATTACTATATCGTATCCACGAGGA
*
37887979 CTAAAATTACTAGTAATTACCATTTTCCTATTATTTAACCGACAAATTGGAGTGATTGATTTAAG
66 CTAAAATTACTAGTAATTACCATTTTCATATTATTTAACCGACAAATTGGAGTGATTGATTTAAG
*
37888044 CTAAATATACTAAATTAATTAACTAAAGAACTCAGCAGAGAATAAATCAGGAAAATAATTGAATA
131 CTAAATATACTAAATTAATTAACTAAAGAACTCAGCAGAGAATAAATCAGGAAAATAATTGAAAA
37888109 ATAACCAAGAAG
196 ATAACCAAGAAG
37888121 TAG
1 TAG
37888124 AATGATACTC
Statistics
Matches: 202, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
207 202 1.00
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (207 bp):
TAGCTAATGTAAGTAAAGATATCGTATCCACAAGGACTAAAATTACTATATCGTATCCACGAGGA
CTAAAATTACTAGTAATTACCATTTTCATATTATTTAACCGACAAATTGGAGTGATTGATTTAAG
CTAAATATACTAAATTAATTAACTAAAGAACTCAGCAGAGAATAAATCAGGAAAATAATTGAAAA
ATAACCAAGAAG
Found at i:37890678 original size:40 final size:40
Alignment explanation
Indices: 37890478--37890676 Score: 202
Period size: 40 Copynumber: 5.0 Consensus size: 40
37890468 GAGACCAGAT
* * * * * * *
37890478 AGAAGCTCGTAAGAGCTAATACATCTGAAACACACGAAA-
1 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
* * *
37890517 AAAAGCCTCATAAGAGTTGATCCAACCGAAACACCCCAAAC
1 AGAAG-CTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
* * ** *
37890558 AGAAACTCATAAGGGCTGATCCAACAAAAACACACCAAAC
1 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
* * * *
37890598 AAAAGCTCATGAGAGCTGATCCAATCGAAACACGCCAAAT
1 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
*
37890638 AGAAGGTCATAAGAGCTGATCCAACCGAAACACGCCAAA
1 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAA
37890677 TAAAGAGTAT
Statistics
Matches: 129, Mismatches: 29, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 4 0.03
40 122 0.95
41 3 0.02
ACGTcount: A:0.45, C:0.26, G:0.16, T:0.13
Consensus pattern (40 bp):
AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
Found at i:37892213 original size:23 final size:23
Alignment explanation
Indices: 37892131--37892217 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
37892121 CCTGATCAGT
*
37892131 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
37892153 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
37892173 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
37892196 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
37892218 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:37900092 original size:23 final size:23
Alignment explanation
Indices: 37900010--37900096 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
37900000 CCTGATCAGT
*
37900010 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
37900032 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
37900052 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
37900075 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
37900097 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:37904176 original size:85 final size:84
Alignment explanation
Indices: 37904071--37904228 Score: 208
Period size: 85 Copynumber: 1.9 Consensus size: 84
37904061 CGTTTATTAA
* ** ** *
37904071 AAAAACGTCGCTAAAAGTGCTGGCTTTTAGCGACGTTTGTTAAAAAATCACAACTAAAAGTGCAT
1 AAAAACGCCGCTAAAAGTGCTACCTTTTAGCGACGTTTCCTAAAAAAGCACAACTAAAAGT-CAT
37904136 GCCTTTTAGTGCCGTTTGCT
65 GCCTTTTAGTGCCGTTTGCT
* * **
37904156 AAAAACGCCGCTAAAAGTGCTACCTTTTAGCGGCGTTTCCTAAAAAAGCGCCGCTAAAAGTCATG
1 AAAAACGCCGCTAAAAGTGCTACCTTTTAGCGACGTTTCCTAAAAAAGCACAACTAAAAGTCATG
*
37904221 GCTTTTAG
66 CCTTTTAG
37904229 CGGCGCTTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
84 11 0.18
85 51 0.82
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (84 bp):
AAAAACGCCGCTAAAAGTGCTACCTTTTAGCGACGTTTCCTAAAAAAGCACAACTAAAAGTCATG
CCTTTTAGTGCCGTTTGCT
