Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold474
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: 406844
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
File 1 of 3
Found at i:157 original size:20 final size:20
Alignment explanation
Indices: 111--154 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 20
101 AAAATATATC
111 ATAT-TAAAATATAATTATA
1 ATATATAAAATATAATTATA
130 ATATATAAAATAT-A-T-TA
1 ATATATAAAATATAATTATA
147 ATATATAA
1 ATATATAA
155 TAACAAGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.42
18 1 0.04
19 5 0.21
20 8 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATATAAAATATAATTATA
Found at i:1807 original size:2 final size:2
Alignment explanation
Indices: 1800--1854 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
1790 TGTTAAAAAG
1800 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1842 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
1855 AAACTGTCGG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2208 original size:3 final size:3
Alignment explanation
Indices: 2202--2231 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
2192 ATAATAGCAT
*
2202 TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2232 ATCACCGCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:2213 original size:18 final size:18
Alignment explanation
Indices: 2190--2231 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
2180 AAAGCATGAT
* *
2190 TAATAATAGCATTAATAA
1 TAATAATAACAATAATAA
2208 TAATAATAACAATAATAA
1 TAATAATAACAATAATAA
2226 TAATAA
1 TAATAA
2232 ATCACCGCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (18 bp):
TAATAATAACAATAATAA
Found at i:4466 original size:17 final size:18
Alignment explanation
Indices: 4444--4480 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4434 ATAAATAATA
4444 AATATA-AAATAATTTTT
1 AATATATAAATAATTTTT
*
4461 AATATATTAATAATTTTT
1 AATATATAAATAATTTTT
4479 AA
1 AA
4481 ACAATAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATATAAATAATTTTT
Found at i:6743 original size:19 final size:19
Alignment explanation
Indices: 6705--6743 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6695 GTTCATAATC
* *
6705 TTGCATTTGATTCATTATT
1 TTGCATTTAATTCATGATT
*
6724 TTGCATTTAATTGATGATT
1 TTGCATTTAATTCATGATT
6743 T
1 T
6744 AGCTATATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.23, C:0.08, G:0.13, T:0.56
Consensus pattern (19 bp):
TTGCATTTAATTCATGATT
Found at i:6922 original size:22 final size:22
Alignment explanation
Indices: 6897--6943 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
6887 ATGCTAAAAA
6897 TTGTTTTCATTATAAAAAACTT
1 TTGTTTTCATTATAAAAAACTT
6919 TTGTTTTCATTATAAAAAACTT
1 TTGTTTTCATTATAAAAAACTT
6941 TTG
1 TTG
6944 AGTGTAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (22 bp):
TTGTTTTCATTATAAAAAACTT
Found at i:10818 original size:22 final size:22
Alignment explanation
Indices: 10772--10822 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
10762 TTTTGTTGAT
10772 AATTTTG-A-TGAAAAATAAAG
1 AATTTTGAAGTGAAAAATAAAG
*
10792 TATTTTGAAGTGAAAAAT-AAG
1 AATTTTGAAGTGAAAAATAAAG
*
10813 AAATTTGAAG
1 AATTTTGAAG
10823 AAGATTTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.31
Consensus pattern (22 bp):
AATTTTGAAGTGAAAAATAAAG
Found at i:10949 original size:13 final size:13
Alignment explanation
Indices: 10931--10956 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10921 TAGTAACCCT
10931 TGTATCGATACAA
1 TGTATCGATACAA
10944 TGTATCGATACAA
1 TGTATCGATACAA
10957 AGAATATTGT
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:17148 original size:20 final size:20
Alignment explanation
Indices: 17123--17162 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
17113 GTTTGAAGCA
*
17123 ATGTATCGATATAATTCATC
1 ATGTATCGATATAATGCATC
17143 ATGTATCGATATAATGCATC
1 ATGTATCGATATAATGCATC
17163 GATACAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCGATATAATGCATC
Found at i:17262 original size:19 final size:20
Alignment explanation
Indices: 17219--17270 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
17209 TGCCAGTTTT
**
17219 ATGTATCGATACAATTGTCC
1 ATGTATCGATACAATTGAAC
17239 ATGTATCGATACAA-TGAAC
1 ATGTATCGATACAATTGAAC
*
17258 ATGTATTGATACA
1 ATGTATCGATACA
17271 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATTGAAC
Found at i:21951 original size:13 final size:13
Alignment explanation
Indices: 21933--21960 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
21923 TACAAAACTT
21933 ATGTATCGATACA
1 ATGTATCGATACA
21946 ATGTATCGATACA
1 ATGTATCGATACA
21959 AT
1 AT
21961 TTTTTATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:30473 original size:21 final size:21
Alignment explanation
Indices: 30440--30480 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30430 CTAAGTAAAA
30440 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
30461 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
30481 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:30545 original size:20 final size:19
Alignment explanation
Indices: 30520--30590 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
30510 ACCCTGAAAA
