Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold46
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: 2524624
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 119418 characters in sequence are not A, C, G, or T
File 1 of 15
Found at i:6 original size:1 final size:1
Alignment explanation
Indices: 1--34 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
35 CCCCCGTCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4654 original size:8 final size:8
Alignment explanation
Indices: 4639--4723 Score: 77
Period size: 8 Copynumber: 10.9 Consensus size: 8
4629 CGTCCTTCAT
4639 ACAAAAAA
1 ACAAAAAA
*
4647 A-TAAAAA
1 ACAAAAAA
*
4654 ATAAAAAA
1 ACAAAAAA
4662 ACAAAAAA
1 ACAAAAAA
4670 ACCAAAAAA
1 A-CAAAAAA
*
4679 ATAAAAAA
1 ACAAAAAA
4687 AC-AAAAA
1 ACAAAAAA
* **
4694 ACCAAGGA
1 ACAAAAAA
*
4702 A-AAAATA
1 ACAAAAAA
4709 ACAAAAAA
1 ACAAAAAA
4717 ACAAAAA
1 ACAAAAA
4724 TGGGTCTAGT
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
7 17 0.27
8 37 0.60
9 8 0.13
ACGTcount: A:0.82, C:0.11, G:0.02, T:0.05
Consensus pattern (8 bp):
ACAAAAAA
Found at i:4677 original size:25 final size:25
Alignment explanation
Indices: 4649--4723 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
4639 ACAAAAAAAT
4649 AAAAAATAAAAAAACAAAAAAACCA
1 AAAAAATAAAAAAACAAAAAAACCA
4674 AAAAAATAAAAAAAC-AAAAAACC-
1 AAAAAATAAAAAAACAAAAAAACCA
** *
4697 AAGGAA-AAAATAACAAAAAAA-CA
1 AAAAAATAAAAAAACAAAAAAACCA
4720 AAAA
1 AAAA
4724 TGGGTCTAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
22 8 0.19
23 12 0.28
24 8 0.19
25 15 0.35
ACGTcount: A:0.83, C:0.11, G:0.03, T:0.04
Consensus pattern (25 bp):
AAAAAATAAAAAAACAAAAAAACCA
Found at i:5959 original size:28 final size:28
Alignment explanation
Indices: 5909--6290 Score: 440
Period size: 28 Copynumber: 13.3 Consensus size: 28
5899 CTTTCATCTC
**
5909 TTCAAAGTTCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
** * *
5937 TTCAAAGCCCATGAGTTAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
5965 TTCAAAGCCCACAAGTCTAGTGGCACCCT
1 TTCAAAGCCCACAAGTC-AGTGGCACCCT
*
5994 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * *
6023 TTTAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
* *
6055 TTCAAAGCTCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
6083 TTCAAATCCCACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
6113 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
6141 TTCAAAGCCCATAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
6169 TTCAAAGCCCACAAATCAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
* ***
6198 TTCAAAGCCCACAAGTCAGTGACATATT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
6226 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
6254 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
6283 TTCAAAGC
1 TTCAAAGC
6291 TTACACGAGT
Statistics
Matches: 302, Mismatches: 43, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
28 166 0.55
29 79 0.26
30 31 0.10
31 9 0.03
32 17 0.06
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:5997 original size:57 final size:56
Alignment explanation
Indices: 5909--6290 Score: 449
Period size: 57 Copynumber: 6.6 Consensus size: 56
5899 CTTTCATCTC
** * ** * *
5909 TTCAAAGTTCACAAGTCAGTGGCACCCTTTCAAAGCCCATGAGTTAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
5965 TTCAAAGCCCACAAGTCTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTC-AGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * * *
6023 TTTAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCTCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CTTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
6083 TTCAAATCCCACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CTTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * * *
6141 TTCAAAGCCCATAAGTCAATGGCACCCTTTCAAAGCCCACAAATCAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA-CCCT
* **
6198 TTCAAAGCCCACAAGTCAGTGACATATTTTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
6254 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGC
6291 TTACACGAGT
Statistics
Matches: 279, Mismatches: 39, Indels: 15
0.84 0.12 0.05
Matches are distributed among these distances:
56 65 0.23
57 91 0.33
58 75 0.27
59 5 0.02
60 18 0.06
61 25 0.09
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (56 bp):
TTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:6234 original size:85 final size:85
Alignment explanation
Indices: 5909--6290 Score: 487
Period size: 85 Copynumber: 4.4 Consensus size: 85
5899 CTTTCATCTC
** * ** * * * *
5909 TTCAAAGTTCACAAGTCAGTGGCAC-CCTTTCAAAGCCCATGAGTTAATGGCACCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGC
5973 CCACAAGTCTAGTGGCACCCT
66 CCACAAGTC-AGTGGCACCCT
* *
5994 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAAGCCCACACGAGTCGGTGGCAACTCTTTTCA
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-A-TCTTTTCA
* *
6059 AAGCTCACAAGTCAGTGGCATCCT
62 AAGCCCACAAGTCAGTGGCACCCT
* * * * *
6083 TTCAAATCCCACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAG
* *
6148 CCCATAAGTCAATGGCACCCT
65 CCCACAAGTCAGTGGCACCCT
* * * *
6169 TTCAAAGCCCACAAATCAGTGGCATTCTTTTCAAAGCCCACAAGTCAGTGACATATTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGC
6234 CCACAAGTCAGTGGCACCCT
66 CCACAAGTCAGTGGCACCCT
6254 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
6291 TTACACGAGT
Statistics
Matches: 254, Mismatches: 37, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
85 113 0.44
86 57 0.22
87 1 0.00
88 16 0.06
89 31 0.12
90 36 0.14
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (85 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGC
CCACAAGTCAGTGGCACCCT
Found at i:7295 original size:20 final size:19
Alignment explanation
Indices: 7219--7293 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
7209 AAGTACCTAG
7219 ATGTATCAATACATTTTCCA
1 ATGTATCAATACATTTT-CA
* * *
7239 ATGTATCGATACATGTATGA
1 ATGTATCAATACAT-TTTCA
7259 ATGTATCAATACATTCTTCA
1 ATGTATCAATACATT-TTCA
*
7279 ATGTATCGATACATT
1 ATGTATCAATACATT
7294 CTGTCTTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.93
21 2 0.04
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
ATGTATCAATACATTTTCA
Found at i:7352 original size:21 final size:21
Alignment explanation
Indices: 7313--7352 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7303 TACCTAGATG
* **
7313 TATCGATACATTTTTTTAATA
1 TATCGATACATCTAGTTAATA
7334 TATCGATACATCTAGTTAA
1 TATCGATACATCTAGTTAA
7353 AATTAAGCAT
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:0.35, C:0.12, G:0.07, T:0.45
Consensus pattern (21 bp):
TATCGATACATCTAGTTAATA
Found at i:15387 original size:52 final size:51
Alignment explanation
Indices: 15325--15439 Score: 151
Period size: 51 Copynumber: 2.2 Consensus size: 51
15315 TTTGGAAAGA
* * *
15325 AAATATATCGATGT-ATTATTCATCGTATCGATACATTTTGGGTTTTTGACCC
1 AAATGTATCGAT-TCATTATTCATCGTATCAATACA-TCTGGGTTTTTGACCC
* * *
15377 AAATGTATCGATTCATTATTTATCGTGTCAATATATCTGGGTTTTTGACCC
1 AAATGTATCGATTCATTATTCATCGTATCAATACATCTGGGTTTTTGACCC
15428 AAATGTATCGAT
1 AAATGTATCGAT
15440 ACATGTAGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
51 28 0.50
52 28 0.50
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.42
Consensus pattern (51 bp):
AAATGTATCGATTCATTATTCATCGTATCAATACATCTGGGTTTTTGACCC
Found at i:16996 original size:13 final size:13
Alignment explanation
Indices: 16978--17003 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16968 CATTTTATGG
16978 TGTATCGATACAA
1 TGTATCGATACAA
16991 TGTATCGATACAA
1 TGTATCGATACAA
17004 GTTTGGCTAC
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:19039 original size:21 final size:20
Alignment explanation
Indices: 19010--19052 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
19000 GACTAGTGTG
* *
19010 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
19031 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
19051 GG
1 GG
19053 TGGGTGTTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:19517 original size:13 final size:13
Alignment explanation
Indices: 19495--19533 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
19485 ATAATCCCCC
* *
19495 TGTATTGATACAG
1 TGTATCGATACAA
19508 TGTATCGATACAA
1 TGTATCGATACAA
19521 TGTATCGATACAA
1 TGTATCGATACAA
19534 AGAATGATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:25709 original size:13 final size:13
Alignment explanation
Indices: 25691--25715 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25681 CATTTTATGG
25691 TGTATCGATACAA
1 TGTATCGATACAA
25704 TGTATCGATACA
1 TGTATCGATACA
25716 TACTTTGTGT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:25731 original size:32 final size:33
Alignment explanation
Indices: 25668--25735 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
25658 CGTTACAAGC
* *
25668 CAATGTATTGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATCTTATGGTGTATCGATA
25701 CAATGTATCGATACATACTT-T-GTGTATCGATA
1 CAATGTATCGATACAT-CTTATGGTGTATCGATA
25733 CAA
1 CAA
25736 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 14 0.44
33 16 0.50
34 2 0.06
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.38
Consensus pattern (33 bp):
CAATGTATCGATACATCTTATGGTGTATCGATA
Found at i:27848 original size:97 final size:97
Alignment explanation
Indices: 27681--27905 Score: 290
Period size: 97 Copynumber: 2.3 Consensus size: 97
27671 CATCAGAGAT
* * * *
27681 ACTCCAACCCCATTCTTTCGAGAGGA-ATACTCCAACCCCGTTTTTAAACTTATCAAGATTTAAA
1 ACTCCAACCCCATTC-TTCCA-AGGAGATACTCCAACCCCATTTATAAACTTATCAAAATTTAAA
*** * *
27745 TTTTATTTTTGCTTGAATTATCATCATTGGGGAG
64 TTTTATTTTTGCCCAAATTATCATCATTGAGGAC
* * *
27779 ACTCCAACCCCATTCTTGCAAGGAGATACTCCAACTCCATTTATAAACTTGTCAAAATTTAAATT
1 ACTCCAACCCCATTCTTCCAAGGAGATACTCCAACCCCATTTATAAACTTATCAAAATTTAAATT
27844 TTATTTTTGCCCAAATTATCATCATTGAGGAC
66 TTATTTTTGCCCAAATTATCATCATTGAGGAC
* * *
27876 ACTCCAATCCTATTCCTCCAAGGAGATACT
1 ACTCCAACCCCATTCTTCCAAGGAGATACT
27906 TTAGCCTCAT
Statistics
Matches: 110, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
96 4 0.04
97 91 0.83
98 15 0.14
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (97 bp):
ACTCCAACCCCATTCTTCCAAGGAGATACTCCAACCCCATTTATAAACTTATCAAAATTTAAATT
TTATTTTTGCCCAAATTATCATCATTGAGGAC
Found at i:39893 original size:2 final size:2
Alignment explanation
Indices: 39886--39917 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
39876 AAAAAGTGAA
*
39886 AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
39918 TGTTTCGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:40911 original size:16 final size:15
Alignment explanation
Indices: 40890--40940 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
40880 AATAAAAAAA
*
40890 TTAAAAAATTTGAAT
1 TTAAAAAATTTAAAT
40905 TTGAAAAAATTTAAAT
1 TT-AAAAAATTTAAAT
**
40921 TTAAAATTTTTTAAAT
1 TTAAAA-AATTTAAAT
40937 TTAA
1 TTAA
40941 CCTAAATATG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 6 0.19
16 25 0.81
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (15 bp):
TTAAAAAATTTAAAT
Found at i:43466 original size:19 final size:19
Alignment explanation
Indices: 43423--43471 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
43413 TTTGGCTTAG
43423 TTTAAA-ATAATATTTTAA
1 TTTAAATATAATATTTTAA
* * *
43441 TTAAAATATTATATTTTTA
1 TTTAAATATAATATTTTAA
*
43460 TTTAAATTTAAT
1 TTTAAATATAAT
43472 TATAAAATAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAAATATAATATTTTAA
Found at i:45306 original size:14 final size:15
Alignment explanation
Indices: 45283--45329 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 15
45273 TCATTTTTTT
45283 ATTTAAAATATTTTGA
1 ATTT-AAATATTTTGA
*
45299 ATTT-AATATTTTAAA
1 ATTTAAATATTTT-GA
45314 ATTTAAATAATTTTGA
1 ATTTAAAT-ATTTTGA
45330 TTTTTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 8 0.31
15 5 0.19
16 8 0.31
17 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (15 bp):
ATTTAAATATTTTGA
Found at i:45716 original size:11 final size:10
Alignment explanation
Indices: 45699--45740 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
45689 TATAAGCAAG
45699 TTAAAATAAA
1 TTAAAATAAA
45709 TATAAAATAACA
1 T-TAAAATAA-A
45721 TT-AAATAAA
1 TTAAAATAAA
45730 TTAAATATAAA
1 TTAAA-ATAAA
45741 AATGATCGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