Found at i:37904231 original size:43 final size:42
Alignment explanation
Indices: 37904070--37904233 Score: 170
Period size: 43 Copynumber: 3.9 Consensus size: 42
37904060 ACGTTTATTA
* * * *
37904070 AAAAAACGTCGCTAAAAGTGCTGGCTTTTAGCGACGTTTGTT
1 AAAAAACGCCGCTAAAAGTGCTGCCTTTTAGCGGCGTTTGCT
* ** * *
37904112 AAAAAATCACAACTAAAAGTGCATGCCTTTTAGTGCCGTTTGCT
1 AAAAAA-CGCCGCTAAAAGTGC-TGCCTTTTAGCGGCGTTTGCT
* *
37904156 -AAAAACGCCGCTAAAAGTGCTACCTTTTAGCGGCGTTTCCT
1 AAAAAACGCCGCTAAAAGTGCTGCCTTTTAGCGGCGTTTGCT
*
37904197 AAAAAAGCGCCGCTAAAAGT-CATGGCTTTTAGCGGCG
1 AAAAAA-CGCCGCTAAAAGTGC-TGCCTTTTAGCGGCG
37904234 CTTTTCCCAC
Statistics
Matches: 100, Mismatches: 17, Indels: 9
0.79 0.13 0.07
Matches are distributed among these distances:
41 17 0.17
42 24 0.24
43 42 0.42
44 17 0.17
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAAGTGCTGCCTTTTAGCGGCGTTTGCT
Found at i:37904251 original size:43 final size:42
Alignment explanation
Indices: 37904070--37904255 Score: 144
Period size: 43 Copynumber: 4.4 Consensus size: 42
37904060 ACGTTTATTA
* ** * **
37904070 AAAAAACGTCGCTAAAAGTGCTGGCTTTTAGCGACGTTTGTT
1 AAAAAACGCCGCTAAAAGTGCTACCTTTTAGCGGCGTTTCCT
* ** * * * *
37904112 AAAAAATCACAACTAAAAGTGCATGCCTTTTAGTGCCGTTTGCT
1 AAAAAA-CGCCGCTAAAAGTGC-TACCTTTTAGCGGCGTTTCCT
37904156 -AAAAACGCCGCTAAAAGTGCTACCTTTTAGCGGCGTTTCCT
1 AAAAAACGCCGCTAAAAGTGCTACCTTTTAGCGGCGTTTCCT
**
37904197 AAAAAAGCGCCGCTAAAAGT-CATGGCTTTTAGCGGCGCTTTTCC-
1 AAAAAA-CGCCGCTAAAAGTGC-TACCTTTTAGCGGCG--TTTCCT
* *
37904241 CACAAACGCCGCTAA
1 AAAAAACGCCGCTAA
37904256 TTTTGGCAGA
Statistics
Matches: 118, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
41 17 0.14
42 24 0.20
43 51 0.43
44 21 0.18
45 5 0.04
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAAGTGCTACCTTTTAGCGGCGTTTCCT
Found at i:37904651 original size:21 final size:21
Alignment explanation
Indices: 37904627--37904674 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
37904617 CCATCGCTCG
*
37904627 TGCCTCTGCCT-CTCTCGCTGC
1 TGCCTCTACCTCCT-TCGCTGC
* *
37904648 TGCCGCTACCTCCTTCTCTGC
1 TGCCTCTACCTCCTTCGCTGC
37904669 TGCCTC
1 TGCCTC
37904675 CGCTCTAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.02, C:0.48, G:0.17, T:0.33
Consensus pattern (21 bp):
TGCCTCTACCTCCTTCGCTGC
Found at i:37910223 original size:9 final size:9
Alignment explanation
Indices: 37910211--37910269 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
37910201 TCCGTAAGTT
*
37910211 GTTATGTAC
1 GTTATGTAA
*
37910220 GTTATGTGA
1 GTTATGTAA
37910229 GTTATGTAA
1 GTTATGTAA
*
37910238 ATTATGTAA
1 GTTATGTAA
*
37910247 GTTATGTGA
1 GTTATGTAA
37910256 GTTATGTAA
1 GTTATGTAA
37910265 GTTAT
1 GTTAT
37910270 TTTTTAAGAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.46
Consensus pattern (9 bp):
GTTATGTAA
Found at i:37910243 original size:27 final size:27
Alignment explanation
Indices: 37910212--37910269 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
37910202 CCGTAAGTTG
*
37910212 TTATGTACGTTATGTGAGTTATGTAAA
1 TTATGTAAGTTATGTGAGTTATGTAAA
*
37910239 TTATGTAAGTTATGTGAGTTATGTAAG
1 TTATGTAAGTTATGTGAGTTATGTAAA
37910266 TTAT
1 TTAT
37910270 TTTTTAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATGTGAGTTATGTAAA
Found at i:37910691 original size:241 final size:241
Alignment explanation
Indices: 37910268--37910701 Score: 814
Period size: 241 Copynumber: 1.8 Consensus size: 241
37910258 TATGTAAGTT
* **
37910268 ATTTTTTAAGATTCATCATACGTGGCGTTGTTGCACCTAAGGAGGATCCATTATATCTTACAGCT
1 ATTTTTTAAGATTCATCATACATGGCGTTGTAACACCTAAGGAGGATCCATTATATCTTACAGCT
37910333 CGATATAAGGCAACCCGTCAGGTTTCCAACCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
66 CGATATAAGGCAACCCGTCAGGTTTCCAACCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