30520 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
30540 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
30559 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
30580 GTATCGATACA
1 GTATCGATACA
30591 AGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:30686 original size:10 final size:10
Alignment explanation
Indices: 30667--30697 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
30657 AATCTCATTT
30667 TCACTGTTCA
1 TCACTGTTCA
*
30677 TCACTATTCA
1 TCACTGTTCA
30687 TCACTGTTCA
1 TCACTGTTCA
30697 T
1 T
30698 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:30737 original size:14 final size:14
Alignment explanation
Indices: 30708--30765 Score: 82
Period size: 14 Copynumber: 4.2 Consensus size: 14
30698 GTATCGATAC
30708 ATCACT-TTCATGT
1 ATCACTATTCATGT
*
30721 ATCACTATTCATAT
1 ATCACTATTCATGT
* *
30735 ATCACTGTTCACGT
1 ATCACTATTCATGT
30749 ATCACTATTCATGT
1 ATCACTATTCATGT
30763 ATC
1 ATC
30766 GTTAAAAATC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
13 6 0.16
14 32 0.84
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.41
Consensus pattern (14 bp):
ATCACTATTCATGT
Found at i:31379 original size:34 final size:35
Alignment explanation
Indices: 31317--31383 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
31307 CTAAGTGATT
31317 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTT-AAAAAGATAGAGA
31353 GAGAGGTTTCTATCTTAGCC-TT-AAAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTAAAAAGATAG
31384 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 9 0.30
36 8 0.27
37 13 0.43
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTAAAAAGATAGAGA
Found at i:33133 original size:16 final size:17
Alignment explanation
Indices: 33112--33148 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
33102 GAAGGTTTGT
33112 AAATAAATCCAGGTC-A
1 AAATAAATCCAGGTCTA
*
33128 AAATAAATCTAGGTCTA
1 AAATAAATCCAGGTCTA
33145 AAAT
1 AAAT
33149 GGCATAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (17 bp):
AAATAAATCCAGGTCTA
Found at i:35498 original size:23 final size:24
Alignment explanation
Indices: 35472--35517 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
35462 AAAATTATAA
*
35472 TAAAATTTAAATT-GATTTTTAAT
1 TAAAATTTAAATTAGATATTTAAT
*
35495 TAAAATTTAGATTAGATATTTAA
1 TAAAATTTAAATTAGATATTTAA
35518 CAGTTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.48
Consensus pattern (24 bp):
TAAAATTTAAATTAGATATTTAAT
Found at i:36566 original size:10 final size:10
Alignment explanation
Indices: 36536--36569 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
36526 ATCACATTAC
36536 AAAATAAAAA
1 AAAATAAAAA
**
36546 AAAATTTAAA
1 AAAATAAAAA
36556 AAAATAAAAA
1 AAAATAAAAA
36566 AAAA
1 AAAA
36570 ATTATCTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:36683 original size:28 final size:29
Alignment explanation
Indices: 36652--36710 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
36642 TTTAAAGAAT
* *
36652 AACTATTAAAAAAATTTTTTAT-TTCTAA
1 AACTATTAAAAAAATATTTTATATTATAA
* *
36680 AACTTTTAAAATAATATTTTATATTATAA
1 AACTATTAAAAAAATATTTTATATTATAA
36709 AA
1 AA
36711 AATTATTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (29 bp):
AACTATTAAAAAAATATTTTATATTATAA
Found at i:36789 original size:2 final size:2
Alignment explanation
Indices: 36776--36809 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
36766 TACAATATTA
*
36776 AT AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36810 TAAGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:40017 original size:11 final size:11
Alignment explanation
Indices: 39995--40024 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
39985 TTATTGATAG
39995 TATATA-AATT
1 TATATATAATT
40005 TATATATAATT
1 TATATATAATT
40016 TATATATAA
1 TATATATAA
40025 CTAGTGTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TATATATAATT
Found at i:46896 original size:35 final size:33
Alignment explanation
Indices: 46819--46905 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 33
46809 ATTAACTCAA
* * *
46819 AATTTTTATTAATGTAAACTTTCTTTTATTGAT
1 AATTTTTATTAATATTAACTTTCTTTTATTAAT
46852 ATATCTTTTATTAATATTAACTAATT-TTTTATTAAT
1 A-AT-TTTTATTAATATTAACT--TTCTTTTATTAAT
46888 GAATTTTTATTAA-ATTAA
1 -AATTTTTATTAATATTAA
46906 AATATTGATT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
33 1 0.02
34 7 0.15
35 24 0.52
36 11 0.24
37 3 0.07
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (33 bp):
AATTTTTATTAATATTAACTTTCTTTTATTAAT
Found at i:47537 original size:16 final size:16
Alignment explanation
Indices: 47516--47549 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
47506 TTTGGATAGA
47516 TTATTTTATTTATTTG
1 TTATTTTATTTATTTG
47532 TTATTTTATTTATTTG
1 TTATTTTATTTATTTG
47548 TT
1 TT
47550 TATCAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (16 bp):
TTATTTTATTTATTTG
Found at i:50705 original size:21 final size:22
Alignment explanation
Indices: 50689--50730 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
50679 CATGTTCATG
*
50689 TTATTTTTTA-TTATGTTTTAA
1 TTATTTTTTATTTATGTTATAA
50710 TTATTTTTTATTTATGTTATA
1 TTATTTTTTATTTATGTTATA