9 3 0.11
10 9 0.32
11 14 0.50
12 2 0.07
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (10 bp):
TTAAAATAAA
Found at i:46904 original size:21 final size:20
Alignment explanation
Indices: 46876--46917 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
46866 GACTTAAGAA
46876 TGCAATTATATCGATAAAAT
1 TGCAATTATATCGATAAAAT
* *
46896 TGCACATTATATTGATACAAT
1 TGCA-ATTATATCGATAAAAT
46917 T
1 T
46918 TCAAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (20 bp):
TGCAATTATATCGATAAAAT
Found at i:47593 original size:11 final size:11
Alignment explanation
Indices: 47579--47638 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
47569 GAAAAAAACT
47579 AGAAAGAAAAA
1 AGAAAGAAAAA
*
47590 AGAAAGCAAAA
1 AGAAAGAAAAA
* *
47601 A-ACA-AAAAT
1 AGAAAGAAAAA
* *
47610 GGAAATAAAAA
1 AGAAAGAAAAA
*
47621 AGAAAAAAAAA
1 AGAAAGAAAAA
47632 AGAAAGA
1 AGAAAGA
47639 GAGACTATTT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
9 3 0.08
10 4 0.11
11 30 0.81
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.03
Consensus pattern (11 bp):
AGAAAGAAAAA
Found at i:52278 original size:52 final size:52
Alignment explanation
Indices: 52132--52260 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
52122 CGAAATATGA
52132 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * * *
52184 AAACTTGCCTGTATGTATCGATACATTTCATAGTGCATCGATATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
52236 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
52261 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:52287 original size:13 final size:13
Alignment explanation
Indices: 52269--52293 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52259 CAAAGATCAG
52269 TGTATCGATACAA
1 TGTATCGATACAA
52282 TGTATCGATACA
1 TGTATCGATACA
52294 TTTGAGTAAT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:52890 original size:70 final size:70
Alignment explanation
Indices: 52800--52972 Score: 287
Period size: 70 Copynumber: 2.5 Consensus size: 70
52790 TTTGTCCAAA
*
52800 TGTATCGATACA-TTGTTAGAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTTA
1 TGTATCGATACATTTG-TAGAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCA
52864 ATGATT
65 ATGATT
*
52870 TGTATCGATACATTTGTAGAATGTGTCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCAA
1 TGTATCGATACATTTGTAGAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCAA
52935 TGATT
66 TGATT
*
52940 TGTATCGATACATTCAGTA-AATGTATCGATACA
1 TGTATCGATACATT-TGTAGAATGTATCGATACA
52973 TAAGTAATGT
Statistics
Matches: 97, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
70 91 0.94
71 6 0.06
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (70 bp):
TGTATCGATACATTTGTAGAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCAA
TGATT
Found at i:52983 original size:19 final size:21
Alignment explanation
Indices: 52940--52991 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
52930 TTCAATGATT
*
52940 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
52961 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
52980 TGTATCGATACA
1 TGTATCGATACA
52992 GTGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.47
20 4 0.13
21 12 0.40
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:53062 original size:13 final size:13
Alignment explanation
Indices: 53044--53069 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53034 ATTTGTAAAA
53044 TGTATCGATACAT
1 TGTATCGATACAT
53057 TGTATCGATACAT
1 TGTATCGATACAT
53070 CGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:55496 original size:51 final size:51
Alignment explanation
Indices: 55434--55599 Score: 183
Period size: 51 Copynumber: 3.3 Consensus size: 51
55424 TTTCATCTCG
* * * *
55434 GGGATACTCCAA-TCCCGATTTCATTTCCAAAACATCAATTTTTCTTAATCA
1 GGGATACTCCAACT-CCGATTTTATTTCCAAAACACCAATTTTCCATAATCA
* * *
55485 GGGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAATCG
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAATCA
* * * * * *
55536 GGGATACTCCAACTCAGATTTTATTTTCAAAACACTGACTTTT-CACAATCG
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACAC-CAATTTTCCATAATCA
55587 GGGATACTCCAAC
1 GGGATACTCCAAC
55600 CCTATTATTT
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
51 94 0.95
52 5 0.05
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
GGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAATCA
Found at i:55706 original size:76 final size:77
Alignment explanation
Indices: 55535--55809 Score: 324
Period size: 79 Copynumber: 3.5 Consensus size: 77
55525 TTCCATAATC
* * * * *
55535 GGGGATACTCCAACTCAGATTTTATTT-TCAAAACACTGACTTTTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCT-AAAACAC-CAATTTT-TCAATCGGGGATACTCCAA
* *
55599 CCCTATTATTTCCGA
63 CCCTGTTATTTTCGA
* * *
55614 GGGGACACTCCAACCCCGATTTTATTTCGAAAACACCAATTTTTC-ATCGAGGATACTCCAACCC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCAATCGGGGATACTCCAACCC
55678 TGTTATTTTCGA
66 TGTTATTTTCGA
* * *
55690 GGGGATATTCCGACCCCCG-TTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAA
1 GGGGATACTCC-AACCCCGATTTTATTTCTAAAACACCAATTTTTC--AATCGGGGATACTCCAA
* *
55754 CCCCGTTATTTTTGA
63 CCCTGTTATTTTCGA
55769 GGGGATACTCCAACCCC-AGTTTTATTTCTAAAACACCAATT
1 GGGGATACTCCAACCCCGA-TTTTATTTCTAAAACACCAATT
55810 CTCCACAATT
Statistics
Matches: 168, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
76 61 0.36
77 7 0.04
78 10 0.06
79 90 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (77 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCAATCGGGGATACTCCAACCC
TGTTATTTTCGA
Found at i:55845 original size:51 final size:51
Alignment explanation
Indices: 55790--55935 Score: 229
Period size: 51 Copynumber: 2.9 Consensus size: 51
55780 AACCCCAGTT
*
55790 TTATTTCTAAAACACCAATTCTCCACAATTGGGGATATTCCAACTCTGATC
1 TTATTTCTAAAACACTAATTCTCCACAATTGGGGATATTCCAACTCTGATC
*
55841 TTATTTCTAAAACACTAATTCTCCACAATTAGGGATATTCCAACTCTGATC
1 TTATTTCTAAAACACTAATTCTCCACAATTGGGGATATTCCAACTCTGATC
* * * * *
55892 TTATTTTTAAAACACTAATTTTTCACAATCGGGGATACTCCAAC
1 TTATTTCTAAAACACTAATTCTCCACAATTGGGGATATTCCAAC
55936 CCTGTTATTT
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 87 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (51 bp):
TTATTTCTAAAACACTAATTCTCCACAATTGGGGATATTCCAACTCTGATC
Found at i:55971 original size:28 final size:28
Alignment explanation
Indices: 55919--55973 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
55909 ATTTTTCACA
* **
55919 ATCGGGGATACTCCAACCCTGTTATTTT
1 ATCGAGGATACTCCAACCCAATTATTTT
55947 ATCGAGGATACTCCAACCCAATTATTT
1 ATCGAGGATACTCCAACCCAATTATTT
55974 CCAAGGGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCAATTATTTT
Found at i:56054 original size:51 final size:51
Alignment explanation
Indices: 55979--56096 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
55969 TATTTCCAAG
* *
55979 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACAATTA
1 GGGATACTCCAACCCCGACCTTATTTCCAAAATATTGATTTCTCACAATTA
* * *
56030 GGGATAC-CTCAACCCCGACCTTATTTCTAAAATATTGATTTCTCATAATTG
1 GGGATACTC-CAACCCCGACCTTATTTCCAAAATATTGATTTCTCACAATTA
56081 GGGATACTCCAACCCC
1 GGGATACTCCAACCCC
56097 ATTATTTTCA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
50 1 0.02
51 58 0.97
52 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (51 bp):
GGGATACTCCAACCCCGACCTTATTTCCAAAATATTGATTTCTCACAATTA
Found at i:56185 original size:130 final size:130
Alignment explanation
Indices: 55947--56232 Score: 303
Period size: 130 Copynumber: 2.2 Consensus size: 130
55937 CTGTTATTTT
* * * *
55947 ATCGAGGATACTCCAACCCAATTATTTCCAAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCATTATTTCCAAGGGGATACTCCAACCCCGGATTTATTTCCAAAAC
* * * *
56012 ATTGATTTCTCACAATTAGGGATACCTCAACCCCGACCTTATTTCTAAAAT-ATTGATTTCTCAT
66 ATTGATTTCTCACAATCAGGGACACCTCAACCCCGACCTTATTTCT-AAATCATCGATTTCTCAC
56076 A
130 A
* * * ***
56077 ATTGGGGATACTCCAACCCCATTATTTTCACGGGGATACTCCAACCCC-GATTCTATTTTTGAAA
1 ATCGGGGATACTCCAACCCCATTATTTCCAAGGGGATACTCCAACCCCGGATT-TATTTCCAAAA
* * * * *
56141 CATCT-ATTT-TCTATAATCGGGGACACTTCAACCCTTG-CCTTATTTCTAAATCATCGATTTTT
65 CAT-TGATTTCTC-ACAATCAGGGACACCTCAACCC-CGACCTTATTTCTAAATCATCGATTTCT
*
56203 CGCA
127 CACA
*
56207 ATCGGGGATACTCCAACCCCGTTATT
1 ATCGGGGATACTCCAACCCCATTATT
56233 ATCTCCAAAA
Statistics
Matches: 129, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
129 9 0.07
130 118 0.91
131 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.33
Consensus pattern (130 bp):
ATCGGGGATACTCCAACCCCATTATTTCCAAGGGGATACTCCAACCCCGGATTTATTTCCAAAAC
ATTGATTTCTCACAATCAGGGACACCTCAACCCCGACCTTATTTCTAAATCATCGATTTCTCACA
Found at i:58341 original size:13 final size:13
Alignment explanation
Indices: 58322--58360 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
58312 ACTATTTATG
58322 ATGTATCGATACA
1 ATGTATCGATACA
*
58335 CTGTATCGATACA
1 ATGTATCGATACA
*
58348 ATGCATCGATACA
1 ATGTATCGATACA
58361 TGAATAGTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:58515 original size:53 final size:53
Alignment explanation
Indices: 58451--58587 Score: 240
Period size: 53 Copynumber: 2.6 Consensus size: 53
58441 CTACTACCAA
58451 TGTATCGATACATACTT-TGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATA-TTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
58504 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
58557 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATA-TTGTGTGTATCGATAC
58588 TATGCAATTT
Statistics
Matches: 81, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
52 2 0.02
53 63 0.78
54 16 0.20
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (53 bp):
TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:58620 original size:20 final size:20
Alignment explanation
Indices: 58557--58627 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
58547 GCCAATGTCC
**
58557 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
58577 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
58597 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
58617 TGTATCGATAC
1 TGTATCGATAC
58628 TTTTCAGGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:58693 original size:21 final size:21
Alignment explanation
Indices: 58667--58707 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
58657 GTCAACCTTG
58667 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
58688 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
58708 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:60565 original size:32 final size:32
Alignment explanation
Indices: 60529--60597 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
60519 AATATATATA
60529 GAGAAGCCTAAGTACAAATGCTTCCATAAAAT
1 GAGAAGCCTAAGTACAAATGCTTCCATAAAAT
60561 GAGAAGCCTAAGTACAAATGCTTCCATAAAAT
1 GAGAAGCCTAAGTACAAATGCTTCCATAAAAT
60593 GAGAA
1 GAGAA
60598 ACTACAAGCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.20
Consensus pattern (32 bp):
GAGAAGCCTAAGTACAAATGCTTCCATAAAAT
Found at i:65884 original size:20 final size:20
Alignment explanation
Indices: 65861--65912 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
65851 ATTGAAAAAA
65861 GTATCGATACATTCATACTT
1 GTATCGATACATTCATACTT
65881 GTATCGATACATTCATACTT
1 GTATCGATACATTCATACTT
65901 GTATCGATACAT
1 GTATCGATACAT
65913 CAAAAATGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (20 bp):
GTATCGATACATTCATACTT
Found at i:67068 original size:28 final size:27
Alignment explanation
Indices: 67009--67608 Score: 549
Period size: 28 Copynumber: 21.1 Consensus size: 27
66999 GGCCTTTAGA
* *
67009 GAAAGTTGCCACCGACTTGTGTGGGCTTT
1 GAAAGGTGCCACTGAC-T-TGTGGGCTTT
* *
67038 GAAAGGATGCCACTAACTTGTGGACTTT
1 GAAAGG-TGCCACTGACTTGTGGGCTTT
* *
67066 GAAAAGATGCCACTGACTTATGGGCTTT
1 G-AAAGGTGCCACTGACTTGTGGGCTTT
67094 GAGAAGGTGCCACT-AGCTTGTGGGCTTT
1 GA-AAGGTGCCACTGA-CTTGTGGGCTTT
* *
67122 GAAAGGGGTGCCACTGGCTTG-GGCACTTT
1 GAAA--GGTGCCACTGACTTGTGG-GCTTT
*
67151 GACAAGGTGCCACTAACTTGTGGGCTTT
1 GA-AAGGTGCCACTGACTTGTGGGCTTT
* *
67179 GAAAAGGTGCCACTGATTTATGGGCTTTT
1 G-AAAGGTGCCACTGACTTGTGGGC-TTT
*
67208 GAAAGGGTGCCACTGACTTGTGGGCTGT
1 GAAA-GGTGCCACTGACTTGTGGGCTTT
*
67236 AAAAGGGTGCCACTGACTTGTGGGCTTTT
1 GAAA-GGTGCCACTGACTTGTGGGC-TTT
*
67265 GAAAGGGTGCCACTAACTTGTGGGCTTT
1 GAAA-GGTGCCACTGACTTGTGGGCTTT