*
37910398 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
131 AGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
37910463 TTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
196 TTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
*
37910509 ATTTTTTAAGATTCATCATACATGGCGTTGTAACACCTAGGGAGGATCCATTATATCTTACAGCT
1 ATTTTTTAAGATTCATCATACATGGCGTTGTAACACCTAAGGAGGATCCATTATATCTTACAGCT
*
37910574 CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
66 CGATATAAGGCAACCCGTCAGGTTTCCAACCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
37910639 AGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
131 AGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
37910702 ATTAATTCAT
Statistics
Matches: 187, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
241 187 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (241 bp):
ATTTTTTAAGATTCATCATACATGGCGTTGTAACACCTAAGGAGGATCCATTATATCTTACAGCT
CGATATAAGGCAACCCGTCAGGTTTCCAACCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
AGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
TTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
Found at i:37912780 original size:25 final size:25
Alignment explanation
Indices: 37912752--37912816 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
37912742 GAGAAGCAGC
*
37912752 AGAGGGATGCCGACGGAGATGTAAA
1 AGAGGGATGCCAACGGAGATGTAAA
* **
37912777 AGAGGGATGCCAATGGAGATGTAGC
1 AGAGGGATGCCAACGGAGATGTAAA
*
37912802 AGAGGGCTGCCAACG
1 AGAGGGATGCCAACG
37912817 ATGATGCAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.40, T:0.12
Consensus pattern (25 bp):
AGAGGGATGCCAACGGAGATGTAAA
Found at i:37912822 original size:25 final size:24
Alignment explanation
Indices: 37912749--37912822 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
37912739 CTAGAGAAGC
*
37912749 AGCAGAGGGATGCCGACGGAGATGT
1 AGCAGAGGGATGCCAAC-GAGATGT
** *
37912774 AAAAGAGGGATGCCAATGGAGATGT
1 AGCAGAGGGATGCCAA-CGAGATGT
*
37912799 AGCAGAGGGCTGCCAACGATGATG
1 AGCAGAGGGATGCCAACGA-GATG
37912823 CAGAAGACTA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
24 2 0.05
25 37 0.95
ACGTcount: A:0.32, C:0.15, G:0.39, T:0.14
Consensus pattern (24 bp):
AGCAGAGGGATGCCAACGAGATGT
Found at i:37915113 original size:22 final size:20
Alignment explanation
Indices: 37915086--37915142 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 20
37915076 TGTTTGATTT
37915086 TTTTATAATTTTTATATTGAA
1 TTTTATAATTTTTATATT-AA
37915107 TTATTAT-ATCTTTTATATTAA
1 TT-TTATAAT-TTTTATATTAA
37915128 TTTTAAATAATTTTT
1 TTTT--ATAATTTTT
37915143 TTAAAATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
20 2 0.06
21 8 0.26
22 19 0.61
23 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTTTATATTAA
Found at i:37915513 original size:22 final size:22
Alignment explanation
Indices: 37915488--37915546 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
37915478 AATCATACAA
37915488 CATAACCCTTAAACCCATAAC-C
1 CATAACCCTTAAACCC-TAACAC
* *
37915510 CATAACCCCTAATCCCTAACAC
1 CATAACCCTTAAACCCTAACAC
*
37915532 C-TAAACCTTAAACCC
1 CATAACCCTTAAACCC
37915547 CAACCCTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.39, C:0.42, G:0.00, T:0.19
Consensus pattern (22 bp):
CATAACCCTTAAACCCTAACAC
Found at i:37915582 original size:7 final size:7
Alignment explanation
Indices: 37915567--37915606 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
37915557 ACTATAAACT
*
37915567 ATAAACC
1 ATAATCC
37915574 ATAATCC
1 ATAATCC
*
37915581 ATAAACAC
1 ATAATC-C
37915589 ATAATCC
1 ATAATCC
37915596 ATAATCC
1 ATAATCC
37915603 ATAA
1 ATAA
37915607 ACCTTAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.23