50731 TTCATATCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (22 bp):
TTATTTTTTATTTATGTTATAA
Found at i:51471 original size:16 final size:17
Alignment explanation
Indices: 51442--51482 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
51432 ATTTTTAAAT
51442 AAATTTTA-TTAATT-A
1 AAATTTTATTTAATTAA
51457 AAATTTTATTTAATTAA
1 AAATTTTATTTAATTAA
51474 AAATTTTAT
1 AAATTTTAT
51483 AAATATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 8 0.33
16 6 0.25
17 10 0.42
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AAATTTTATTTAATTAA
Found at i:51492 original size:18 final size:17
Alignment explanation
Indices: 51442--51493 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
51432 ATTTTTAAAT
*
51442 AAATTTTAT-TAATT-A
1 AAATTTTATAAAATTAA
**
51457 AAATTTTATTTAATTAA
1 AAATTTTATAAAATTAA
51474 AAATTTTATAAATATTAA
1 AAATTTTATAAA-ATTAA
51492 AA
1 AA
51494 CCCCAGCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
15 9 0.28
16 5 0.16
17 11 0.34
18 7 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AAATTTTATAAAATTAA
Found at i:52434 original size:2 final size:2
Alignment explanation
Indices: 52427--52468 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
52417 ATGCTTTCAA
* *
52427 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52469 GCAGTGATCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54572 original size:35 final size:35
Alignment explanation
Indices: 54526--54596 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
54516 TAACACTAAA
54526 GATGACAGTTAAAGTAGAGCAAAAAGTTTAGACAC
1 GATGACAGTTAAAGTAGAGCAAAAAGTTTAGACAC
54561 GATGACAGTTAAAGTAGAGCAAAAAGTTTAGACAC
1 GATGACAGTTAAAGTAGAGCAAAAAGTTTAGACAC
54596 G
1 G
54597 CGCACAGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.20
Consensus pattern (35 bp):
GATGACAGTTAAAGTAGAGCAAAAAGTTTAGACAC
Found at i:61575 original size:2 final size:2
Alignment explanation
Indices: 61570--61618 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
61560 CACACAATAC
*
61570 AG AG AG AG AG 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 AG AG AG AG AG
61612 AG AG AG A
1 AG AG AG A
61619 TTGGCCACTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:62984 original size:2 final size:2
Alignment explanation
Indices: 62977--63006 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
62967 ATCCCTTTTG
62977 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63007 TGAGTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69221 original size:8 final size:8
Alignment explanation
Indices: 69208--69271 Score: 53
Period size: 8 Copynumber: 8.0 Consensus size: 8
69198 TTTGATAAGT
69208 TTTATATA
1 TTTATATA
69216 TTTATATTATA
1 -TT-TA-TATA
69227 TTTATATA
1 TTTATATA
*
69235 TTTTTATA
1 TTTATATA
69243 -TTATAT-
1 TTTATATA
* *
69249 TTAATTTA
1 TTTATATA
69257 -TTATATA
1 TTTATATA
69264 TTTATATA
1 TTTATATA
69272 AATTTTAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
7 14 0.32
8 18 0.41
9 4 0.09
10 4 0.09
11 4 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTATATA
Found at i:69228 original size:11 final size:11
Alignment explanation
Indices: 69212--69270 Score: 70
Period size: 11 Copynumber: 5.5 Consensus size: 11
69202 ATAAGTTTTA
69212 TATATTTATAT
1 TATATTTATAT
69223 TATATTTATA-
1 TATATTTATAT
*
69233 TATTTTTATAT
1 TATATTTATAT
69244 TATATTTA-AT
1 TATATTTATAT
69254 T-TATTATATATT
1 TATATT-TATA-T
69266 TATAT
1 TATAT
69271 AAATTTTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 4 0.10
10 14 0.34
11 18 0.44
12 2 0.05
13 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTTATAT
Found at i:69240 original size:21 final size:21
Alignment explanation
Indices: 69210--69270 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
69200 TGATAAGTTT
69210 TATATATTTATATTATATTTA
1 TATATATTTATATTATATTTA
*
69231 TATATTTTTATATTATATTTA
1 TATATATTTATATTATATTTA
*
69252 -ATTTATTATATATTTATAT
1 TATATATT-TATA-TTATAT
69271 AAATTTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.14
21 24 0.69
22 6 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TATATATTTATATTATATTTA
Found at i:69261 original size:27 final size:27
Alignment explanation
Indices: 69207--69270 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 27
69197 ATTTGATAAG
69207 TTTTATATATTTATATTATATTTATATA
1 TTTT-TATATTTATATTATATTTATATA
69235 TTTTTATA-TTATATT-TAATTTATTATA
1 TTTTTATATTTATATTAT-ATTTA-TATA
*
69262 TATTTATAT
1 TTTTTATAT
69271 AAATTTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 1 0.03
26 12 0.38
27 15 0.47
28 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTTTATATTTATATTATATTTATATA
Found at i:69275 original size:21 final size:21
Alignment explanation
Indices: 69210--69301 Score: 58
Period size: 19 Copynumber: 4.7 Consensus size: 21
69200 TGATAAGTTT
*
69210 TATATATTTA-TATTATATTTA
1 TATAAATTTATTA-TATATTTA
*
69231 TAT--ATTT-TTATAT-TATA
1 TATAAATTTATTATATATTTA
*
69248 T-TTAATTTATTATATATTTA
1 TATAAATTTATTATATATTTA
*
69268 TATAAATTT-TAATATA-TTA
1 TATAAATTTATTATATATTTA
*
69287 -ATAACTTATATTATA
1 TATAAATT-TATTATA
69302 AATATTTTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 17
0.71 0.08 0.21