** *
67293 -AAACGGGTGCCACCAACTTGTGAGCTTT
1 GAAA--GGTGCCACTGACTTGTGGGCTTT
* * *
67321 GAAAGGGTGCCGCTAACTCGTGGGCTTT
1 GAAA-GGTGCCACTGACTTGTGGGCTTT
*
67349 AAAAGGTGCCACTGACTTGTGGGCTTT
1 GAAAGGTGCCACTGACTTGTGGGCTTT
* * *
67376 GAAATGGGTGCCATTAACTTGTGGGTTTT
1 GAAA--GGTGCCACTGACTTGTGGGCTTT
*
67405 GAAATGGGTGCCATTGACTTGTGGGCTTT
1 GAAA--GGTGCCACTGACTTGTGGGCTTT
* *
67434 GAAAAAGGTGCCATTGGCTTGTGGGCTTT
1 G--AAAGGTGCCACTGACTTGTGGGCTTT
*
67463 GAAAAGGTGCCACTGACTTATGGGCTTT
1 G-AAAGGTGCCACTGACTTGTGGGCTTT
* * *
67491 GAAAGGATGCCCCTAACATGTGGGCTTT
1 GAAAGG-TGCCACTGACTTGTGGGCTTT
* * * * *
67519 GAGAAAGTTCTACTGACTTGTCGGCCTT
1 GA-AAGGTGCCACTGACTTGTGGGCTTT
* *
67547 GAAAAGGGTTGCCACTAACTTATGGGCTTT
1 G-AAA-GG-TGCCACTGACTTGTGGGCTTT
67577 GAGAAGGTGCCACTGACTTGTGGGCTTT
1 GA-AAGGTGCCACTGACTTGTGGGCTTT
67605 GAAA
1 GAAA
67609 AGAGGTCGTA
Statistics
Matches: 479, Mismatches: 66, Indels: 54
0.80 0.11 0.09
Matches are distributed among these distances:
27 37 0.08
28 250 0.52
29 161 0.34
30 28 0.06
31 3 0.01
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (27 bp):
GAAAGGTGCCACTGACTTGTGGGCTTT
Found at i:67161 original size:57 final size:54
Alignment explanation
Indices: 66985--67608 Score: 524
Period size: 57 Copynumber: 10.9 Consensus size: 54
66975 AGAAGGGTTT
* * *
66985 CCACTAACTTGTGTGGCCTTTAGAGAAAGTTGCCACCGACTTGTGTGGGCTTTGAAAGGATG
1 CCACTAACTTGTG-GG-CTTT-GA-AAAGGTGCCACTGAC---TATGGGCTTTGAAAGG-TG
* *
67047 CCACTAACTTGTGGACTTTGAAAAGATGCCACTGACTTATGGGCTTTGAGAAGGTG
1 CCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGAC-TATGGGCTTTGA-AAGGTG
* * *
67103 CCACTAGCTTGTGGGCTTTGAAAGGGGTGCCACTGGCT-TGGGCACTTTGACAAGGTG
1 CCACTAACTTGTGGGCTTTGAAA-AGGTGCCACTGACTATGGG--CTTTGA-AAGGTG
*
67160 CCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGATTTATGGGCTTTTGAAAGGGTG
1 CCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGA-CTATGGGC-TTTGAAA-GGTG
* * *
67217 CCACTGACTTGTGGGCTGT-AAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAGGGTG
1 CCACTAACTTGTGGGCTTTGAAAA-GGTGCCACTGAC-TATGGGC-TTTGAAA-GGTG
* **
67274 CCACTAACTTGTGGGCTTT-AAACGGGTGCCACCAACT-TGTGAGCTTTGAAAGGGTG
1 CCACTAACTTGTGGGCTTTGAAA-AGGTGCCACTGACTATG-G-GCTTTGAAA-GGTG
* * *
67330 CCGCTAACTCGTGGGCTTT-AAAAGGTGCCACTGACTTGTGGGCTTTGAAATGGGTG
1 CCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGAC-TATGGGCTTTGAAA--GGTG
* * * * *
67386 CCATTAACTTGTGGGTTTTGAAATGGGTGCCATTGACTTGTGGGCTTTGAAAAAGGTG
1 CCACTAACTTGTGGGCTTTGAAA-AGGTGCCACTGAC-TATGGGCTTTG--AAAGGTG
* **
67444 CCATTGGCTTGTGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTTTGAAAGGATG
1 CCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGAC-TATGGGCTTTGAAAGG-TG
* * * * *
67500 CCCCTAACATGTGGGCTTTGAGAAA-GTTCTACTGACT-TGTCGGCCTTGAAAAGGGTTG
1 CCACTAACTTGTGGGCTTTGA-AAAGGTGCCACTGACTATG--GGCTTTG-AAA-GG-TG
* * *
67558 CCACTAACTTATGGGCTTTGAGAAGGTGCCACTGACTTGTGGGCTTTGAAA
1 CCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGAC-TATGGGCTTTGAAA
67609 AGAGGTCGTA
Statistics
Matches: 476, Mismatches: 57, Indels: 63
0.80 0.10 0.11
Matches are distributed among these distances:
54 2 0.00
55 31 0.07
56 141 0.30
57 175 0.37
58 101 0.21
59 3 0.01
60 9 0.02
61 1 0.00
62 13 0.03
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.29
Consensus pattern (54 bp):
CCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTATGGGCTTTGAAAGGTG
Found at i:67162 original size:85 final size:82
Alignment explanation
Indices: 66985--67610 Score: 571
Period size: 85 Copynumber: 7.3 Consensus size: 82
66975 AGAAGGGTTT
* * * *
66985 CCACTAACTTGTGTGGCCTTTAGAGAAAGTTGCCACCGACTTGTGTGGGCTTTGAAAGGATGCCA
1 CCACTGACTTGTG-GG-CTTT-GA-AAAGGTGCCACTGAC-T-TGTGGGCTTTGAAAGGGTGCCA
*
67050 CTAACTTGTGGACTTTGAAAAGATG
60 CTAACTTG-GGACTTTG-AAAGGTG
* * **
67075 CCACTGACTTATGGGCTTTGAGAAGGTGCCACT-AGCTTGTGGGCTTTGAAAGGGGTGCCACTGG
1 CCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGA-CTTGTGGGCTTTGAAA-GGGTGCCACTAA
67139 CTTGGGCACTTTGACAAGGTG
64 CTTGGG-ACTTTGA-AAGGTG
* * * *
67160 CCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGATTTATGGGCTTTTGAAAGGGTGCCACTGAC
1 CCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGC-TTTGAAAGGGTGCCACTAAC
* * *
67225 TTGTGGGCTGTAAAAGGGTG
65 TTG-GGACTTTGAAA-GGTG
* * *
67245 CCACTGACTTGTGGGCTTTTGAAAGGGTGCCACTAACTTGTGGGCTTT-AAACGGGTGCCACCAA
1 CCACTGACTTGTGGGC-TTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAA-GGGTGCCACTAA
*
67309 CTTGTGAGCTTTGAAAGGGTG
64 CTTGGGA-CTTTGAAA-GGTG
* * * *
67330 CCGCTAACTCGTGGGCTTT-AAAAGGTGCCACTGACTTGTGGGCTTTGAAATGGGTGCCATTAAC
1 CCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAA-GGGTGCCACTAAC
**
67394 TTGTGGGTTTTGAAATGGGTG
65 TTG-GGACTTTGAAA--GGTG
* * * * *
67415 CCATTGACTTGTGGGCTTTGAAAAAGGTGCCATTGGCTTGTGGGCTTTGAAAAGGTGCCACTGAC
1 CCACTGACTTGTGGGCTTTG-AAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAAC
67480 TTATGGG-CTTTGAAAGGATG
65 -T-TGGGACTTTGAAAGG-TG
* * * * * * *
67500 CCCCTAACATGTGGGCTTTGAGAAA-GTTCTACTGACTTGTCGGCCTTGAAAAGGGTTGCCACTA
1 CCACTGACTTGTGGGCTTTGA-AAAGGTGCCACTGACTTGTGGGCTTTG-AAAGGG-TGCCACTA
67564 ACTTATGGG-CTTTGAGAAGGTG
63 AC-T-TGGGACTTTGA-AAGGTG
67586 CCACTGACTTGTGGGCTTTGAAAAG
1 CCACTGACTTGTGGGCTTTGAAAAG
67611 AGGTCGTATT
Statistics
Matches: 447, Mismatches: 65, Indels: 52
0.79 0.12 0.09
Matches are distributed among these distances:
83 25 0.06
84 70 0.16
85 192 0.43
86 103 0.23
87 38 0.09
88 6 0.01
89 2 0.00
90 11 0.02
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (82 bp):
CCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
TGGGACTTTGAAAGGTG
Found at i:67273 original size:142 final size:140
Alignment explanation
Indices: 67028--67610 Score: 606
Period size: 142 Copynumber: 4.1 Consensus size: 140
67018 CACCGACTTG
* * *
67028 TGTGGGCTTTG-AAAGGATGCCACTAACTTGTGGACTTTGAAAAGATGCCACTGACTTATGGGCT
1 TGTGGGCTTTGAAAAGG-TGCCACTAACTTATGGGCTTTGAAAAGATGCCACTGACTTGTGGGCT
* ** *
67092 TTGAGAAGGTGCCACT-AGCTTGTGGGCTTTGAAAGGGGTGCCACTGGCTTG-GGCACTTTGACA
65 TTGAAAAGGTGCCACTGA-CTTGTGGGCTTTGAAAGGGGTGCCACTAACTTGTGG-GCTTTGA-A
67155 AGGTGCCACTAACT
127 AGGTGCCACTAACT
* * * *
67169 TGTGGGCTTTGAAAAGGTGCCACTGATTTATGGGCTTTTGAAAGGGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAAGGTGCCACTAACTTATGGGC-TTTGAAAAGATGCCACTGACTTGTGGGCT
*
67234 GT-AAAAGGGTGCCACTGACTTGTGGGCTTTTGAAA-GGGTGCCACTAACTTGTGGGCTTT-AAA
65 TTGAAAA-GGTGCCACTGACTTGTGGGC-TTTGAAAGGGGTGCCACTAACTTGTGGGCTTTGAAA
*
67296 CGGGTGCCACCAACT
128 --GGTGCCACTAACT
* * * ** *
67311 TGTGAGCTTTGAAAGGGTGCCGCTAACTCGTGGGCTTT-AAAAGGTGCCACTGACTTGTGGGCTT
1 TGTGGGCTTTGAAAAGGTGCCACTAACTTATGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
* * * * * * *
67375 TGAAATGGGTGCCATTAACTTGTGGGTTTTGAAATGGGTGCCATTGACTTGTGGGCTTTGAAAAA
66 TGAAA-AGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTAACTTGTGGGCTTTG--AAA
* **
67440 GGTGCCATTGGCT
128 GGTGCCACTAACT
* * * * *
67453 TGTGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTTTGAAAGGATGCCCCTAACATGTGGGCTT
1 TGTGGGCTTTGAAAAGGTGCCACTAACTTATGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
* * * * * *
67518 TGAGAAA-GTTCTACTGACTTGTCGGCCTTGAAAAGGGTTGCCACTAACTTATGGGCTTTGAGAA
66 TGA-AAAGGTGCCACTGACTTGTGGGCTTTG-AAAGGGGTGCCACTAACTTGTGGGCTTTGA-AA
*
67582 GGTGCCACTGACT
128 GGTGCCACTAACT
67595 TGTGGGCTTTGAAAAG
1 TGTGGGCTTTGAAAAG
67611 AGGTCGTATT
Statistics
Matches: 366, Mismatches: 58, Indels: 35
0.80 0.13 0.08
Matches are distributed among these distances:
140 34 0.09
141 75 0.20
142 194 0.53
143 58 0.16
144 5 0.01
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (140 bp):
TGTGGGCTTTGAAAAGGTGCCACTAACTTATGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
TGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTAACTTGTGGGCTTTGAAAGGT
GCCACTAACT
Found at i:67687 original size:14 final size:13
Alignment explanation
Indices: 67625--67706 Score: 62
Period size: 14 Copynumber: 6.2 Consensus size: 13
67615 CGTATTAACA
67625 AAAATTTCTTGAC
1 AAAATTTCTTGAC
*
67638 AAAGTTTCTAATG--
1 AAAATTTCT--TGAC
*
67651 AACA-TTCTTGAC
1 AAAATTTCTTGAC
*
67663 AAAAGTTCTTGAC
1 AAAATTTCTTGAC
*
67676 GATAATTTCTTGAC
1 -AAAATTTCTTGAC
*
67690 AACCATTTCTTGAC
1 AA-AATTTCTTGAC
67704 AAA
1 AAA
67707 TGGCAAATTG
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
10 2 0.04
12 7 0.13
13 19 0.36
14 23 0.43
15 2 0.04
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (13 bp):
AAAATTTCTTGAC
Found at i:68971 original size:18 final size:18
Alignment explanation
Indices: 68950--69001 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
68940 CTTTTTTGTG
68950 TTGTTTTTTTTTTGGTTT
1 TTGTTTTTTTTTTGGTTT
* **
68968 TTGTTTTTTTCTTAATTT
1 TTGTTTTTTTTTTGGTTT
68986 TT-TATTTTTTTTTGGT
1 TTGT-TTTTTTTTTGGT
69002 ACAAAGGACG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 1 0.04
18 26 0.96
ACGTcount: A:0.06, C:0.02, G:0.12, T:0.81
Consensus pattern (18 bp):
TTGTTTTTTTTTTGGTTT
Found at i:68974 original size:15 final size:16
Alignment explanation
Indices: 68941--68977 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
68931 GACCCCTCCC
68941 TTTTTTGTGTTGTTTT
1 TTTTTTGTGTTGTTTT
68957 TTTTTTG-GTT-TTTGT
1 TTTTTTGTGTTGTTT-T
68972 TTTTTT
1 TTTTTT
68978 CTTAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 3 0.15
15 10 0.50
16 7 0.35
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (16 bp):
TTTTTTGTGTTGTTTT
Found at i:75000 original size:15 final size:15
Alignment explanation
Indices: 74962--75005 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
74952 TGTATCGACG
*
74962 ATTTTGTGGTGGGTA
1 ATTTTGTGGTGGATA
**
74977 ATTAGGTGGTGGATA
1 ATTTTGTGGTGGATA
74992 ATTTTGTGGTGGAT
1 ATTTTGTGGTGGAT
75006 TTGGTAGAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (15 bp):
ATTTTGTGGTGGATA
Found at i:79992 original size:1 final size:1
Alignment explanation
Indices: 79986--80036 Score: 57
Period size: 1 Copynumber: 51.0 Consensus size: 1
79976 TTTGGAAGGC
* * * * *
79986 AAAAAAAAAAAAAATAAAAAAAATAAAAATAAAAATAAAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
80037 TCACATTTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (1 bp):
A
Found at i:80035 original size:21 final size:20
Alignment explanation
Indices: 79986--80036 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
79976 TTTGGAAGGC
79986 AAAAAAAAAAAAAATAAAAA
1 AAAAAAAAAAAAAATAAAAA
*
80006 AAATAAAAATAAAAATAAAAA
1 AAA-AAAAAAAAAAATAAAAA
80027 AATAAAAAAA
1 AA-AAAAAAA
80037 TCACATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 3 0.11
21 23 0.85
22 1 0.04
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (20 bp):
AAAAAAAAAAAAAATAAAAA
Found at i:80037 original size:8 final size:8
Alignment explanation
Indices: 79986--80037 Score: 67
Period size: 8 Copynumber: 7.0 Consensus size: 8
79976 TTTGGAAGGC
79986 AAAAAAA-
1 AAAAAAAT
79993 AAAAAAAT
1 AAAAAAAT
80001 AAAAAAA-
1 AAAAAAAT
*
80008 ATAAAAAT
1 AAAAAAAT
80016 --AAAAAT
1 AAAAAAAT
80022 AAAAAAAT
1 AAAAAAAT
80030 AAAAAAAT
1 AAAAAAAT
80038 CACATTTTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
6 6 0.15
7 13 0.32
8 21 0.52
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:80078 original size:21 final size:21
Alignment explanation
Indices: 80052--80128 Score: 136
Period size: 21 Copynumber: 3.7 Consensus size: 21
80042 TTTTTATCCA
80052 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
80073 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
*
80094 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTGG
*
80115 AATGTATCCATACA
1 AATGTATCGATACA
80129 AGGTCCCAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTGG
Found at i:80182 original size:19 final size:19
Alignment explanation
Indices: 80158--80219 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
80148 TTTTGAACTT
80158 CAAACAGTTTGTATCGATA
1 CAAACAGTTTGTATCGATA
**
80177 CAAACAGAAAATGTATCGATA
1 CAAACAG--TTTGTATCGATA
**
80198 C-ATTAGTGTTGTATCGATA
1 CAAACAGT-TTGTATCGATA
80217 CAA
1 CAA
80220 TGTATCGATA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
19 18 0.55
20 4 0.12
21 11 0.33
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (19 bp):
CAAACAGTTTGTATCGATA
Found at i:80225 original size:13 final size:13
Alignment explanation
Indices: 80207--80231 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80197 ACATTAGTGT