Consensus pattern (7 bp):
ATAATCC
Found at i:37915592 original size:22 final size:22
Alignment explanation
Indices: 37915567--37915608 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
37915557 ACTATAAACT
37915567 ATAAACCATAATCCATAAACAC
1 ATAAACCATAATCCATAAACAC
*
37915589 ATAATCCATAATCCATAAAC
1 ATAAACCATAATCCATAAAC
37915609 CTTAAAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.21
Consensus pattern (22 bp):
ATAAACCATAATCCATAAACAC
Found at i:37915593 original size:15 final size:14
Alignment explanation
Indices: 37915567--37915606 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
37915557 ACTATAAACT
37915567 ATAAACCATAATCC
1 ATAAACCATAATCC
37915581 ATAAACACATAATCC
1 ATAAAC-CATAATCC
*
37915596 ATAATCCATAA
1 ATAAACCATAA
37915607 ACCTTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.23
Consensus pattern (14 bp):
ATAAACCATAATCC
Found at i:37915924 original size:24 final size:24
Alignment explanation
Indices: 37915896--37915945 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
37915886 ACCAAAATAA
*
37915896 AAATTAATTTTTATATAGACTTTT
1 AAATTAATTTTTATATAAACTTTT
37915920 AAATTAATTTTTATATAAACTTTT
1 AAATTAATTTTTATATAAACTTTT
37915944 AA
1 AA
37915946 TAAATATACG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (24 bp):
AAATTAATTTTTATATAAACTTTT
Found at i:37916500 original size:16 final size:16
Alignment explanation
Indices: 37916467--37916502 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
37916457 CTTGTTAGGA
**
37916467 TTTAGGGGTTTACTAT
1 TTTAGGGGTTTAAGAT
37916483 TTTAGGGGTTTAAGAT
1 TTTAGGGGTTTAAGAT
37916499 TTTA
1 TTTA
37916503 AGAGTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.22, C:0.03, G:0.25, T:0.50
Consensus pattern (16 bp):
TTTAGGGGTTTAAGAT
Found at i:37916560 original size:41 final size:41
Alignment explanation
Indices: 37916515--37916787 Score: 371
Period size: 41 Copynumber: 6.8 Consensus size: 41
37916505 AGTTATATGA
* *
37916515 CTTTTAGCGGTGTTTTACCAAAAGCGTCGCTAATGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* * *
37916556 CTTTTAGCGGCGTTTTACCAAAAGTGTCGCTACTGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
*
37916597 CTTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* *
37916638 CTTTTAGCGGCGTTTTACCAAAAGCGCAGCT-ACGTCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATG-CTCTGT
* *
37916679 CTTTTAGTGGCGTTTTACCAAAAGCACCGCTAATGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
*
37916720 CTTTTA---GCG--TT-CCAAAAGCGCCGCTAGTGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* *
37916755 CTTTTAGCGGTGTTTTACTAAAAGCGCCGCTAA
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAA
37916788 AGCCCTATTT
Statistics
Matches: 205, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
35 28 0.14
36 2 0.01
38 5 0.02
40 4 0.02
41 164 0.80
42 2 0.01
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (41 bp):
CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
Found at i:37927869 original size:47 final size:47
Alignment explanation
Indices: 37927815--37928309 Score: 827
Period size: 47 Copynumber: 10.6 Consensus size: 47
37927805 TATTTGAATA
* *
37927815 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37927862 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
37927909 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-ATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37927955 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37928002 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
37928049 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37928096 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