Matches are distributed among these distances:
16 1 0.02
17 4 0.07
18 13 0.23
19 16 0.28
20 14 0.25
21 9 0.16
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (21 bp):
TATAAATTTATTATATATTTA
Found at i:69278 original size:27 final size:29
Alignment explanation
Indices: 69213--69327 Score: 85
Period size: 32 Copynumber: 3.8 Consensus size: 29
69203 TAAGTTTTAT
* *
69213 ATATTTATATTATATTTATATATTTTTATATT
1 ATATTTA-A-TATA-TTATATATTTATATATA
*
69245 ATATTTAATTTATTATATATTTATATA-A
1 ATATTTAATATATTATATATTTATATATA
*
69273 AT-TTTAATATATTA-ATAACTTATATTATAA
1 ATATTTAATATATTATAT-ATTTATA-TAT-A
*
69303 ATATTTTAACATATTCATA-ATTTAT
1 ATA-TTTAATATATT-ATATATTTAT
69328 TATTTATATT
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
26 2 0.03
27 17 0.25
28 4 0.06
29 14 0.21
30 6 0.09
31 1 0.01
32 22 0.32
33 1 0.01
34 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (29 bp):
ATATTTAATATATTATATATTTATATATA
Found at i:70790 original size:2 final size:2
Alignment explanation
Indices: 70745--70775 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
70735 AGATTTGTAT
70745 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
70776 TTTGGACTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:71210 original size:2 final size:2
Alignment explanation
Indices: 71203--71243 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
71193 CTACTTTAAA
71203 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71244 GACTCTCATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:71913 original size:16 final size:16
Alignment explanation
Indices: 71892--71945 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
71882 ACCTGAAATC
71892 CGAAATAATTCGAACT
1 CGAAATAATTCGAACT
*
71908 CGAAATGAATT-GAACC
1 CGAAAT-AATTCGAACT
*
71924 CGAAATGA-TCAGAACT
1 CGAAATAATTC-GAACT
71940 CGAAAT
1 CGAAAT
71946 GACCCGATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
14 1 0.03
15 1 0.03
16 26 0.81
17 4 0.12
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (16 bp):
CGAAATAATTCGAACT
Found at i:72800 original size:15 final size:15
Alignment explanation
Indices: 72782--72833 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
72772 AAAATTTTAA
72782 AACTCAAAATAATTC
1 AACTCAAAATAATTC
** *
72797 AACTTGAAATTATTC
1 AACTCAAAATAATTC
* *
72812 AACCCAAAACTAACTC
1 AACTCAAAA-TAATTC
72828 AACTCA
1 AACTCA
72834 TCTAATTGAC
Statistics
Matches: 27, Mismatches: 9, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
15 18 0.67
16 9 0.33
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (15 bp):
AACTCAAAATAATTC
Found at i:75175 original size:17 final size:17
Alignment explanation
Indices: 75153--75187 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
75143 TATTTTTAAA
75153 TTATTATT-ATAAATATT
1 TTATTATTAAT-AATATT
75170 TTATTATTAATAATATT
1 TTATTATTAATAATATT
75187 T
1 T
75188 ATTTAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATTATTAATAATATT
Found at i:83224 original size:13 final size:13
Alignment explanation
Indices: 83206--83231 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
83196 ACATTTTGGG
83206 ATGTATCGATACA
1 ATGTATCGATACA
83219 ATGTATCGATACA
1 ATGTATCGATACA
83232 TATTGTGTGT
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):
ATGTATCGATACA
Found at i:83226 original size:33 final size:32
Alignment explanation
Indices: 83184--83251 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
83174 CGTTACAAGC
*
83184 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATTGGG-TGTATCGATA
*
83217 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGGGTGTATCGATA
83249 CAA
1 CAA
83252 ACAGTTAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTGGGTGTATCGATA
Found at i:83328 original size:20 final size:21
Alignment explanation
Indices: 83281--83333 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
83271 GCCAATGACC
**
83281 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
83302 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
83322 TGTATCGATACA
1 TGTATCGATACA
83334 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:83339 original size:13 final size:13
Alignment explanation
Indices: 83321--83345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83311 ACATTTGGTC
83321 ATGTATCGATACA
1 ATGTATCGATACA
83334 ATGTATCGATAC
1 ATGTATCGATAC
83346 TGTGCAATCT
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):
ATGTATCGATACA
Found at i:85822 original size:13 final size:13
Alignment explanation
Indices: 85804--85841 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
85794 ATAAACCTTT
*
85804 TGTATCGATACAC
1 TGTATCGATACAA
85817 TGTATCGATACAA
1 TGTATCGATACAA
85830 TGTATCGATACA
1 TGTATCGATACA
85842 GAGAATGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:85886 original size:47 final size:48
Alignment explanation
Indices: 85829--85920 Score: 127
Period size: 47 Copynumber: 1.9 Consensus size: 48
85819 TATCGATACA
*
85829 ATGTATCGATACAGA-GAATGCTGTATCGATAC-TTCT-GAATTTTCTAG
1 ATGTATCGATACA-ATGAA-CCTGTATCGATACATTCTGGAATTTTCTAG
85876 ATGTATCGATACAATTGAACCTGTATCGATACATTCTGGAATTTT
1 ATGTATCGATACAA-TGAACCTGTATCGATACATTCTGGAATTTT