80207 TGTATCGATACAA
1 TGTATCGATACAA
80220 TGTATCGATACA
1 TGTATCGATACA
80232 TAAGTTTTGT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:80227 original size:32 final size:32
Alignment explanation
Indices: 80186--80257 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
80176 ACAAACAGAA
*
80186 AATGTATCGATACATTAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
80218 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
80250 AATGTATC
1 AATGTATC
80258 ACTACGAAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:80244 original size:19 final size:18
Alignment explanation
Indices: 80188--80250 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
80178 AAACAGAAAA
*
80188 TGTATCGATACATTAGTGT
1 TGTATCGATACATAAGT-T
80207 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
80220 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
80239 TGTATCGATACA
1 TGTATCGATACA
80251 ATGTATCACT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
17 1 0.03
19 23 0.62
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:80325 original size:34 final size:34
Alignment explanation
Indices: 80282--80362 Score: 135
Period size: 34 Copynumber: 2.4 Consensus size: 34
80272 GCCAAGGAAA
80282 TGTATCGATACATTAAGGAAATGTATCGATAAAT
1 TGTATCGATACATTAAGGAAATGTATCGATAAAT
* *
80316 TGTATCGATACATTAAGGAAGTGTATCGATACAT
1 TGTATCGATACATTAAGGAAATGTATCGATAAAT
*
80350 TGTACCGATACAT
1 TGTATCGATACAT
80363 CGATCTTTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (34 bp):
TGTATCGATACATTAAGGAAATGTATCGATAAAT
Found at i:82792 original size:52 final size:50
Alignment explanation
Indices: 82719--83115 Score: 251
Period size: 51 Copynumber: 7.6 Consensus size: 50
82709 TTAAGTTTCT
* *
82719 CAATTGTTT-ATAATCGAGGATACTCCAATCCCGGTTTTATTTTCAAAACAC
1 CAATT-TTTCATAATCGGGGATACTCCAA-CCCGGTTTTATTTCCAAAACAC
* * *
82770 TAATTTTTCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACAC
1 CAATTTTTC-ATAATCGGGGATACTCCAAC-CCGGTTTTATTTCC--AAAACAC
* * * * ***** * *
82824 CAATTTTTCACAAGCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTC
1 CAATTTTTCATAATCGGGGATACTCCAACC-CGGT-TTT-ATTTCCAAAACAC
** * * * * * * *
82877 CAACCCCGTTACCT-CTGAGGGGATACTCCAACCCTGGCTTTATTTCCAAAATAT
1 CAA---TTTTTCATAAT-CGGGGATACTCCAACCC-GGTTTTATTTCCAAAACAC
** * *
82931 TGATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACAC
1 CAATTTTTCATAATCGGGGATACTCCAACC-CGGTTTTATTTCCAAAACAC
* * *
82982 TAATTTTTCACAATCGGGGATACTCCAATCTCGGTTTTATCTT-CAAAACAC
1 CAATTTTTCATAATCGGGGATACTCCAA-CCCGGTTTTAT-TTCCAAAACAC
* * * *
83033 CAATTTTCCTTTAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAACAC
1 CAATTTTTC-ATAATCGGGGATACTCCAAC-CCGGTTTTATTTCC-AAAACAC
* *
83086 CAATTTTTCACAATCGAGGATACTCCAACC
1 CAATTTTTCATAATCGGGGATACTCCAACC
83116 TCGTTATTTC
Statistics
Matches: 258, Mismatches: 67, Indels: 42
0.70 0.18 0.11
Matches are distributed among these distances:
50 3 0.01
51 90 0.35
52 77 0.30
53 41 0.16
54 23 0.09
55 6 0.02
56 18 0.07
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (50 bp):
CAATTTTTCATAATCGGGGATACTCCAACCCGGTTTTATTTCCAAAACAC
Found at i:82873 original size:28 final size:28
Alignment explanation
Indices: 82841--82910 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
82831 TCACAAGCGA
* ** *
82841 GGATACTCCAACCTCGTTATTTCAT-CGG
1 GGATACTCCAACCCCGTTACCTC-TGAGG
82869 GGATACTCCAACCCCGTTACCTCTGAGG
1 GGATACTCCAACCCCGTTACCTCTGAGG
82897 GGATACTCCAACCC
1 GGATACTCCAACCC
82911 TGGCTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 1 0.03
28 36 0.97
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACCTCTGAGG
Found at i:83204 original size:262 final size:263
Alignment explanation
Indices: 82730--83222 Score: 837
Period size: 262 Copynumber: 1.9 Consensus size: 263
82720 AATTGTTTAT
* * *
82730 AATCGAGGATACTCCAATCCCGGTTTTATTTTCAAAACACTAATTTTTCTTTAATCGGGGATACT
1 AATCGAGGATACTCCAATCCCGGTTTTATCTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
82795 CCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAAGCGAGGATACTCCAACCTCGTTA
66 CCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAAGCGAGGATACTCCAACCTCGTTA
* * *
82860 TTTCATCGGGGATACTCCAACCCCGTTACCTCTGAGGGGATACTCCAACCCTGGCTTTATTTCCA
131 TTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCTGGCTTCATTCCCA
*
82925 AAATATTGATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTTT
196 AAATATTGATCTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTTT
82990 CAC
261 CAC
* *
82993 AATCGGGGATACTCCAATCTCGGTTTTATCTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGAGGATACTCCAATCCCGGTTTTATCTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
* *
83058 CCAACTCTGATTTTATTTCC-AAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTA
66 CCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAAGCGAGGATACTCCAACCTCGTTA
*
83122 TTTCATCGGGGATTCTCCAACCCCGTTACCTCCGAGGGGATACTCCAATCCC-GGCTTCATTCCC
131 TTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAA-CCCTGGCTTCATTCCC
* *
83186 AAAATATTGATCTCTCATAATTGGGGATACTCTAACC
195 AAAATATTGATCTCTCATAATCGGGGATACTCCAACC
83223 CTGTTATTTT
Statistics
Matches: 215, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
262 133 0.62
263 82 0.38
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (263 bp):
AATCGAGGATACTCCAATCCCGGTTTTATCTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
CCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAAGCGAGGATACTCCAACCTCGTTA
TTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCTGGCTTCATTCCCA
AAATATTGATCTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTTT
CAC
Found at i:87913 original size:6 final size:7
Alignment explanation
Indices: 87896--87924 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
87886 CAAAAGTCAG
87896 AAAAAAC
1 AAAAAAC
87903 AAAAAAC
1 AAAAAAC
87910 AAAAAAC
1 AAAAAAC
87917 AAAAAAC
1 AAAAAAC
87924 A
1 A
87925 CACAAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:89339 original size:62 final size:61
Alignment explanation
Indices: 89263--89861 Score: 726
Period size: 62 Copynumber: 10.0 Consensus size: 61
89253 TTTTAGCCCT
* *
89263 TCCAGTCTTCAAAGAGCAGAACACCTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
1 TCCAGTCCTCAAAGAGCAGGACACC-TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
* * * *
89325 TCCAGTCCTCAAAGAGCAGGACGCCTCTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACC
1 TCCAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
** * * *
89386 TTTAGTCCTCAAAAAGCAGGACACCTCTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACC
1 TCCAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
* *
89446 TTCAGTCCTCAAAGAGCAGGACACCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TCCAGTCCTCAAAGAGCAGGACACC-TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
* * * *
89508 TTCAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACT
1 TCCAGTCCTCAAAGAGCAGGACACC-TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
* ** * *
89570 TTCAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACC
1 TCCAGTCCTCAAAGAGCAGGACACC-TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
** * * * *
89632 TTTAGTCCTCAAAAAGCAGGACACCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCGCT
1 TCCAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
*
89692 TCCTAGTCCTCAAAGAGCAGGACA-C-----C-TTTCAAAGCCCACACGAGTTGGTGGCACCC
1 TCC-AGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CC
* *
89748 TCCAGTCCTCAAAGAGTAGGAC-GC-----C-TTTCAAAGCCCACACAAGTTGGTGGCACCC
1 TCCAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CC
* *
89803 TCCAGTCCTCAAAGAGCAGGACGCATTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TCCAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
89862 TTTTATAGTC
Statistics
Matches: 484, Mismatches: 40, Indels: 26
0.88 0.07 0.05
Matches are distributed among these distances:
54 3 0.01
55 92 0.19
56 4 0.01
60 71 0.15
61 100 0.21
62 214 0.44
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (61 bp):
TCCAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
Found at i:89755 original size:55 final size:55
Alignment explanation
Indices: 89607--89861 Score: 280
Period size: 55 Copynumber: 4.4 Consensus size: 55
89597 TTTTCTTTTT
* ** *
89607 AAAGCCCACACGAGTTGGTGGCA-CCTTTAGTCCTCAAAAAGCAGGACACCTTTTCC
1 AAAGCCCACACAAGTTGGTGGCACCCTCCAGTCCTCAAAGAGCAGGACACC-TTT-C
* *
89663 TTTTAAAGCCCACACAAGTTGGTGGC-GCTTCCTAGTCCTCAAAGAGCAGGACACCTTTC
1 ----AAAGCCCACACAAGTTGGTGGCACCCTCC-AGTCCTCAAAGAGCAGGACACCTTTC
* * *
89722 AAAGCCCACACGAGTTGGTGGCACCCTCCAGTCCTCAAAGAGTAGGACGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCCTCCAGTCCTCAAAGAGCAGGACACCTTTC
*
89777 AAAGCCCACACAAGTTGGTGGCACCCTCCAGTCCTCAAAGAGCAGGACGCATTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACCCTCCAGTCCTCAAAGAGCAGGA--CA-----CCTTTC
89839 AAAGCCCACACAAGTTGGTGGCA
1 AAAGCCCACACAAGTTGGTGGCA
89862 TTTTATAGTC
Statistics
Matches: 171, Mismatches: 14, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
55 90 0.53
56 4 0.02
57 1 0.01
59 1 0.01
60 26 0.15
61 21 0.12
62 28 0.16
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (55 bp):
AAAGCCCACACAAGTTGGTGGCACCCTCCAGTCCTCAAAGAGCAGGACACCTTTC
Found at i:89971 original size:43 final size:42
Alignment explanation
Indices: 89895--90042 Score: 142
Period size: 43 Copynumber: 3.4 Consensus size: 42
89885 ATTCACTTTA
* *
89895 TTTTCCTCTTTCT--TTTGTCCTGAAAGAGCAGGACGCATTTC
1 TTTTCCT-TTTCTCCTTTGTCCTCAAAGAGTAGGACGCATTTC
89936 GTTTTCCTTTTCTCCTTTGTCCTCAAAGAGTAGGACGC-TCTT-
1 -TTTTCCTTTTCTCCTTTGTCCTCAAAGAGTAGGACGCAT-TTC
* *
89978 TATTTCCTTCTTTTCCCTTCTAGTCCTCAAAGAGTAGGACACATTTC
1 T-TTTCCTT-TTCT-CCTT-T-GTCCTCAAAGAGTAGGACGCATTTC
*
90025 ATTTTCCTTTTTTCCTTT
1 -TTTTCCTTTTCTCCTTT
90043 TTTCCTCGAA
Statistics
Matches: 91, Mismatches: 4, Indels: 20
0.79 0.03 0.17
Matches are distributed among these distances:
41 6 0.07
42 15 0.16
43 26 0.29
44 5 0.05
45 5 0.05
46 25 0.27
47 8 0.09
48 1 0.01
ACGTcount: A:0.16, C:0.26, G:0.13, T:0.45
Consensus pattern (42 bp):
TTTTCCTTTTCTCCTTTGTCCTCAAAGAGTAGGACGCATTTC
Found at i:90038 original size:46 final size:44
Alignment explanation
Indices: 89908--90049 Score: 155
Period size: 46 Copynumber: 3.2 Consensus size: 44
89898 TCCTCTTTCT
* * * *
89908 TTTGTCCTGAAAGAGCAGGACGCATTTCGTTTTCCTTTTCT-CC
1 TTTGTCCTCAAAGAGTAGGACGCATTTCATTTTCCTTTTTTCCC
*
89951 TTTGTCCTCAAAGAGTAGGACGC-TCTTTA-TTTCCTTCTTTTCCC
1 TTTGTCCTCAAAGAGTAGGACGCAT-TTCATTTTCCTT-TTTTCCC
* *
89995 TTCTAGTCCTCAAAGAGTAGGACACATTTCATTTTCCTTTTTTCCT
1 TT-T-GTCCTCAAAGAGTAGGACGCATTTCATTTTCCTTTTTTCCC
*
90041 TTTTTCCTC
1 TTTGTCCTC
90050 GAAAAATGGG
Statistics
Matches: 83, Mismatches: 9, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
42 8 0.10
43 26 0.31
44 9 0.11
45 2 0.02
46 30 0.36
47 8 0.10
ACGTcount: A:0.17, C:0.26, G:0.13, T:0.44
Consensus pattern (44 bp):
TTTGTCCTCAAAGAGTAGGACGCATTTCATTTTCCTTTTTTCCC
Found at i:90726 original size:6 final size:6
Alignment explanation
Indices: 90715--90769 Score: 89
Period size: 6 Copynumber: 9.7 Consensus size: 6
90705 TTGGAAGGCA
90715 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAA- AAAAAT AAAAA-
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
90760 AAAAAT AAAA
1 AAAAAT AAAA
90770 TCACATTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
5 13 0.28
6 33 0.72
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:90732 original size:12 final size:11
Alignment explanation
Indices: 90714--90769 Score: 87
Period size: 11 Copynumber: 5.0 Consensus size: 11
90704 TTTGGAAGGC
90714 AAAAAATAAAA
1 AAAAAATAAAA
90725 ATAAAAATAAAA
1 A-AAAAATAAAA
90737 ATAAAAAT-AAA
1 A-AAAAATAAAA
90748 AAAAAATAAAA
1 AAAAAATAAAA
90759 AAAAAATAAAA
1 AAAAAATAAAA
90770 TCACATTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
10 6 0.14
11 19 0.44
12 18 0.42
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (11 bp):
AAAAAATAAAA
Found at i:90738 original size:18 final size:18
Alignment explanation
Indices: 90715--90769 Score: 89
Period size: 16 Copynumber: 3.2 Consensus size: 18
90705 TTGGAAGGCA
90715 AAAAATAAAAATAAAAAT
1 AAAAATAAAAATAAAAAT
90733 AAAAATAAAAAT-AAAA-
1 AAAAATAAAAATAAAAAT
90749 AAAAATAAAAA-AAAAAT
1 AAAAATAAAAATAAAAAT
90766 AAAA
1 AAAA