37928145 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37928192 AATGTGAAAGTGTATATATGTGATAAGGCC-AATGG-CGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
37928237 AATGTGAAAGTGTATATATGTGA-CAGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
37928283 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
37928310 TCCCGAAGGG
Statistics
Matches: 425, Mismatches: 17, Indels: 12
0.94 0.04 0.03
Matches are distributed among these distances:
44 5 0.01
45 37 0.09
46 78 0.18
47 260 0.61
49 45 0.11
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:37928295 original size:187 final size:189
Alignment explanation
Indices: 37927815--37928309 Score: 842
Period size: 187 Copynumber: 2.7 Consensus size: 189
37927805 TATTTGAATA
*
37927815 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
37927880 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAAT
*
37927943 GGCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
131 GGCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
*
37928002 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
37928067 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAAT
37928132 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
131 GGCC-ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
37928192 AATGTGAAAGTGTATATATGTGATAAGGCC-AATGG-CGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * *
37928255 TGTGA-CAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
37928310 TCCCGAAGGG
Statistics
Matches: 295, Mismatches: 10, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
185 10 0.03
186 1 0.00
187 137 0.46
188 33 0.11
189 30 0.10
190 84 0.28
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (189 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAAT
GGCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
Found at i:37972849 original size:26 final size:26
Alignment explanation
Indices: 37972796--37972876 Score: 139
Period size: 26 Copynumber: 3.2 Consensus size: 26
37972786 TGAAATGCCC
37972796 ATCATGGAACATTT--CTAAACCCATT
1 ATCATGGAACATTTACCT-AACCCATT
37972821 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
37972847 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
37972873 ATCA
1 ATCA
37972877 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
25 14 0.26
26 38 0.70
27 2 0.04
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:37979844 original size:26 final size:26
Alignment explanation
Indices: 37979808--37979916 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
37979798 ATGAAATGCC
*
37979808 TATCATGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAACCCAT
37979834 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
* *
37979860 TATCATGGAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAACCCAT
37979886 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
37979912 TATCA
1 TATCA
37979917 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:37980566 original size:11 final size:11
Alignment explanation
Indices: 37980552--37980592 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
37980542 TGTTTTCTCC
37980552 CTATTTTGCTA
1 CTATTTTGCTA
*
37980563 CTATTTTACTA
1 CTATTTTGCTA
* *
37980574 TTATGTTGCTA
1 CTATTTTGCTA
37980585 CTATTTTG
1 CTATTTTG
37980593 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:37982233 original size:13 final size:13
Alignment explanation
Indices: 37982217--37982241 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37982207 AATATTAAAT
37982217 AATAATATTTACG
1 AATAATATTTACG
37982230 AATAATATTTAC
1 AATAATATTTAC
37982242 ATACTTACTC
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:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
AATAATATTTACG