85921 TTCAGAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
46 1 0.03
47 25 0.62
48 7 0.17
49 7 0.17
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.37
Consensus pattern (48 bp):
ATGTATCGATACAATGAACCTGTATCGATACATTCTGGAATTTTCTAG
Found at i:86057 original size:8 final size:8
Alignment explanation
Indices: 86044--86069 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
86034 AACATCAATC
86044 ATCACAAA
1 ATCACAAA
86052 ATCACAAA
1 ATCACAAA
86060 ATCACAAA
1 ATCACAAA
86068 AT
1 AT
86070 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:92027 original size:13 final size:13
Alignment explanation
Indices: 92009--92047 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
91999 ACATTTTGGG
92009 ATGTATCGATACA
1 ATGTATCGATACA
92022 ATGTATCGATACA
1 ATGTATCGATACA
92035 ATGTATCGATACA
1 ATGTATCGATACA
92048 TATTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:92155 original size:13 final size:13
Alignment explanation
Indices: 92137--92161 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92127 ACCTTTGGTC
92137 ATGTATCGATACA
1 ATGTATCGATACA
92150 ATGTATCGATAC
1 ATGTATCGATAC
92162 TGTGCAATCT
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):
ATGTATCGATACA
Found at i:92969 original size:13 final size:13
Alignment explanation
Indices: 92937--92970 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
92927 AAAATTGAAG
* *
92937 AGGGATACAAGAG
1 AGGGATGCAAGAA
92950 AGGGATGCAAGAA
1 AGGGATGCAAGAA
92963 AGGGATGC
1 AGGGATGC
92971 TTGAGTGGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.09, G:0.41, T:0.09
Consensus pattern (13 bp):
AGGGATGCAAGAA
Found at i:93063 original size:24 final size:24
Alignment explanation
Indices: 93034--93079 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
93024 AATAAAAATT
93034 AGCCACCAA-TTTTGACAAACAACA
1 AGCCA-CAACTTTTGACAAACAACA
93058 AGCCACAACTTTTGACAAACAA
1 AGCCACAACTTTTGACAAACAA
93080 AAAAGGAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.46, C:0.28, G:0.09, T:0.17
Consensus pattern (24 bp):
AGCCACAACTTTTGACAAACAACA
Found at i:93111 original size:27 final size:27
Alignment explanation
Indices: 93067--93139 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
93057 AAGCCACAAC
*
93067 TTTTGACAAACAAAAAAGGAACCACCAT
1 TTTTGACAAA-AACAAAGGAACCACCAT
* *
93095 TTTTGACAAATACAAAGTAACCACCAT
1 TTTTGACAAAAACAAAGGAACCACCAT
*
93122 TTTTGACAAACACAAAGG
1 TTTTGACAAAAACAAAGG
93140 GTGGCTTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 30 0.75
28 10 0.25
ACGTcount: A:0.47, C:0.21, G:0.11, T:0.22
Consensus pattern (27 bp):
TTTTGACAAAAACAAAGGAACCACCAT
Found at i:95269 original size:28 final size:28
Alignment explanation
Indices: 95203--95401 Score: 157
Period size: 29 Copynumber: 7.0 Consensus size: 28
95193 AGTCTTTGAA
* *
95203 TTTTATAACATTACACTTTGAGCTCTAAAG
1 TTTT-TAAAATTACACTTTGA-CTCTAAAC
* *
95233 TTTTTAAAATTATACTTTGACCCTAAAC
1 TTTTTAAAATTACACTTTGACTCTAAAC
* * * *
95261 TTTTCAAAA-TACATTTTGGTCTCAAAAC
1 TTTTTAAAATTACACTTT-GACTCTAAAC
* *
95289 TTTTCAAAATTACACTTTGACTCAAAAC
1 TTTTTAAAATTACACTTTGACTCTAAAC
* * * * *
95317 TTTTAAAAATCATATTTTGACCCTTAAAC
1 TTTTTAAAATTACACTTTGACTC-TAAAC
* *
95346 TTTTTTAAATTACACTTTGACTTCTAAAT
1 TTTTTAAAATTACACTTTGAC-TCTAAAC
* * * *
95375 TTTTTGAAATTATAGTTTGACCCTAAA
1 TTTTTAAAATTACACTTTGACTCTAAA
95402 AAGAAAAAAT
Statistics
Matches: 136, Mismatches: 29, Indels: 10
0.78 0.17 0.06
Matches are distributed among these distances:
27 6 0.04
28 62 0.46
29 63 0.46
30 5 0.04
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.42
Consensus pattern (28 bp):
TTTTTAAAATTACACTTTGACTCTAAAC
Found at i:95358 original size:57 final size:56
Alignment explanation
Indices: 95225--95367 Score: 162
Period size: 56 Copynumber: 2.5 Consensus size: 56
95215 ACACTTTGAG
* * * * * **
95225 CTCTAAAGTTTTTAAAATTATACTTTGACCCTAAACTTTTCAAAATACATTTTGGT
1 CTCTAAACTTTTTAAAATTACACTTTGACTCAAAACTTTTAAAAATACATTTTGCC
* * *
95281 CTCAAAACTTTTCAAAATTACACTTTGACTCAAAACTTTTAAAAATCATATTTTGACC
1 CTCTAAACTTTTTAAAATTACACTTTGACTCAAAACTTTTAAAAAT-ACATTTTG-CC
*
95339 CT-TAAACTTTTTTAAATTACACTTTGACT
1 CTCTAAACTTTTTAAAATTACACTTTGACT
95368 TCTAAATTTT
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
56 39 0.54
57 31 0.43
58 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (56 bp):
CTCTAAACTTTTTAAAATTACACTTTGACTCAAAACTTTTAAAAATACATTTTGCC
Found at i:97505 original size:6 final size:6
Alignment explanation
Indices: 97494--97524 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
97484 AGTGAGGATG
*
97494 AAATAA AAATAA AAATAA AAATTA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA AAATAA A
97525 TAAATAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:97528 original size:22 final size:22
Alignment explanation
Indices: 97500--97541 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
97490 GATGAAATAA
97500 AAATAAA-AATAAAAATTAAAAT
1 AAATAAATAA-AAAAATTAAAAT
*
97522 AAATAAATAAGAAAATTAAA
1 AAATAAATAAAAAAATTAAA
97542 CGTCTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (22 bp):
AAATAAATAAAAAAATTAAAAT
Found at i:103894 original size:20 final size:20
Alignment explanation