90770 TCACATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
16 15 0.43
17 8 0.23
18 12 0.34
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (18 bp):
AAAAATAAAAATAAAAAT
Found at i:90811 original size:21 final size:21
Alignment explanation
Indices: 90785--90903 Score: 202
Period size: 21 Copynumber: 5.7 Consensus size: 21
90775 TTTTTATCCA
*
90785 AATGTATCGATACATTTATGG
1 AATGTATCGATACATTTGTGG
*
90806 AATGTATCGATACATTTGTGA
1 AATGTATCGATACATTTGTGG
90827 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
*
90848 AATGTATCGATACATTTGTGC
1 AATGTATCGATACATTTGTGG
*
90869 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTGG
90890 AATGTATCGATACA
1 AATGTATCGATACA
90904 AAGTCCCAAC
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 92 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTGG
Found at i:90957 original size:19 final size:19
Alignment explanation
Indices: 90933--90994 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
90923 TTTTGAACTT
90933 CAAACAGTTTGTATCGATA
1 CAAACAGTTTGTATCGATA
**
90952 CAAACAGAAAATGTATCGATA
1 CAAACAG--TTTGTATCGATA
*
90973 CATA-AGTGTTGTATCGATA
1 CAAACAGT-TTGTATCGATA
90992 CAA
1 CAA
90995 TGTATCGCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
19 19 0.56
20 2 0.06
21 13 0.38
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (19 bp):
CAAACAGTTTGTATCGATA
Found at i:93574 original size:31 final size:28
Alignment explanation
Indices: 93551--93622 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
93541 TCACAAGCGA
*
93551 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTATTTCATCGG
** ***
93579 GGATACTCCAACCCCGTTACCTCCGAGG
1 GGATACTCCAACCCCGTTATTTCATCGG
93607 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
93623 GCTTTATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.22
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTATTTCATCGG
Found at i:93670 original size:51 final size:51
Alignment explanation
Indices: 93605--93825 Score: 196
Period size: 51 Copynumber: 4.3 Consensus size: 51
93595 TTACCTCCGA
* * * * *
93605 GGGGATACTCCAACCCCGGCTTTATTTTCAAAATATTGATTTCTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTCTCACAATC
* * *
93656 GGGGATACTTCAACCCTGGTTTTA-TTTCTAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACTAATTTCTCACAATC
* * *
93707 GGGGATACTCCAATCCCGGTTTTATCTTCAAAACACCAATTT-TC-CTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTCTCAC---AATC
* *** * * * *
93759 GGGGATACTCCAACTCTAATTTCATTTCCAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACTAATTTCTCACAATC
*
93811 GAGGATACTCCAACC
1 GGGGATACTCCAACC
93826 TCGTTATTTC
Statistics
Matches: 139, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
49 1 0.01
50 6 0.04
51 71 0.51
52 45 0.32
53 13 0.09
54 2 0.01
55 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTCTCACAATC
Found at i:93731 original size:102 final size:104
Alignment explanation
Indices: 93605--93825 Score: 268
Period size: 104 Copynumber: 2.1 Consensus size: 104
93595 TTACCTCCGA
* * *** *
93605 GGGGATACTCCAACCCCGGCTTTATTTTCAAAATATTGA-TTT-CTCATAATCGGGGATACTTCA
1 GGGGATACTCCAACCCCGGCTTTATCTTCAAAACACCAATTTTCCT-ATAATCGGGGATACTCCA
** * * *
93668 ACCCTGGTTTTATTT-CTAAAACACTAATTTTTCACAATC
65 ACCCTAATTTCATTTCCAAAAACACCAATTTTTCACAATC
* * *
93707 GGGGATACTCCAATCCCGGTTTTATCTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGGCTTTATCTTCAAAACACCAATTTTCCTATAATCGGGGATACTCCAA
*
93772 CTCTAATTTCATTTCCAAAAACACCAATTTTTCACAATC
66 CCCTAATTTCATTTCCAAAAACACCAATTTTTCACAATC
*
93811 GAGGATACTCCAACC
1 GGGGATACTCCAACC
93826 TCGTTATTTC
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
102 32 0.32
103 30 0.30
104 37 0.37
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (104 bp):
GGGGATACTCCAACCCCGGCTTTATCTTCAAAACACCAATTTTCCTATAATCGGGGATACTCCAA
CCCTAATTTCATTTCCAAAAACACCAATTTTTCACAATC
Found at i:93859 original size:28 final size:29
Alignment explanation
Indices: 93808--93882 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 29
93798 ATTTTTCACA
* **
93808 ATCGAGGATACTCCAA-CCTCGTTATTTC
1 ATCGGGGATACTCCAACCCTCGTTACCTC
93836 ATCGGGGATACTCCAACCCT-GTTACCTC
1 ATCGGGGATACTCCAACCCTCGTTACCTC
***
93864 CGAGGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
93883 CGACTTCATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
28 37 0.93
29 3 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCCTCGTTACCTC
Found at i:93906 original size:262 final size:263
Alignment explanation
Indices: 93440--93933 Score: 837
Period size: 262 Copynumber: 1.9 Consensus size: 263
93430 AATTGTTTAT
* *
93440 AATCGGGGATACTCCAATCCCGATTTTATTTTCAAAACACTAATTTTCCTTTAATCAGGGATACT
1 AATCGGGGATACTCCAATCCCGATTTTATCTTCAAAACACCAATTTTCCTTTAATCAGGGATACT
* *
93505 CCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAAGCGAGGATACTCCAACCTCGTTA
66 CCAACTCCAATTTCATTTCCAAAAAACACCAATTTTTCACAAGCGAGGATACTCCAACCTCGTTA
* * **
93570 TTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTTCA
131 TTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTCATTCCCA
* *
93635 AAATATTGATTTCTCATAATCGGGGATACTTCAACCCTGGTTTTATTTCTAAAACACTAATTTTT
196 AAATATTGATCTCTCATAATCGGGGATACTCCAACCCTGGTTTTATTTCTAAAACACTAATTTTT
93700 CAC
261 CAC
* *
93703 AATCGGGGATACTCCAATCCCGGTTTTATCTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAATCCCGATTTTATCTTCAAAACACCAATTTTCCTTTAATCAGGGATACT
* *
93768 CCAACTCTAATTTCATTTCC-AAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTA
66 CCAACTCCAATTTCATTTCCAAAAAACACCAATTTTTCACAAGCGAGGATACTCCAACCTCGTTA
*
93832 TTTCATCGGGGATACTCCAACCCTGTTACCTCCGAGGGGATACTCCAACCCCGACTTCATTCCCA
131 TTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTCATTCCCA
*
93897 AAATATTGATCTCTCATAATTGGGGATACTCCAACCC
196 AAATATTGATCTCTCATAATCGGGGATACTCCAACCC
93934 CATTATTTTC
Statistics
Matches: 215, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
262 137 0.64
263 78 0.36
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.31
Consensus pattern (263 bp):
AATCGGGGATACTCCAATCCCGATTTTATCTTCAAAACACCAATTTTCCTTTAATCAGGGATACT
CCAACTCCAATTTCATTTCCAAAAAACACCAATTTTTCACAAGCGAGGATACTCCAACCTCGTTA
TTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTCATTCCCA
AAATATTGATCTCTCATAATCGGGGATACTCCAACCCTGGTTTTATTTCTAAAACACTAATTTTT
CAC
Found at i:101541 original size:16 final size:16
Alignment explanation
Indices: 101520--101550 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
101510 TTTGTTATTA
101520 TGGATGATTTCTCAAT
1 TGGATGATTTCTCAAT
101536 TGGATGATTTCTCAA
1 TGGATGATTTCTCAA
101551 GGTTTACTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (16 bp):
TGGATGATTTCTCAAT
Found at i:103671 original size:21 final size:21
Alignment explanation
Indices: 103647--103689 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
103637 ATTTTTAAAC
* *
103647 TGATTTTGTGTTGTTAATTGT
1 TGATGTTGTGTGGTTAATTGT
103668 TGATGTTGTGTGGTTAATTGT
1 TGATGTTGTGTGGTTAATTGT
103689 T
1 T
103690 CATGAATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.58
Consensus pattern (21 bp):
TGATGTTGTGTGGTTAATTGT
Found at i:103901 original size:32 final size:32
Alignment explanation
Indices: 103865--103927 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
103855 TTTTTCAGAT
*
103865 TGTATCGATACAAAAAAATTGTATCGATACAC
1 TGTATCGATACAAAAAAATTGTATCAATACAC
* **
103897 TGTATCGATGCATTAAAATTGTATCAATACA
1 TGTATCGATACAAAAAAATTGTATCAATACA
103928 TTTCGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (32 bp):
TGTATCGATACAAAAAAATTGTATCAATACAC
Found at i:112997 original size:13 final size:13
Alignment explanation
Indices: 112979--113003 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112969 ATTATGCTTT
112979 GTATCGATACATC
1 GTATCGATACATC
112992 GTATCGATACAT
1 GTATCGATACAT
113004 GTTCATTGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
GTATCGATACATC
Found at i:113016 original size:19 final size:20
Alignment explanation
Indices: 112992--113043 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
112982 TCGATACATC
**
112992 GTATCGATACATGTTC-ATT
1 GTATCGATACATGGACAATT
113011 GTATCGATACATGGACAATT
1 GTATCGATACATGGACAATT
*
113031 ATATCGATACATG
1 GTATCGATACATG
113044 AGATTGGCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (20 bp):
GTATCGATACATGGACAATT
Found at i:113109 original size:13 final size:13
Alignment explanation
Indices: 113088--113118 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
113078 CGATACATGG
*
113088 TACAATGTATCGA
1 TACATTGTATCGA
113101 TACATTGTATCGA
1 TACATTGTATCGA
113114 TACAT
1 TACAT
113119 GTACATGTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:119060 original size:20 final size:18
Alignment explanation
Indices: 119021--119064 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
119011 TTTGATGTTT
119021 ATTATGTTGTGTGAATGA
1 ATTATGTTGTGTGAATGA
*
119039 ATTATGCTTGTTTGATATGA
1 ATTATG-TTGTGTGA-ATGA
119059 ATTATG
1 ATTATG
119065 GTCTATAGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.26
19 7 0.30
20 10 0.43
ACGTcount: A:0.27, C:0.02, G:0.23, T:0.48
Consensus pattern (18 bp):
ATTATGTTGTGTGAATGA
Found at i:119179 original size:13 final size:13
Alignment explanation
Indices: 119161--119187 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
119151 ACAATATTCC
119161 TTGTATCGATACA
1 TTGTATCGATACA
119174 TTGTATCGATACA
1 TTGTATCGATACA
119187 T
1 T
119188 AGGGTACTAT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:121108 original size:21 final size:21
Alignment explanation
Indices: 121067--121143 Score: 93
Period size: 22 Copynumber: 3.6 Consensus size: 21
121057 AGATTTGACA
*
121067 AAAGGGGAGAAATGCTTTGATT
1 AAAGGGGAGAAAT-TTTTGATT
121089 AAAGGGGAGAAATTTTTGATT
1 AAAGGGGAGAAATTTTTGATT
* *
121110 AGAGGGGAGAAATTCTTTAATT
1 AAAGGGGAGAAATT-TTTGATT
121132 -AAGGGAGAGAAA
1 AAAGGG-GAGAAA
121144 AATGAAAACT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
21 24 0.49
22 25 0.51
ACGTcount: A:0.40, C:0.03, G:0.31, T:0.26
Consensus pattern (21 bp):
AAAGGGGAGAAATTTTTGATT
Found at i:125342 original size:14 final size:14
Alignment explanation
Indices: 125319--125348 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
125309 AATATGTGTT
*
125319 TTATCATATTTATG
1 TTATCATATTCATG
125333 TTATCATATTCATG
1 TTATCATATTCATG
125347 TT
1 TT
125349 GATTCATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.57
Consensus pattern (14 bp):
TTATCATATTCATG
Found at i:126419 original size:166 final size:161
Alignment explanation
Indices: 125880--126402 Score: 600
Period size: 166 Copynumber: 3.1 Consensus size: 161
125870 TATAGGGACT
* *
125880 AAAATGAAAATTTTTAAAGTTTAGGGATTAAATAGCAAATTTTAGTTTTTAGAGGTAAAATCATC
1 AAAAT-AAAATTTTAAAAGTTTAGGGATTAAATAGAAAATTTTAGTTTTTAGAGGTAAAATCAT-
* *** *
125945 ATTTTAGTCATTTTTAAAGATTTCTATTATTCTTATGGCCTACCATAGGCATATAGAAATTTTCA
64 ATTTTAGTCATTTTTAAAGATTTTTATTATTCTTATGGCCT-TTGTAGG-GTATAGAAATTTTCA
* * * *
126010 AGACTTCTCGTATCCTCTCAGTTTTCCATCGAGTAC
127 AGACTTTTCGTATCCTCTCGGTTTTTCATTG-GTAC
* *
126046 AAAATAAAATTTTCAAAAGTTTAGGGATTAAATA-ACAAATATTACTTTTTAGAGGTAAAATCAT
1 AAAATAAAATTTT-AAAAGTTTAGGGATTAAATAGA-AAATTTTAGTTTTTAGAGGTAAAATCA-
* *
126110 TATTTTAGTCATTTTTAAAGACTTTTATTATTCCTATGGCCTTTGGTAGGGGTATAGAAATTTTC
63 TATTTTAGTCATTTTTAAAGATTTTTATTATTCTTATGGCCTTT-GTA-GGGTATAGAAATTTTC
* * **
126175 AAGAC-TTTCGTATTCTCTCGATTTTTTGTTAGGTAC
126 AAGACTTTTCGTATCCTCTCGGTTTTTCATT-GGTAC
* * * * * *
126211 GAAATGAAATTTTTAAAAGTTTAGGTATTAAATAGAAAATTTTAGTTCTTTTGTGCTAAAATCAC
1 AAAAT-AAAATTTTAAAAGTTTAGGGATTAAATAGAAAATTTTAGTT-TTTAGAGGTAAAATCA-
* *
126276 TATTTTAGTCATTTTTCAAGATTTTTATTATTCTTATGGCCTTTGTAGAGGTATAAAAATTTTCA
63 TATTTTAGTCATTTTTAAAGATTTTTATTATTCTTATGGCCTTTGTAG-GGTATAGAAATTTTCA
* * *
126341 AGACTTTTCGTATCCTTTTGGTTTTTCACTTGGTAAA
127 AGACTTTTCGTATCCTCTCGGTTTTTCA-TTGGT-AC
126378 AAAATAAAATGTTTAAAAGTTTAGG
1 AAAATAAAAT-TTTAAAAGTTTAGG
126403 AGCTTAATTG
Statistics
Matches: 302, Mismatches: 41, Indels: 27
0.82 0.11 0.07
Matches are distributed among these distances:
164 1 0.00
165 83 0.27
166 194 0.64
167 24 0.08
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (161 bp):
AAAATAAAATTTTAAAAGTTTAGGGATTAAATAGAAAATTTTAGTTTTTAGAGGTAAAATCATAT
TTTAGTCATTTTTAAAGATTTTTATTATTCTTATGGCCTTTGTAGGGTATAGAAATTTTCAAGAC
TTTTCGTATCCTCTCGGTTTTTCATTGGTAC
Found at i:126969 original size:19 final size:18