Found at i:37982470 original size:19 final size:18
Alignment explanation
Indices: 37982420--37982473 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
37982410 TATGAAAAAT
37982420 AATATTTATTTTAATTATAA
1 AATATTTA-TTT-ATTATAA
*
37982440 AATATATAATTTATTATAAA
1 AATAT-TTATTTATTAT-AA
37982460 AATATTTATTTATT
1 AATATTTATTTATT
37982474 TTTAACATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 13 0.43
20 15 0.50
21 2 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AATATTTATTTATTATAA
Found at i:37990335 original size:5 final size:5
Alignment explanation
Indices: 37990325--37990349 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
37990315 GAATTCAAAC
37990325 CGAAT CGAAT CGAAT CGAAT CGAAT
1 CGAAT CGAAT CGAAT CGAAT CGAAT
37990350 ATATTTGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
CGAAT
Found at i:37990772 original size:22 final size:23
Alignment explanation
Indices: 37990719--37990773 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
37990709 ACACTTCAAT
37990719 AATATAAATAATATAAAATGTGA
1 AATATAAATAATATAAAATGTGA
*
37990742 AAT-TTAATAATAT-AAATAGT-A
1 AATATAAATAATATAAAAT-GTGA
*
37990763 TATATAAATAA
1 AATATAAATAA
37990774 AATTATTACT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.26
22 17 0.63
23 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (23 bp):
AATATAAATAATATAAAATGTGA
Found at i:37994405 original size:63 final size:63
Alignment explanation
Indices: 37994299--37994424 Score: 198
Period size: 63 Copynumber: 2.0 Consensus size: 63
37994289 TCCCTTTGGT
*** *
37994299 TATGCACTAGTTGATGGTCTGAGAGTCAATCGATTGTAGAAGTTGGGTAGAATCCGTCTAAAA
1 TATGCACTAGTTGATGGTCTGAGAGTCAATCGACCATAGAAGTTGGGTAGAATCCGACTAAAA
* *
37994362 TATGCACTAGTTGATGGTCTGAGAGTCAATCGACCATATAAGTTGGGTAGAATCTGACTAAAA
1 TATGCACTAGTTGATGGTCTGAGAGTCAATCGACCATAGAAGTTGGGTAGAATCCGACTAAAA
37994425 CAGAAAGGAC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (63 bp):
TATGCACTAGTTGATGGTCTGAGAGTCAATCGACCATAGAAGTTGGGTAGAATCCGACTAAAA
Found at i:37995701 original size:20 final size:20
Alignment explanation
Indices: 37995653--37995713 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
37995643 AGTTGAATAA
*
37995653 GCTAGCTGTAGCCGTAAAAG
1 GCTAGCTATAGCCGTAAAAG
37995673 GCT-GCTATAGCCGTAAAAG
1 GCTAGCTATAGCCGTAAAAG
* * *
37995692 GTTAGCTATAACTGTAAAAG
1 GCTAGCTATAGCCGTAAAAG
37995712 GC
1 GC
37995714 AAGTTTAGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (20 bp):
GCTAGCTATAGCCGTAAAAG
Found at i:38003561 original size:19 final size:19
Alignment explanation
Indices: 38003539--38003575 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
38003529 TCACTATCAC
38003539 CCACTGTAATCAAATTTGT
1 CCACTGTAATCAAATTTGT
38003558 CCACTGTAATCAAATTTG
1 CCACTGTAATCAAATTTG
38003576 AATAATTCGA
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:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (19 bp):
CCACTGTAATCAAATTTGT
Found at i:38003615 original size:18 final size:18
Alignment explanation
Indices: 38003570--38003624 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
38003560 ACTGTAATCA
*
38003570 AATTTGAATAATTCGAGTT
1 AATTCGAATAATTCGA-TT
* *
38003589 GACTCGAATAATTCGATT
1 AATTCGAATAATTCGATT
*
38003607 AATTCGAATAACTCGATT
1 AATTCGAATAATTCGATT
38003625 CGTCTAACTC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 17 0.57
19 13 0.43
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (18 bp):
AATTCGAATAATTCGATT
Found at i:38004124 original size:29 final size:28
Alignment explanation
Indices: 38004067--38004124 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
38004057 CAAGTTTTTT
* *
38004067 TTGTTCTTCTCTTCTATTTTTTTTCTTC
1 TTGTTCTTCTCTTCTACTTTTTGTCTTC
38004095 TTGTTCTTTCTCTTTCTACTTTTTGT-TTC