Indices: 103869--103943 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
103859 TTTTACCGAG
*
103869 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
103889 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
103909 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
103929 GTGTATCGATACATT
1 ATGTATCGATACATT
103944 CTATCTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:103968 original size:31 final size:31
Alignment explanation
Indices: 103930--104005 Score: 143
Period size: 31 Copynumber: 2.5 Consensus size: 31
103920 CATTCTTCAG
103930 TGTATCGATACATTCTATCTTTTTACCCAGA
1 TGTATCGATACATTCTATCTTTTTACCCAGA
*
103961 TGTATCGATACATTCTGTCTTTTTACCCAGA
1 TGTATCGATACATTCTATCTTTTTACCCAGA
103992 TGTATCGATACATT
1 TGTATCGATACATT
104006 ATTCGATGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (31 bp):
TGTATCGATACATTCTATCTTTTTACCCAGA
Found at i:111030 original size:168 final size:165
Alignment explanation
Indices: 110644--111060 Score: 482
Period size: 168 Copynumber: 2.5 Consensus size: 165
110634 TAAAAATTTC
* * * * * * * *
110644 ACATAAAAATA-AAAAATAAAGTTATTTAATAGAGATTAAAACGTACTAATGTTTGAAG-TCATA
1 ACATAAAAACACAATAATAAAATAATATAATAGAGATTAAAATGTACTAGTGTTTGAAGCT-ATG
***
110707 ATCAATAAATTGATTGTCCTTTAATTGTTAAAAATCATCATAGAGTGACTAGGCTTTCTCTCGAT
65 ATCAATAAATTGATTGTCCTTTAATTGTTAAAAATCATCATAGAAACACTAGGCTTTCTCTCGAT
* *
110772 TTACTGTATTACTAAATTAGAAACTAAAACACAATC
130 TTACTATATTACTAAATTAGAAACTAAAACACAATA
* * *
110808 GCAT-AAAACACAATAATAAAATAATATAATAGAGATTAAAATGTAATTGTGTTTGAAGCTATGA
1 ACATAAAAACACAATAATAAAATAATATAATAGAGATTAAAATGTACTAGTGTTTGAAGCTATGA
* * ** * * * *
110872 TCAATAAATTGATTTTCTTTTGGGTTGTTAAAACAATCATCATA-AAACACCTAGGTTTTTTGTT
66 TCAATAAATTGATTGTCCTTT-AATTGTT-AAA-AATCATCATAGAAACA-CTAGGCTTTCTCTC
* * *
110936 GATTTACTATATTACTAAATTAGGAGCTAAAATACAATA
127 GATTTACTATATTACTAAATTAGAAACTAAAACACAATA
* * *
110975 ACATAAAAACACAATAATAAAATAATATAATAGAGATTAAAATATACCAGTGTTTGAAGCTGTGA
1 ACATAAAAACACAATAATAAAATAATATAATAGAGATTAAAATGTACTAGTGTTTGAAGCTATGA
*
111040 TCAATAAATTGGTTGTCCTTT
66 TCAATAAATTGATTGTCCTTT
111061 GCTTTTTAAA
Statistics
Matches: 210, Mismatches: 36, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
163 5 0.02
164 64 0.30
165 6 0.03
166 5 0.02
167 57 0.27
168 73 0.35
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (165 bp):
ACATAAAAACACAATAATAAAATAATATAATAGAGATTAAAATGTACTAGTGTTTGAAGCTATGA
TCAATAAATTGATTGTCCTTTAATTGTTAAAAATCATCATAGAAACACTAGGCTTTCTCTCGATT
TACTATATTACTAAATTAGAAACTAAAACACAATA
Found at i:111175 original size:18 final size:18
Alignment explanation
Indices: 111152--111200 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
111142 CCTAAAACAC
*
111152 AATAATAAAATAATATAT
1 AATAATAAAATAATATAA
*
111170 AATAATAATATAATATAA
1 AATAATAAAATAATATAA
*
111188 AAAAATTAAAATA
1 AATAA-TAAAATA
111201 TATCAGTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AATAATAAAATAATATAA
Found at i:111919 original size:34 final size:35
Alignment explanation
Indices: 111876--111941 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
111866 TCATAAATCA
*
111876 AATATTTTTA-TTTAGAAAATATTA-ATAATTTATT
1 AATACTTTTATTTTA-AAAATATTATATAATTTATT
*
111910 AATACTTTTATTTTAAATATATTATATAATTT
1 AATACTTTTATTTTAAAAATATTATATAATTT
111942 TTGGTTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 17 0.61
35 11 0.39
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (35 bp):
AATACTTTTATTTTAAAAATATTATATAATTTATT
Found at i:114379 original size:20 final size:20
Alignment explanation
Indices: 114354--114391 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
114344 ATCAGTTGTT
114354 GAGGGATTAACAAACTCTTA
1 GAGGGATTAACAAACTCTTA
*
114374 GAGGGATTAATAAACTCT
1 GAGGGATTAACAAACTCT
114392 CAGATATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.26
Consensus pattern (20 bp):
GAGGGATTAACAAACTCTTA
Found at i:116975 original size:303 final size:304
Alignment explanation
Indices: 116427--117037 Score: 1116
Period size: 303 Copynumber: 2.0 Consensus size: 304
116417 TAGGCTGGTG
116427 TTTGTGAAAGAATAAACCCAAAAAAAAATACAAAATAGCTTTCAAAGAATAAAAACAATGAATAT
1 TTTGTGAAAGAATAAACCCAAAAAAAAATACAAAATAGCTTTCAAAGAATAAAAACAATGAATAT
* *
116492 AAAAGCTCTTAAAAATGAGAAAATAAATAAAACAGTTGAATGCTTTGATCTCTTGATGTTTCTTG
66 AAAAACTCTTAAAAATGAGAAAACAAATAAAACAGTTGAATGCTTTGATCTCTTGATGTTTCTTG
116557 ATGATTCTCTACTTCTTTAGCTGTTGAAAACTCAAATTTATAGACTAGAATGTTGACATACTTGT
131 ATGATTCTCTACTTCTTTAGCTGTTGAAAACTCAAATTTATAGACTAGAATGTTGACATACTTGT
116622 TAGAGGTTGAATGATTGTGTTTGTAGCCGTTTTTGTCTTGTTTGGTGCTTATTTCCATGCATTCC
196 TAGAGGTTGAATGATTGTGTTTGTAGCCGTTTTTGTCTTGTTTGGTGCTTATTTCCATGCATTCC
*
116687 CGTTATTATGTATCGATACTTTACATAATGTATCGATACATGCT
261 CATTATTATGTATCGATACTTTACATAATGTATCGATACATGCT
*
116731 TTTGTGAAAGAATAAACCCAAAAACAAATACAAAATAGCTTTCAAAGAATAAAAACAATGAATAT
1 TTTGTGAAAGAATAAACCCAAAAAAAAATACAAAATAGCTTTCAAAGAATAAAAACAATGAATAT
*
116796 AAAAACTCTTAAAAATGAGAAAACAAATAAAAC-TTTGAATGCTTTGATCTCTTGATGTTTCTTG
66 AAAAACTCTTAAAAATGAGAAAACAAATAAAACAGTTGAATGCTTTGATCTCTTGATGTTTCTTG
* * *
116860 ATGATTCTTTACTTCTTTAGCTGTTGGAAACTCAAATTTATAGGCTAGAATGTTGACATACTTGT