Alignment explanation
Indices: 126944--127008 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
126934 ATTTCAATGA
126944 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
126962 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
126978 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
126994 TTTTGTATCGATACA
1 -TTTGTATCGATACA
127009 ATGTACCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:126983 original size:13 final size:13
Alignment explanation
Indices: 126965--126989 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
126955 ACATAAGTGT
126965 TGTATCGATACAA
1 TGTATCGATACAA
126978 TGTATCGATACA
1 TGTATCGATACA
126990 TAAGTTTTGT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:126987 original size:32 final size:32
Alignment explanation
Indices: 126946--127013 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
126936 TTCAATGATT
126946 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
126978 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
127010 TGTA
1 TGTA
127014 CCGCTACGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:127079 original size:13 final size:13
Alignment explanation
Indices: 127061--127085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
127051 ATTACTCAAA
127061 TGTATCGATACAT
1 TGTATCGATACAT
127074 TGTATCGATACA
1 TGTATCGATACA
127086 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:131938 original size:20 final size:19
Alignment explanation
Indices: 131892--131943 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
131882 TGTATCGATA
* *
131892 CATTGTATTGACACATGCT
1 CATTGTATTGATACATACT
*
131911 CCTTGTATTGATACATACT
1 CATTGTATTGATACATACT
*
131930 CAATTGTATCGATA
1 C-ATTGTATTGATA
131944 TATGAAACTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.38
Consensus pattern (19 bp):
CATTGTATTGATACATACT
Found at i:139049 original size:28 final size:28
Alignment explanation
Indices: 138951--139473 Score: 587
Period size: 28 Copynumber: 17.9 Consensus size: 28
138941 TAAAAAAAAT
* *
138951 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAA
1 GTGCCACTGAC-T-TGTGGGCTTTG-AAAG-G
* * *
138983 TTGCCACAGACTCGTGTGGGCTTTGAAAAGA
1 GTGCCACTGACT--TGTGGGCTTTG-AAAGG
139014 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
139042 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
139070 ATGCCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
* *
139099 GTGCCATTGACTGGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
139127 GTGCCACTGACTAGCGTGGGCTTTGAAAGG
1 GTGCCACTGACT--TGTGGGCTTTGAAAGG
*
139157 GTGCCACTGACTTGTGAGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
139185 ATGCCATTGACTTGTGGGCTTTGAAAAGAG
1 GTGCCACTGACTTGTGGGCTTTG-AAAG-G
* *
139215 TTGCCACTGACTCGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
139243 ATGCCACTAACTTATGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
139271 ATGCCACTGACTTGTGGGCTTTGAAAAGAG
1 GTGCCACTGACTTGTGGGCTTTG-AAAG-G
* *
139301 TTGCCACTGACTCGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
139329 ATGCCACTAACTTGTGGGCTTTGAAAGGATGAAAG
1 GTGCCACTGACTTGTGGGCTTTG-AA--A-G---G
139364 GATGCCACTGACTTGTGGGCTTTGAAAGG
1 G-TGCCACTGACTTGTGGGCTTTGAAAGG
*
139393 ATGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
139421 ATGCCACTGACTTGTGGGCTTTAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
139449 GTACCACTGACTTGTGGGCTTTGAA
1 GTGCCACTGACTTGTGGGCTTTGAA
139474 GAGATGAACG
Statistics
Matches: 432, Mismatches: 43, Indels: 36
0.85 0.08 0.07
Matches are distributed among these distances:
28 244 0.56
29 53 0.12
30 70 0.16
31 13 0.03
32 27 0.06
33 1 0.00
35 3 0.01
36 21 0.05
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.28
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:139183 original size:58 final size:56
Alignment explanation
Indices: 138965--139473 Score: 613
Period size: 58 Copynumber: 8.7 Consensus size: 56
138955 CACTAACTTG
** * *
138965 TGTGGGCTTTGAAAAGAATTGCCACAGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT--TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
139026 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
139082 TGTGGGCTTTGAAAAGAGTGCCATTGACTGGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * *
139139 AGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGAGCTTTGAAAGGATGCCATTGACT
1 --TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * *
139197 TGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * *
139255 TATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCACTGACT
* * *
139313 CGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC-TT-------TGAAAGGATGCCACTGACT
*
139377 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * *
139433 TGTGGGCTTTAAAAGAGTACCACTGACTTGTGGGCTTTGAA
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAA
139474 GAGATGAACG
Statistics
Matches: 395, Mismatches: 38, Indels: 35
0.84 0.08 0.07
Matches are distributed among these distances:
56 109 0.28
57 68 0.17
58 128 0.32
59 22 0.06
60 4 0.01
61 11 0.03
63 2 0.01
64 45 0.11
65 4 0.01
66 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (56 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:139240 original size:86 final size:85
Alignment explanation
Indices: 138966--139473 Score: 673
Period size: 86 Copynumber: 5.8 Consensus size: 85
138956 ACTAACTTGT
*
138966 GTGGGCTTTGAAAAGAATTGCCAC-AGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTG
1 GTGGGCTTTG-AAAGGA-TGCCACTA-ACT--TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTG
*
139030 GGCTTTGAAAGGGTGCCACTGACTT
61 GGCTTTGAAAGGGTGCCACTGACTC
* *
139055 GTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCATTGACTGGTGGGCTT
1 GTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
139120 TGAAAGGGTGCCACTGACTAGC
66 TGAAAGGGTGCCACTGACT--C
* * * * *
139142 GTGGGCTTTGAAAGGGTGCCACTGACTTGTGAGCTTTGAAAGGA-TGCCATTGACTTGTGGGCTT
1 GTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
*
139206 TGAAAAGAGTTGCCACTGACTC
66 TG-AAAG-GGTGCCACTGACTC
* *
139228 GTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTT
1 GTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
*
139292 TGAAAAGAGTTGCCACTGACTC
66 TG-AAAG-GGTGCCACTGACTC
139314 GTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGAAAGGATGCCACTGACTTG
1 GTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAA--A-G--A-G-TGCCACTGACTTG
* *
139379 TGGGCTTTGAAAGGATGCCACTGACTT
59 TGGGCTTTGAAAGGGTGCCACTGACTC
* *
139406 GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT-AAAAGAGTACCACTGACTTGTGGGCTT
1 GTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
139470 TGAA
66 TGAA
139474 GAGATGAACG
Statistics
Matches: 385, Mismatches: 21, Indels: 31
0.88 0.05 0.07
Matches are distributed among these distances:
84 23 0.06
85 56 0.15
86 144 0.37
87 53 0.14
88 19 0.05
89 12 0.03
91 4 0.01
92 48 0.12
93 4 0.01
94 22 0.06
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (85 bp):
GTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
TGAAAGGGTGCCACTGACTC
Found at i:139369 original size:36 final size:36
Alignment explanation
Indices: 139322--139395 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
139312 TCGTGGGCTT
139322 TGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGA
1 TGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGA
*
139358 TGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
1 TGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGA
139394 TG
1 TG
139396 CCACTGACTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (36 bp):
TGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGA
Found at i:139427 original size:92 final size:94
Alignment explanation
Indices: 139264--139447 Score: 318
Period size: 92 Copynumber: 2.0 Consensus size: 94
139254 TTATGGGCTT
*
139264 TGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGG
1 TGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGATGCCACTGACTCGTGGGCTTTGAAAGG
*
139329 ATGCCACTAACTTGTGGGCTTTGAAAGGA
66 ATGCCACTAACTTGTGGGCTTTAAAAGGA
*
139358 TGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTGAAAGG
1 TGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGATGCCACTGACTCGTGGGCTTTGAAAGG
*
139421 ATGCCACTGACTTGTGGGCTTTAAAAG
66 ATGCCACTAACTTGTGGGCTTTAAAAG
139448 AGTACCACTG
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
92 52 0.60
93 4 0.05
94 30 0.35
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (94 bp):
TGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGATGCCACTGACTCGTGGGCTTTGAAAGG
ATGCCACTAACTTGTGGGCTTTAAAAGGA
Found at i:140718 original size:10 final size:10
Alignment explanation
Indices: 140687--140740 Score: 72
Period size: 10 Copynumber: 5.2 Consensus size: 10
140677 TCTGGACCCC
140687 TTTTTGTTTT
1 TTTTTGTTTT
* *
140697 TTATTATTTT
1 TTTTTGTTTT
140707 TTTCTTGGTTTT
1 TTT-TT-GTTTT
140719 TTTTTGTTTT
1 TTTTTGTTTT
140729 TTTTTGTTTT
1 TTTTTGTTTT
140739 TT
1 TT
140741 CTATTTTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
10 27 0.71
11 4 0.11
12 7 0.18
ACGTcount: A:0.04, C:0.02, G:0.09, T:0.85
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:154756 original size:20 final size:20
Alignment explanation
Indices: 154731--154804 Score: 96
Period size: 20 Copynumber: 3.7 Consensus size: 20
154721 GTAAAAAGAC
*
154731 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTAA
*
154751 AGAATGTATCGATACATTCAT
1 AGAATGTATCGATACATT-AA
*
154772 A-CATGTATCGATACATTAA
1 AGAATGTATCGATACATTAA
*
154791 AAAATGTATCGATA
1 AGAATGTATCGATA
154805 TATCTGGGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 2 0.04
20 44 0.94
21 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTAA
Found at i:158984 original size:52 final size:49
Alignment explanation
Indices: 158844--159527 Score: 466
Period size: 49 Copynumber: 14.4 Consensus size: 49
158834 TAATATGGCT
* * * * * *
158844 AGCGATATTGGGCTCAAAGATGCGAAGAATGACAATGTGCTGATTCATGGCC
1 AGCGACATTGGACTTAAAGAT--GAAG-ATGCCAATATGCTGATTCAAGGCC
* * * * * **
158896 AGCGGCATTAGACTTGAAGAAG-A-ATGCCAATGTGCTGAGACAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* * *
158943 AGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGCC
1 AGCGACATTGGACTTA--AA-GATGAAGATGCCAATATGCTGATTCAAGGCC
* * * * * *
158995 AACGATATCGGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAAGGCT
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* **
159044 AGCGACATTGGTCTTAAAAATGATGAAGGCGCCAATATGCTGATTCAAGGCC
1 AGCGACATTGGACTT--AAA-GATGAAGATGCCAATATGCTGATTCAAGGCC
* * * *
159096 AGCGATATTGGACTTAAAGATGAAGGTGCCAATATACTGATTCAAGTCC
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* * *
159145 AGCGACATTGGACTTAAAGACGACAAAGGTGCCAATATGTTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATG---AAGATGCCAATATGCTGATTCAAGGCC
* * *
159197 AACGATATTGGAC-T-----T---G-TGCCAATGTGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* * *
159236 AGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* * * *
159284 AGCGATATTGGGC-T-----T---G-TGCCAATGTGCTGATTCAAGGCT
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* ** * *
159323 AGCGACATTGGTCTTAAA-AACAAGGTGCCAATATGCTGATTTAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* * *
159371 AGCGATATTGGGC-T-----T----ATGCCAATGTGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* * *
159410 AGCGACATTGGTCTTAAAGAT-AAGGTGCCAATATGTTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* * * * * *
159458 AGCAATATTGGACTTAGAGATGAAGGTGCCAATGTACTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
*
159507 AACGACATTGGACTTAGAAGA
1 AGCGACATTGGACTTA-AAGA
159528 AGATGTCACC
Statistics
Matches: 501, Mismatches: 89, Indels: 86
0.74 0.13 0.13
Matches are distributed among these distances:
39 95 0.19
40 5 0.01
45 1 0.00
47 36 0.07
48 102 0.20
49 126 0.25
50 10 0.02
51 5 0.01
52 121 0.24
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
AGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
Found at i:159050 original size:101 final size:94
Alignment explanation
Indices: 158876--159527 Score: 583
Period size: 87 Copynumber: 6.9 Consensus size: 94
158866 CGAAGAATGA
* * ** * ** **
158876 CAATGTGCTGATTCATGGCCAGCGGCATTAGACTTGAAGAAGAATGCCAATGTGCTGAGACAAGG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-TGCTGAAG-ATGCCAATGTGCTGATTCAAGG