1 TTGTTC-TTCTC-TTCTACTTTTTGTCTTC
38004124 T
1 T
38004125 GAAAATATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 6 0.23
29 9 0.35
30 11 0.42
ACGTcount: A:0.03, C:0.21, G:0.05, T:0.71
Consensus pattern (28 bp):
TTGTTCTTCTCTTCTACTTTTTGTCTTC
Found at i:38006287 original size:124 final size:124
Alignment explanation
Indices: 38006058--38006403 Score: 494
Period size: 124 Copynumber: 2.8 Consensus size: 124
38006048 AACCTTGGTC
* * * * *
38006058 TCTGCTCATAATTTGGCAATATGCCTCTCATTCGACTCAATGTAAGAGGTGAGTTGATCAATCAT
1 TCTGCTCGTAATTTGGCAACATGCCTCTCATTCGACTCATTATAGGAGGTGAGTTGATCAATCAT
* * *
38006123 TCGTTCTTGAATGCTTGTGGGAATAGACTTGGGGCTTGAGCTAGTGAGCACTCATTGAG
66 TCGTTCTTGAATGCTTGTGGGAATAGCCTTGGGACCTGAGCTAGTGAGCACTCATTGAG
38006182 TCTGCTCGTAATTTGGCAACATGCCTCTCATTCGACTCATTATAGGAGGTGAGTTGATCAATCAT
1 TCTGCTCGTAATTTGGCAACATGCCTCTCATTCGACTCATTATAGGAGGTGAGTTGATCAATCAT
* * * * * *
38006247 TCGTTCTTGAATACTTGTGGGAGTAGCCTTTGGACCTGAGCTAGTGGGCATTCCTTGAG
66 TCGTTCTTGAATGCTTGTGGGAATAGCCTTGGGACCTGAGCTAGTGAGCACTCATTGAG
* * * * * * * *
38006306 TTTGCTCGTAATCTGGAAACATGCCTCTTATTCTACTCATTATAGAAGGTGAGTAGATTAATCAT
1 TCTGCTCGTAATTTGGCAACATGCCTCTCATTCGACTCATTATAGGAGGTGAGTTGATCAATCAT
38006371 TCGTTCTTGAATGCTTGTGGGAATAGCCTTGGG
66 TCGTTCTTGAATGCTTGTGGGAATAGCCTTGGG
38006404 GCCACTCCTT
Statistics
Matches: 197, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
124 197 1.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (124 bp):
TCTGCTCGTAATTTGGCAACATGCCTCTCATTCGACTCATTATAGGAGGTGAGTTGATCAATCAT
TCGTTCTTGAATGCTTGTGGGAATAGCCTTGGGACCTGAGCTAGTGAGCACTCATTGAG
Found at i:38006507 original size:110 final size:110
Alignment explanation
Indices: 38006314--38006516 Score: 286
Period size: 110 Copynumber: 1.8 Consensus size: 110
38006304 AGTTTGCTCG
* * ** *
38006314 TAATCTGGAAACATGCCTCTTATTCTACTCATTATAGAAGGTGAGTAGATTAATCATTCGTTCTT
1 TAATCTGGAAACATGCCTCTCATTCTAATCATTATAGAAGGTGAGTAGACCAATCATTCATTCTT
*
38006379 GAATGCTTGTGGGAATAGCCTTGGGGCCACTCCTTAAGGCTATCA
66 GAATGCCTGTGGGAATAGCCTTGGGGCCACTCCTTAAGGCTATCA
*
38006424 TAATCTGGAAACATGCCTCTCATT-TGAATCACTT-TA-AGAGGTGAGTTGACCAATCATTCATT
1 TAATCTGGAAACATGCCTCTCATTCT-AATCA-TTATAGA-AGGTGAGTAGACCAATCATTCATT
*
38006486 CTTTAATGCCTGTGGGAATAGCCTTGGGGCC
63 CTTGAATGCCTGTGGGAATAGCCTTGGGGCC
38006517 TGAAGTAATG
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
109 2 0.02
110 78 0.95
111 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (110 bp):
TAATCTGGAAACATGCCTCTCATTCTAATCATTATAGAAGGTGAGTAGACCAATCATTCATTCTT
GAATGCCTGTGGGAATAGCCTTGGGGCCACTCCTTAAGGCTATCA
Found at i:38010944 original size:29 final size:29
Alignment explanation
Indices: 38010901--38010988 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
38010891 GTACATAGTA
* *
38010901 CCTGATAATTATAACACTGGCACAAAGTG
1 CCTGATAACTGTAACACTGGCACAAAGTG
* *
38010930 CCTGATAACTGTAACACTAGCACAAAGTA
1 CCTGATAACTGTAACACTGGCACAAAGTG
* * *
38010959 CCTAATAACTGTAATCACCGGCACATAGTG
1 CCTGATAACTGTAA-CACTGGCACAAAGTG
38010989 TCTCATAAAC
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 38 0.78
30 11 0.22
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.23
Consensus pattern (29 bp):
CCTGATAACTGTAACACTGGCACAAAGTG
Found at i:38020404 original size:2 final size:2
Alignment explanation
Indices: 38020397--38020436 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
38020387 ACAGTTGTAT
38020397 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38020437 AAAGAGAAGA
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):
TA
Found at i:38035742 original size:43 final size:44
Alignment explanation
Indices: 38035679--38035762 Score: 116
Period size: 43 Copynumber: 1.9 Consensus size: 44