131 ATGATTCTCTACTTCTTTAGCTGTTGAAAACTCAAATTTATAGACTAGAATGTTGACATACTTGT
* * *
116925 TGGAGGTTTATTGATTGTGTTTGTAGCCGTTTTTGTCTTGTTTGGTGCTTATTTCCATGCATTCC
196 TAGAGGTTGAATGATTGTGTTTGTAGCCGTTTTTGTCTTGTTTGGTGCTTATTTCCATGCATTCC
116990 CATTATTATGTATCGATACTTTACATAATGTATCGATACATGCT
261 CATTATTATGTATCGATACTTTACATAATGTATCGATACATGCT
117034 TTTG
1 TTTG
117038 AAATTTATAA
Statistics
Matches: 296, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
303 201 0.68
304 95 0.32
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.37
Consensus pattern (304 bp):
TTTGTGAAAGAATAAACCCAAAAAAAAATACAAAATAGCTTTCAAAGAATAAAAACAATGAATAT
AAAAACTCTTAAAAATGAGAAAACAAATAAAACAGTTGAATGCTTTGATCTCTTGATGTTTCTTG
ATGATTCTCTACTTCTTTAGCTGTTGAAAACTCAAATTTATAGACTAGAATGTTGACATACTTGT
TAGAGGTTGAATGATTGTGTTTGTAGCCGTTTTTGTCTTGTTTGGTGCTTATTTCCATGCATTCC
CATTATTATGTATCGATACTTTACATAATGTATCGATACATGCT
Found at i:119282 original size:21 final size:22
Alignment explanation
Indices: 119258--119304 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
119248 TAAAATTTTC
119258 AATAAAATTCT-CCCTTAATAA
1 AATAAAATTCTCCCCTTAATAA
*
119279 AAT--AATTCTCCCCCTTGATAA
1 AATAAAATTCT-CCCCTTAATAA
119300 AATAA
1 AATAA
119305 CTAAAGCTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
19 6 0.29
21 15 0.71
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (22 bp):
AATAAAATTCTCCCCTTAATAA
Found at i:119287 original size:19 final size:20
Alignment explanation
Indices: 119263--119304 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
119253 TTTTCAATAA
119263 AATTCT-CCCTTAATAAAAT
1 AATTCTCCCCTTAATAAAAT
*
119282 AATTCTCCCCCTTGATAAAAT
1 AATTCT-CCCCTTAATAAAAT
119303 AA
1 AA
119305 CTAAAGCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
21 14 0.70
ACGTcount: A:0.40, C:0.24, G:0.02, T:0.33
Consensus pattern (20 bp):
AATTCTCCCCTTAATAAAAT
Found at i:119336 original size:46 final size:46
Alignment explanation
Indices: 119284--119386 Score: 163
Period size: 46 Copynumber: 2.2 Consensus size: 46
119274 AATAAAATAA
*
119284 TTCTCCCCCTTGATAAAATAACTAA-AGCTCTCTTTTAAAAATGATT
1 TTCTCCCCCTTAATAAAATAACTAATA-CTCTCTTTTAAAAATGATT
*
119330 TTCTCCCCCTTAATAAAATAACTAATACTCTCTTTTAAAAATGGTT
1 TTCTCCCCCTTAATAAAATAACTAATACTCTCTTTTAAAAATGATT
*
119376 TTCTCCTCCTT
1 TTCTCCCCCTT
119387 TGTCATATGC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
46 52 0.98
47 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (46 bp):
TTCTCCCCCTTAATAAAATAACTAATACTCTCTTTTAAAAATGATT
Found at i:124539 original size:19 final size:19
Alignment explanation
Indices: 124515--124579 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
124505 TAGCCAAACT
124515 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
124534 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
124547 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
124568 TGTATCGATACA
1 TGTATCGATACA
124580 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:124551 original size:13 final size:13
Alignment explanation
Indices: 124533--124558 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
124523 TACACAAAAT
124533 ATGTATCGATACA
1 ATGTATCGATACA
124546 ATGTATCGATACA
1 ATGTATCGATACA
124559 CAAAAAATAT
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):
ATGTATCGATACA
Found at i:124556 original size:32 final size:33
Alignment explanation
Indices: 124515--124579 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
124505 TAGCCAAACT
124515 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
124547 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
124580 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:124882 original size:32 final size:30
Alignment explanation
Indices: 124839--124898 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 30
124829 TAGATCAAAG
124839 TATTTTATATTTTTCAAGAGCT-TTTGTTCA
1 TATTTTATATTTTTCAA-AGCTCTTTGTTCA
*
124869 TATTGTTATTATTTTTCTAAGCTCTTTGTT
1 TATT-TTA-TATTTTTCAAAGCTCTTTGTT
124899 TTTGATTTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 7 0.27
32 15 0.58
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (30 bp):
TATTTTATATTTTTCAAAGCTCTTTGTTCA
Found at i:130311 original size:13 final size:13
Alignment explanation
Indices: 130293--130330 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
130283 CATTTTTCTT
130293 TGTATCGATACAA
1 TGTATCGATACAA
* *
130306 TGTATCGATGCAC
1 TGTATCGATACAA
130319 TGTATCGATACA
1 TGTATCGATACA
130331 GGGGGATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:130485 original size:20 final size:20
Alignment explanation
Indices: 130442--130487 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
130432 AAATCTTTTG
130442 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
130463 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
130483 CAAAA
1 CAAAA
130488 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:132884 original size:19 final size:19
Alignment explanation
Indices: 132860--132924 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
132850 TAGCCAAACT
132860 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
132879 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