* * *
158941 CCAGCGACATTGGGCTTAGGAATGTTAAAGATGC
64 CCAGCGACATTGGTCTTA--AA-GATAAAGGTGC
* *
158975 CAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-T---GCTGAAGATGCCAATGTGCTGATTCAA
* * *
159040 GGCTAGCGACATTGGTCTTAAAAATGATGAAGGCGC
62 GGCCAGCGACATTGGTCTT--AAA-GATAAAGGTGC
* * * *
159076 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATACTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-T---GCTGAAGATGCCAATGTGCTGATTCAA
* * *
159141 GTCCAGCGACATTGGACTTAAAGACGACAAAGGTGC
62 GGCCAGCGACATTGGTCTT-AA-A-GATAAAGGTGC
* *
159177 CAATATGTTGATTCAAGGCCAACGATATTGGACT--T---G-TGCCAATGTGCTGATTCAAGGCC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTGCTGAAGATGCCAATGTGCTGATTCAAGGCC
*
159236 AGCGACATTGGTCTTAAAGA-CAAGGTGC
66 AGCGACATTGGTCTTAAAGATAAAGGTGC
* *
159264 CAATATGCTGATTCAAGGCCAGCGATATTGG---GCT--TG-TGCCAATGTGCTGATTCAAGGCT
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTGCTGAAGATGCCAATGTGCTGATTCAAGGCC
159323 AGCGACATTGGTCTTAAA-A-ACAAGGTGC
66 AGCGACATTGGTCTTAAAGATA-AAGGTGC
* *
159351 CAATATGCTGATTTAAGGCCAGCGATATTGG---GCT---TATGCCAATGTGCTGATTCAAGGCC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTGCTGAAGATGCCAATGTGCTGATTCAAGGCC
159410 AGCGACATTGGTCTTAAAGAT-AAGGTGC
66 AGCGACATTGGTCTTAAAGATAAAGGTGC
* * * * *
159438 CAATATGTTGATTCAAGGCCAGCAATATTGGACTTAGAGATGAAGGTGCCAATGTACTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-T---GCTGAAGATGCCAATGTGCTGATTCAA
* *
159503 GGCCAACGACATTGGACTTAGAAGA
62 GGCCAGCGACATTGGTCTTA-AAGA
159528 AGATGTCACC
Statistics
Matches: 476, Mismatches: 53, Indels: 49
0.82 0.09 0.08
Matches are distributed among these distances:
86 2 0.00
87 192 0.40
88 3 0.01
89 1 0.00
90 2 0.00
91 34 0.07
92 1 0.00
94 2 0.00
95 1 0.00
97 36 0.08
98 4 0.01
99 28 0.06
100 4 0.01
101 160 0.34
102 5 0.01
103 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (94 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTGCTGAAGATGCCAATGTGCTGATTCAAGGCC
AGCGACATTGGTCTTAAAGATAAAGGTGC
Found at i:159228 original size:39 final size:39
Alignment explanation
Indices: 159173--159420 Score: 208
Period size: 39 Copynumber: 5.9 Consensus size: 39
159163 GACGACAAAG
* * * *
159173 GTGCCAATATGTTGATTCAAGGCCAACGATATTGGACTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* *
159212 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
*
159251 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
159299 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* *
159338 AAAAACAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* *
159386 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGG
159421 TCTTAAAGAT
Statistics
Matches: 170, Mismatches: 21, Indels: 36
0.75 0.09 0.16
Matches are distributed among these distances:
39 100 0.59
48 70 0.41
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
Found at i:159283 original size:48 final size:47
Alignment explanation
Indices: 159212--159528 Score: 306
Period size: 48 Copynumber: 7.0 Consensus size: 47
159202 TATTGGACTT
159212 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-AAG
* * *
159260 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT--------
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAG
* *
159299 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAAACAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-AAG
* * * *
159347 GTGCCAATATGCTGATTTAAGGCCAGCGATATTGGGCTT------A-
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAG
159387 -TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-AAG
* * * * * *
159434 GTGCCAATATGTTGATTCAAGGCCAGCAATATTGGACTTAGAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA--AAG
* * *
159483 GTGCCAATGTACTGATTCAAGGCCAACGACATTGGACTTAGAAGAA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA-AAGAA
159529 GATGTCACCA
Statistics
Matches: 219, Mismatches: 30, Indels: 40
0.76 0.10 0.14
Matches are distributed among these distances:
39 69 0.32
41 1 0.00
46 1 0.00
48 108 0.49
49 37 0.17
50 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (47 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAG
Found at i:159673 original size:34 final size:34
Alignment explanation
Indices: 159627--159917 Score: 228
Period size: 34 Copynumber: 9.0 Consensus size: 34
159617 GGTTGAAAGG
* *
159627 GAAAAAAAAGTGCCATGGAGTTGTGGGCTTAAAA
1 GAAAAAAGAGTGCCATGGAGTTGTGGACTTAAAA
*
159661 GAAAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
1 GAAAAAAGAGTGCCATGGAGTTGTGGACTTAAAA
* * *
159695 GGAAAAAGAATGCCATGGAGTTGTGGCCTTAAAA
1 GAAAAAAGAGTGCCATGGAGTTGTGGACTTAAAA
* *
159729 GGAAAAAAAAAAGTGCCATGGAGTTGTGGCCTTAAAA
1 -G--AAAAAAGAGTGCCATGGAGTTGTGGACTTAAAA
* *
159766 G------G-GTGTCACGGAGTTGTGGACTTAAAA
1 GAAAAAAGAGTGCCATGGAGTTGTGGACTTAAAA
*
159793 G------GA-TGCCATGGAGTTGTGGACTT---T
1 GAAAAAAGAGTGCCATGGAGTTGTGGACTTAAAA
* * * *
159817 GAAAAGAGATTGCCACT-GAGTCGTAGACTTAAAA
1 GAAAAAAGAGTGCCA-TGGAGTTGTGGACTTAAAA
*
159851 GGAAAAAA-A-TGCCACGGAGTTGTGGACTTAAAA
1 -GAAAAAAGAGTGCCATGGAGTTGTGGACTTAAAA
* *
159884 GGAAAAAGA-TGCCACGGAGTTGTGGACTTAAAA
1 GAAAAAAGAGTGCCATGGAGTTGTGGACTTAAAA
159917 G
1 G
159918 GATGCCACAG
Statistics
Matches: 214, Mismatches: 25, Indels: 37
0.78 0.09 0.13
Matches are distributed among these distances:
24 1 0.00
27 42 0.20
30 2 0.01
31 16 0.07
32 7 0.03
33 46 0.21
34 62 0.29
35 7 0.03
36 1 0.00
37 30 0.14
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.21
Consensus pattern (34 bp):
GAAAAAAGAGTGCCATGGAGTTGTGGACTTAAAA
Found at i:159778 original size:27 final size:27
Alignment explanation
Indices: 159742--159939 Score: 162
Period size: 27 Copynumber: 6.7 Consensus size: 27
159732 AAAAAAAAAG
* * *
159742 TGCCATGGAGTTGTGGCCTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
159769 TGTCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
159796 TGCCATGGAGTTGTGGACTTTGAAAAGAGA
1 TGCCACGGAGTTGTGGAC-TT-AAAAG-GA
* * *
159826 TTGCCACTGAGTCGTAGACTTAAAAGGAAAAAAA
1 -TGCCACGGAGTTGTGGACTTAAAAGG------A
159860 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAA-G-----GA
159893 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
159920 TGCCACAGAGTTATGGACTT
1 TGCCACGGAGTTGTGGACTT
159940 TGAGAAAAGA
Statistics
Matches: 140, Mismatches: 15, Indels: 32
0.75 0.08 0.17
Matches are distributed among these distances:
27 59 0.42
28 3 0.02
29 10 0.07
30 4 0.03
31 14 0.10
32 1 0.01
33 46 0.33
34 2 0.01
39 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:159890 original size:155 final size:153
Alignment explanation
Indices: 159664--160034 Score: 455
Period size: 155 Copynumber: 2.4 Consensus size: 153
159654 CTTAAAAGAA
* * * *
159664 AAAAGAG-TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCATGGAGTTGTGGCCTTAAA
1 AAAAGAGATGCCACTGAGTCGTGGACTTAAAAGGAAAAA-AATGCCACGGAGTTGTGGACTTAAA
* * * * * *
159728 AGGAAAAAAAAAAGTGCCATGGAGTTGTGGCCTTAAAAGGGTGTCACGGAGTTGTGGAC-TT-AA
65 AGG---AAAAAAA-TGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTATGGACTTTGAA
159791 AAG-GATGCCATGGAGTTGTGGACTTTG
126 AAGAGATGCCATGGAGTTGTGGACTTTG
*
159818 AAAAGAGATTGCCACTGAGTCGTAGACTTAAAAGGAAAAAAATGCCACGGAGTTGTGGACTTAAA
1 AAAAGAGA-TGCCACTGAGTCGTGGACTTAAAAGGAAAAAAATGCCACGGAGTTGTGGACTTAAA
*
159883 AGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTATGGACTTTGAGAAAA
65 AGGAAAAAAATGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTATGGACTTT--GAAAA
* *
159948 GAGATACCATTGAGTTGTGGACTTTG
128 GAGATGCCATGGAGTTGTGGACTTTG
* ** * *
159974 AGAAGAGATGCCACTGAGTCGTGGACTTTGAA-GAAAAAAGATGCCACTGAGTCGTGGACTT
1 AAAAGAGATGCCACTGAGTCGTGGACTTAAAAGGAAAAAA-ATGCCACGGAGTTGTGGACTT
160035 TGAAAAGAGA
Statistics
Matches: 189, Mismatches: 20, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
151 39 0.21
152 8 0.04
154 14 0.07
155 71 0.38
156 57 0.30
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (153 bp):
AAAAGAGATGCCACTGAGTCGTGGACTTAAAAGGAAAAAAATGCCACGGAGTTGTGGACTTAAAA
GGAAAAAAATGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTATGGACTTTGAAAAGAG
ATGCCATGGAGTTGTGGACTTTG
Found at i:159920 original size:124 final size:121
Alignment explanation
Indices: 159772--160034 Score: 312
Period size: 122 Copynumber: 2.1 Consensus size: 121
159762 AAAAGGGTGT
** * *
159772 CACGGAGTTGTGGACTTAAAAGGATGCCATGGAGTTGTGGACTTT-GAAAAGAGATTGCCACTGA
1 CACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTATGGACTTTAGAAAAGAGA-TACCACTGA
* *
159836 GTCGTAGACTTAAAAGGAAAAAAATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGC
65 GTCGTAGACTT-AAA-G-AAAAAATGCCACGGAGTCGTGGACTTAAAAGAAAAAAGATGC
*
159896 CACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTATGGACTTTGAGAAAAGAGATACCATTGA
1 CACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTATGGACTTT-AGAAAAGAGATACCACTGA
* * ** * * * **
159961 GTTGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGC
65 GTCGTAGACTTAAAGAAAAAATGCCACGGAGTCGTGGACTTAAAAGAAAAAAGATGC
* *
160018 CACTGAGTCGTGGACTT
1 CACGGAGTTGTGGACTT
160035 TGAAAAGAGA
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
122 50 0.42
123 1 0.01
124 43 0.36
125 16 0.13
126 9 0.08
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (121 bp):
CACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTATGGACTTTAGAAAAGAGATACCACTGAG
TCGTAGACTTAAAGAAAAAATGCCACGGAGTCGTGGACTTAAAAGAAAAAAGATGC
Found at i:159982 original size:30 final size:31
Alignment explanation
Indices: 159790--160045 Score: 188
Period size: 33 Copynumber: 8.3 Consensus size: 31
159780 TGTGGACTTA
*
159790 AAAG-GATGCCA-TGGAGTTGTGGACTTTGA-
1 AAAGAGATGCCACT-GAGTCGTGGACTTTGAG
* **
159819 AAAGAGATTGCCACTGAGTCGTAGACTTAAAAGG
1 AAAGAGA-TGCCACTGAGTCGTGGACTT-TGA-G
* * * * **
159853 AAAAAAATGCCACGGAGTTGTGGACTTAAAAGG
1 AAAGAGATGCCACTGAGTCGTGGACTT-TGA-G
* * *
159886 AAAAAGATGCCACGGAGTTGTGGAC-TT-A-
1 AAAGAGATGCCACTGAGTCGTGGACTTTGAG
* **
159914 AAAG-GATGCCACAGAGTTATGGACTTTGAG
1 AAAGAGATGCCACTGAGTCGTGGACTTTGAG
* * *
159944 AAAAGAGATACCATTGAGTTGTGGACTTTGAG
1 -AAAGAGATGCCACTGAGTCGTGGACTTTGAG
159976 -AAGAGATGCCACTGAGTCGTGGACTTTGAAG
1 AAAGAGATGCCACTGAGTCGTGGACTTTG-AG
*
160007 AAAAAAGATGCCACTGAGTCGTGGACTTTGA-
1 -AAAGAGATGCCACTGAGTCGTGGACTTTGAG
160038 AAAGAGAT
1 AAAGAGAT
160046 TTGAAGAATT
Statistics
Matches: 190, Mismatches: 23, Indels: 27
0.79 0.10 0.11
Matches are distributed among these distances:
27 18 0.09
28 5 0.03
29 5 0.03
30 35 0.18
31 22 0.12
32 26 0.14
33 74 0.39
34 5 0.03
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.23
Consensus pattern (31 bp):
AAAGAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:160033 original size:63 final size:63
Alignment explanation
Indices: 159776--160045 Score: 238
Period size: 63 Copynumber: 4.4 Consensus size: 63
159766 GGGTGTCACG
** *
159776 GAGTTGTGGAC-TT-AAAAG-GATGCCATGGAGTTGTGGACTTT---GAAAAGAGATTGCCACT
1 GAGTTGTGGACTTTGAAAAGAGATGCCACAGAGTTGTGGACTTTGAAGAAAAAAGA-TGCCACT
* * * * * ** *
159834 GAGTCGTAGACTTAAAAGGAAAA-AAATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCA
1 GAGTTGTGGACTT----TGAAAAGAGATGCCACAGAGTTGTGGACTTTGAAGAAAAAAGATGCCA
*
159898 CG
62 CT
* * * *
159900 GAGTTGTGGAC-TT-AAAAG-GATGCCACAGAGTTATGGACTTTG-AGAAAAGAGATACCATT
1 GAGTTGTGGACTTTGAAAAGAGATGCCACAGAGTTGTGGACTTTGAAGAAAAAAGATGCCACT
* * *
159959 GAGTTGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACT
1 GAGTTGTGGACTTTGAAAAGAGATGCCACAGAGTTGTGGACTTTGAAGAAAAAAGATGCCACT
*
160022 GAGTCGTGGACTTTGAAAAGAGAT
1 GAGTTGTGGACTTTGAAAAGAGAT
160046 TTGAAGAATT
Statistics
Matches: 166, Mismatches: 31, Indels: 25
0.75 0.14 0.11
Matches are distributed among these distances:
58 9 0.05
59 24 0.14
60 25 0.15
61 4 0.02
62 21 0.13
63 36 0.22
64 24 0.14
65 1 0.01
66 15 0.09
67 7 0.04
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (63 bp):
GAGTTGTGGACTTTGAAAAGAGATGCCACAGAGTTGTGGACTTTGAAGAAAAAAGATGCCACT
Found at i:161346 original size:23 final size:23
Alignment explanation
Indices: 161320--161364 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
161310 CTTGGTATTT
161320 TTTTTGTGTGTTGTTTTTTTTTG
1 TTTTTGTGTGTTGTTTTTTTTTG
* *
161343 TTTTTGTTTTTTGTTTTTTTTT
1 TTTTTGTGTGTTGTTTTTTTTT
161365 TTACTTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (23 bp):
TTTTTGTGTGTTGTTTTTTTTTG
Found at i:161362 original size:16 final size:16