38035669 ATCGAAATAT
*
38035679 GATATTCGGGCTTCGGGCCTAGCAGGAAATAATGCCAGTGAGAC
1 GATATTCGGGCTTCGAGCCTAGCAGGAAATAATGCCAGTGAGAC
* ** *
38035723 GATA-TCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 GATATTCGGGCTTCGAGCCTAGCAGGAAATAATGCCAGTGA
38035763 AATGAAATGT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 31 0.89
44 4 0.11
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (44 bp):
GATATTCGGGCTTCGAGCCTAGCAGGAAATAATGCCAGTGAGAC
Found at i:38036154 original size:38 final size:38
Alignment explanation
Indices: 38036043--38036161 Score: 159
Period size: 38 Copynumber: 3.1 Consensus size: 38
38036033 ATTTGATGTG
* *
38036043 TATCCGGGCTTAAAGACCCGCAGGCTTCA-TGCTGGTAATA
1 TATCCGGG-TTAAA-TCCCGCAGGCTT-AGTGCTGGTATTA
*
38036083 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTA
* *
38036121 TATCCGGGTTAAATCCCGCAGGCCTAGTACTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTA
38036159 TAT
1 TAT
38036162 TCAGGCCTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
38 59 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTA
Found at i:38036214 original size:45 final size:45
Alignment explanation
Indices: 38036158--38036289 Score: 157
Period size: 45 Copynumber: 3.0 Consensus size: 45
38036148 TACTGGTATT
* * *
38036158 ATATTCAGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGAT-
1 ATATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
*
38036202 ACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGACATG
1 A-TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
* * *
38036248 ATA-TCGAGCC-TTGAGCCTAGCAGGCGA-AATACCGGTGA-ATG
1 ATATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
38036289 A
1 A
38036290 ATAAGAGTCT
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
41 4 0.05
42 10 0.13
43 15 0.19
44 7 0.09
45 41 0.53
46 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (45 bp):
ATATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
Found at i:38037382 original size:39 final size:39
Alignment explanation
Indices: 38037334--38037433 Score: 104
Period size: 34 Copynumber: 2.7 Consensus size: 39
38037324 GTAACGGTTT
*
38037334 GGGCATTAGCCCATCTCAATACAGTATCAATATGT-TGTA
1 GGGCCTTAGCCCATCTCAATACAGTATCAATATGTAT-TA
*
38037373 GGGCCTTAGCCCA--TC-A-A-AGTATCAGTATGTATTA
1 GGGCCTTAGCCCATCTCAATACAGTATCAATATGTATTA
* *
38037407 GGGCCTTAGCTCATCACAATATCAGTA
1 GGGCCTTAGCCCATCTCAATA-CAGTA
38037434 GCAGTCATGC
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
34 26 0.52
35 2 0.04
36 2 0.04
37 3 0.06
38 1 0.02
39 12 0.24
40 4 0.08
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (39 bp):
GGGCCTTAGCCCATCTCAATACAGTATCAATATGTATTA
Found at i:38037402 original size:34 final size:35
Alignment explanation
Indices: 38037356--38037433 Score: 108
Period size: 34 Copynumber: 2.3 Consensus size: 35
38037346 ATCTCAATAC
*
38037356 AGTATCAATATGT-TGTAGGGCCTTAGCCCATCA-A
1 AGTATCAGTATGTAT-TAGGGCCTTAGCCCATCACA
*
38037390 AGTATCAGTATGTATTAGGGCCTTAGCTCATCACA
1 AGTATCAGTATGTATTAGGGCCTTAGCCCATCACA
38037425 A-TATCAGTA
1 AGTATCAGTA
38037434 GCAGTCATGC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 37 0.93
35 3 0.08
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (35 bp):
AGTATCAGTATGTATTAGGGCCTTAGCCCATCACA
Found at i:38039087 original size:22 final size:22
Alignment explanation
Indices: 38039059--38039109 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
38039049 CACAATGAAT
38039059 AATGTGACTAATTATTAAGCTA
1 AATGTGACTAATTATTAAGCTA
38039081 AATGTGACTAATTATTAAGCTA
1 AATGTGACTAATTATTAAGCTA
38039103 AATGTGA
1 AATGTGA
38039110 TGTTATAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (22 bp):
AATGTGACTAATTATTAAGCTA
Done.