Alignment explanation
Indices: 161317--161363 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
161307 TGCCTTGGTA
*
161317 TTTTTTTTGTGTGTTGT
1 TTTTTTTTGT-TTTTGT
161334 TTTTTTTTGTTTTTGT
1 TTTTTTTTGTTTTTGT
161350 TTTTTGTTT-TTTTT
1 TTTTT-TTTGTTTTT
161364 TTTACTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 15 0.54
17 13 0.46
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (16 bp):
TTTTTTTTGTTTTTGT
Found at i:161373 original size:13 final size:12
Alignment explanation
Indices: 161317--161366 Score: 64
Period size: 13 Copynumber: 3.9 Consensus size: 12
161307 TGCCTTGGTA
*
161317 TTTTTTTTGTGTG
1 TTTTTTTT-TTTG
161330 TTGTTTTTTTTTG
1 TT-TTTTTTTTTG
161343 TTTTTGTTTTTTG
1 TTTTT-TTTTTTG
161356 TTTTTTTTTTT
1 TTTTTTTTTTT
161367 ACTTTTTCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
12 9 0.26
13 19 0.56
14 6 0.18
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:169334 original size:52 final size:50
Alignment explanation
Indices: 169218--169829 Score: 401
Period size: 49 Copynumber: 12.8 Consensus size: 50
169208 CGAAGAATGA
* * * * *
169218 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAA-GAAGAA--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGATGAAGGTGC
* ** * * * *
169265 CAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTA--AATGATGAAGGTGC
* * * * * *
169317 CAATATGTTGATTCAAGGCCAACGATATCGGACTTAAA-GCTGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGATGAAGGTGC
* * * * *
169366 CAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATGACGAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AA-ATGATGAAGGTGC
* *
169418 TAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-GATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGATGAAGGTGC
* * * * *
169467 CAATGTACTGATTCAAGGCCAACAACATTGGACTTAAA-GATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGATG---AAGGTGC
*
169519 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-----T--T--A--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGATGAAGGTGC
* * * ** *
169558 CAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAA--AACAAGGTAC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGATGAAGGTGC
* *
169606 CAATATGCTGATTCAAGGCCAGCGATATTGGGC-----T--T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGATGAAGGTGC
* * * * * *
169645 CAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAGA-GA-CAAGCTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGATGAAGGTGC
* * * * *
169693 CAATATGCTGATTCAAGGCCAGTGATATTGGACTCAAGATGGTAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA-ATGATGAAGGTGC
* * * *
169744 CAATATGCTAATTCAAGGCCAACGATATTGGACTTAGA-GATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGATGAAGGTGC
* * *
169793 CAATGTGCTGATTCAA-GCCAACAACATTGGACTTAAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
169830 AGAAGACGTC
Statistics
Matches: 439, Mismatches: 89, Indels: 73
0.73 0.15 0.12
Matches are distributed among these distances:
39 63 0.14
41 1 0.00
46 2 0.00
47 30 0.07
48 82 0.19
49 108 0.25
50 10 0.02
51 41 0.09
52 102 0.23
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (50 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGATGAAGGTGC
Found at i:169390 original size:101 final size:101
Alignment explanation
Indices: 169218--169829 Score: 506
Period size: 101 Copynumber: 6.4 Consensus size: 101
169208 CGAAGAATGA
* * * * * * **
169218 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAG-A-ATGCCAATGTGCTGAGACAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
* * ** **
169281 GGCCAGCGACATTGGGCTT-AGGAATGTTAAAGATGC
66 GGCCAGCGACATTGGACTTAAAG-ATGACAAAGGCGC
* * * *
169317 CAATATGTTGATTCAAGGCCAACGATATCGGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
* * *
169382 GGCTAGCGACATTGGTCTTAAAGATGACGAAGGCGC
66 GGCCAGCGACATTGGACTTAAAGATGACAAAGGCGC
* * *
169418 TAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTACTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
* *
169483 GGCCAACAACATTGGACTTAAAGATGACAAAGGCGC
66 GGCCAGCGACATTGGACTTAAAGATGACAAAGGCGC
169519 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T----ATGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
* * **
169574 GGCTAGCGACATTGGTCTTAAA-A--AC-AAGGTAC
66 GGCCAGCGACATTGGACTTAAAGATGACAAAGGCGC
* *
169606 CAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T---G-TGCCAATGTGTTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
*
169661 GGCCAGCGACATTGGTCTT--AGA-GAC-AA-GCTGC
66 GGCCAGCGACATTGGACTTAAAGATGACAAAGGC-GC
* * * * *
169693 CAATATGCTGATTCAAGGCCAGTGATATTGGAC-TCAAGATGGTAAAGGTGCCAATATGCTAATT
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGATGCCAATGTGCTGATT
* * * *
169757 CAAGGCCAACGATATTGGACTTAGAGATG---AAGGTGC
63 CAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGC
* * * *
169793 CAATGTGCTGATTCAA-GCCAACAACATTGGACTTAAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
169830 AGAAGACGTC
Statistics
Matches: 428, Mismatches: 61, Indels: 47
0.80 0.11 0.09
Matches are distributed among these distances:
85 1 0.00
86 2 0.00
87 112 0.26
88 2 0.00
90 1 0.00
91 36 0.08
92 1 0.00
95 1 0.00
98 1 0.00
99 76 0.18
100 24 0.06
101 168 0.39
102 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (101 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
GGCCAGCGACATTGGACTTAAAGATGACAAAGGCGC
Found at i:169571 original size:39 final size:39
Alignment explanation
Indices: 169517--169680 Score: 157
Period size: 39 Copynumber: 4.0 Consensus size: 39
169507 TGACAAAGGC
* *
169517 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAT
* *
169556 GCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAAACAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT-------A--T
* * * *
169604 ACCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAT
* *
169643 GCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTA
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA
169681 GAGACAAGCT
Statistics
Matches: 100, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
39 66 0.66
46 1 0.01
48 33 0.33
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (39 bp):
GCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAT
Found at i:169630 original size:48 final size:47
Alignment explanation
Indices: 169555--169830 Score: 201
Period size: 48 Copynumber: 5.9 Consensus size: 47
169545 ATTGGACTTA
* * *
169555 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAAACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAA-AAGG
* * *
169603 TACCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT--------G
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAAAAGG
* * * * * *
169642 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGC
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA-AAAAAAGG
* * * *
169690 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTCAAGATGGTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA-A---AAAAGG
* * * **
169741 TGCCAATATGCTAATTCAAGGCCAACGATATTGGACTTAGAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA-A-AAAAAGG
* * *
169790 TGCCAATGTGCTGATTCAA-GCCAACAACATTGGACTTAAAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAA
169831 GAAGACGTCA
Statistics
Matches: 183, Mismatches: 31, Indels: 30
0.75 0.13 0.12
Matches are distributed among these distances:
39 34 0.19
46 1 0.01
47 2 0.01
48 83 0.45
49 22 0.12
51 38 0.21
52 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (47 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAAAAGG
Found at i:169646 original size:87 final size:87
Alignment explanation
Indices: 169463--169726 Score: 366
Period size: 87 Copynumber: 3.0 Consensus size: 87
169453 AAAGATGAAG
* * * * *
169463 GTGCCAATGTACTGATTCAAGGCCAACAACATTGGACTTAAAGATGACAAAGGCGCCAATATGCT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA-A--AC-AAGGTGCCAATATGCT
169528 GATTCAAGGCCAGCGATATTGGACTT
62 GATTCAAGGCCAGCGATATTGGACTT
* * *
169554 ATGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAAACAAGGTACCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAACAAGGTGCCAATATGCTGATT
*
169619 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGACTT
* * * *
169641 GTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGCTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAACAAGGTGCCAATATGCTGATT
*
169706 CAAGGCCAGTGATATTGGACT
66 CAAGGCCAGCGATATTGGACT
169727 CAAGATGGTA
Statistics
Matches: 155, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
87 116 0.75
88 2 0.01
90 1 0.01
91 36 0.23
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTT
Found at i:169822 original size:99 final size:99
Alignment explanation
Indices: 169641--169825 Score: 237
Period size: 99 Copynumber: 1.9 Consensus size: 99
169631 TATTGGGCTT
* * * * *
169641 GTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGCTGCCAATATGCTGATT
1 GTGCCAATATGCTAATTCAAGGCCAACGACATTGGACTTAGAGACAAGCTGCCAATATGCTGATT
*** *
169706 CAAGGCCAGTGATATTGGACTCAAGATGGTAAAG
66 CAAGGCCAACAACATTGGACTCAAGATGGTAAAG
* * * *
169740 GTGCCAATATGCTAATTCAAGGCCAACGATATTGGACTTAGAGATGAAGGTGCCAATGTGCTGAT
1 GTGCCAATATGCTAATTCAAGGCCAACGACATTGGACTTAGAGA-CAAGCTGCCAATATGCTGAT
169805 TCAA-GCCAACAACATTGGACT
65 TCAAGGCCAACAACATTGGACT
169826 TAAAAGAAGA
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
99 51 0.71
100 21 0.29
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (99 bp):
GTGCCAATATGCTAATTCAAGGCCAACGACATTGGACTTAGAGACAAGCTGCCAATATGCTGATT
CAAGGCCAACAACATTGGACTCAAGATGGTAAAG
Found at i:169913 original size:57 final size:59
Alignment explanation
Indices: 169849--169973 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 59
169839 CACCAACTTG
* * *
169849 TGTGGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGCTTTTG-AAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTGAAAGGATGCCACTAACT
* *
169906 TGTGGGC-TTTGAAAGGGGTGCCACCGACTTGTGGGCTTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTG-AAAGGATGCCACTAACT
169965 TGTGGGCTT
1 TGTGGGCTT
169974 AAAAGGAGAA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
56 12 0.20
57 25 0.42
59 21 0.36
60 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (59 bp):
TGTGGGCTTTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTGAAAGGATGCCACTAACT
Found at i:169949 original size:30 final size:30
Alignment explanation
Indices: 169839--169973 Score: 152
Period size: 29 Copynumber: 4.6 Consensus size: 30
169829 AAGAAGACGT
169839 CACCAACTTGTGTGGGCTTTTGAAAGGGTTG-
1 CACCAAC-T-TGTGGGCTTTTGAAAGGGTTGC
*
169870 CACCAACTTGTGTGCTTTTG-AA-GGTTGC
1 CACCAACTTGTGGGCTTTTGAAAGGGTTGC
* *
169898 CACTAACTTGTGGGC-TTTGAAAGGGGTGC
1 CACCAACTTGTGGGCTTTTGAAAGGGTTGC
* * *
169927 CACCGACTTGTGGGCTTTTGAAAAGGATGC
1 CACCAACTTGTGGGCTTTTGAAAGGGTTGC
**
169957 CACTGACTTGTGGGCTT
1 CACCAACTTGTGGGCTT
169974 AAAAGGAGAA
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
27 9 0.10
28 17 0.19
29 29 0.32
30 29 0.32
31 7 0.08
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.31
Consensus pattern (30 bp):
CACCAACTTGTGGGCTTTTGAAAGGGTTGC
Found at i:170028 original size:60 final size:60
Alignment explanation
Indices: 169964--170078 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
169954 TGCCACTGAC
* * * * *
169964 TTGTGGGCTTAAAAGGAGA-AAGATGCCATAGAGTTATGGACTTAAAAGGGTGCCAGGGAG
1 TTGTGGACTTAAAAGGA-ACAAAACGCCACAGAGTTATGGACTTAAAAAGGTGCCAGGGAG
*
170024 TTGTGGACTTAAAAGGAACAAAACGCCACAGAGTTGTGGACTTAAAAAGGTGCCA
1 TTGTGGACTTAAAAGGAACAAAACGCCACAGAGTTATGGACTTAAAAAGGTGCCA
170079 CGAATATTGG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
59 1 0.02
60 47 0.98
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (60 bp):
TTGTGGACTTAAAAGGAACAAAACGCCACAGAGTTATGGACTTAAAAAGGTGCCAGGGAG
Found at i:172270 original size:20 final size:20
Alignment explanation
Indices: 172241--172294 Score: 99
Period size: 20 Copynumber: 2.6 Consensus size: 20
172231 AAATTAATCA
172241 TTTTTACATCAAAACTATCTG
1 TTTTT-CATCAAAACTATCTG
172262 TTTTTCATCAAAACTATCTG
1 TTTTTCATCAAAACTATCTG
172282 TTTTTCATCAAAA
1 TTTTTCATCAAAA
172295 TATTTATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 28 0.85
21 5 0.15
ACGTcount: A:0.33, C:0.19, G:0.04, T:0.44
Consensus pattern (20 bp):
TTTTTCATCAAAACTATCTG
Done.