132892 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
132913 TGTATCGATACA
1 TGTATCGATACA
132925 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:132896 original size:13 final size:13
Alignment explanation
Indices: 132878--132903 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
132868 TACACAAAAT
132878 ATGTATCGATACA
1 ATGTATCGATACA
132891 ATGTATCGATACA
1 ATGTATCGATACA
132904 CAAAAAATAT
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):
ATGTATCGATACA
Found at i:132901 original size:32 final size:33
Alignment explanation
Indices: 132860--132924 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
132850 TAGCCAAACT
132860 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
132892 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
132925 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:136926 original size:33 final size:33
Alignment explanation
Indices: 136858--136926 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 33
136848 GCCATTGAGC
* * * *
136858 ACAATGTATCGATACGTTTCATCATATATCTAT
1 ACAATGTATCGATACATGTCACCATATATCGAT
*
136891 ACAATGTATCGATACAATGTC-CCATGTATCGAT
1 ACAATGTATCGATAC-ATGTCACCATATATCGAT
136924 ACA
1 ACA
136927 TCTGGATGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (33 bp):
ACAATGTATCGATACATGTCACCATATATCGAT
Found at i:138004 original size:25 final size:27
Alignment explanation
Indices: 137976--138027 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
137966 GACGTTTTAA
137976 TATTTT-AAA-AATATTTTTGAATTAT
1 TATTTTAAAAGAATATTTTTGAATTAT
138001 TATTTTGAAAAGAATATTTTTGAATTA
1 TATTTT-AAAAGAATATTTTTGAATTA
138028 ATGGCATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 6 0.25
27 3 0.12
28 15 0.62
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (27 bp):
TATTTTAAAAGAATATTTTTGAATTAT
Found at i:139495 original size:117 final size:122
Alignment explanation
Indices: 139366--139618 Score: 274
Period size: 123 Copynumber: 2.1 Consensus size: 122
139356 AATATTTGGT
* *
139366 TATTATATTATATTATAATATT-AGAATTATA-TTTTT-AAA-GCTTTTGTCCAAATAT-TCAGT
1 TATTATA-TATATTATAAGATTAAG-ATTATATTTTTTAAAATGCTTTTATCCAAATATCT-AGT
* * *
139426 CA-AAAATAAGATAATGATAATTT-TGTTTGTTTAAAATTAATTGTTGGTTAAT-T-TATA
63 CAGAAAATAACATAATGATAATTTAT-TTTCTTTAAAATTAATCGTTGGTTAATGTGTATA
* ** *
139483 TATTATTATATATTATGAGATTAAGATTATATTTTTTAAAATTTTTTTATCCAAATATCTAGTTA
1 TATTA-TATATATTATAAGATTAAGATTATATTTTTTAAAATGCTTTTATCCAAATATCTAGTCA
* *
139548 TGAAAATAACATAATGATAATTTACTTTTCTTTAAATTTAATCGTTTGTTAATGTGTATA
65 -GAAAATAACATAATGATAATTTA-TTTTCTTTAAAATTAATCGTTGGTTAATGTGTATA
139608 TA-TATATATAT
1 TATTATATATAT
139619 CTTAGGTTTT
Statistics
Matches: 113, Mismatches: 11, Indels: 18
0.80 0.08 0.13
Matches are distributed among these distances:
117 23 0.20
118 9 0.08
119 3 0.03
120 17 0.15
121 1 0.01
122 20 0.18
123 30 0.27
124 4 0.04
125 6 0.05
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (122 bp):
TATTATATATATTATAAGATTAAGATTATATTTTTTAAAATGCTTTTATCCAAATATCTAGTCAG
AAAATAACATAATGATAATTTATTTTCTTTAAAATTAATCGTTGGTTAATGTGTATA
Found at i:154934 original size:166 final size:166
Alignment explanation
Indices: 154747--155059 Score: 450
Period size: 166 Copynumber: 1.9 Consensus size: 166
154737 TTTTCGGGAG
* ** * *
154747 GATTTTTCTTGGTTTTTAATTTTTAAAATTTATCAAATATTGTTATTTATTTCATATTAAATAC-
1 GATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATCATTATTTAGTTCATAATAAA-ACT
* *
154811 ATTTTCAAAAATTTATTCATTTTCATTAGTTTTTGAATTTTTTC-TTGAAATTCTCTTGTTTTCG
65 ATTTTCAAAAATTTATTCATTTTCATGAG-TTTTGAATTTTTTCTTTGAAATTCTCATGTTTTCG
* **
154875 AAATACGGAGTTTTCTATTTTGTAAATTTTTTTAAGGA
129 AAAAACCAAGTTTTCTATTTTGTAAATTTTTTTAAGGA
* * *
154913 GATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATCATTATTTGGTTCATAATAAAGCTT
1 GATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATCATTATTTAGTTCATAATAAAACTA
* * *
154978 TTTTGAAAAATTTATTTATTTTCATGAGTTTTGAATTTTTTCTTTGAAATTTTCATGTTTTCGAA
66 TTTTCAAAAATTTATTCATTTTCATGAGTTTTGAATTTTTTCTTTGAAATTCTCATGTTTTCGAA
155043 AAACCAAGTTTTCTATT
131 AAACCAAGTTTTCTATT
155060 CCATGAACAT
Statistics
Matches: 129, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
165 15 0.12
166 114 0.88
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.54
Consensus pattern (166 bp):
GATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATCATTATTTAGTTCATAATAAAACTA
TTTTCAAAAATTTATTCATTTTCATGAGTTTTGAATTTTTTCTTTGAAATTCTCATGTTTTCGAA
AAACCAAGTTTTCTATTTTGTAAATTTTTTTAAGGA
Found at i:155086 original size:166 final size:166
Alignment explanation
Indices: 154748--155125 Score: 447
Period size: 166 Copynumber: 2.3 Consensus size: 166
154738 TTTCGGGAGG
* * * *
154748 ATTTTTCTTGGTTTTTAATTTTTAAAATTTATCAAATATTGTTATTTATTTCATATTAAATACAT
1 ATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAGTTCATAATAAATACAT
* *
154813 TTTCAAAAATTTATTCATTTTCATTAGTTTTTGAATTTTTTCTTGAAATTCTCTTGTTTTCGAAA
66 TTTCAAAAATTTATTCATTTTCATGAGTTTTTGAATTTTTTCTTGAAATTCTCATGTTTTCGAAA
* ** *** ** *
154878 TACGGAGTTTTCTATTTTGTAAATTTTTTTAAGGAG
131 AACCAAGTTTTCTATTCCATAAACATTTTTAAGGAA
* * * *
154914 ATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATCATTATTTGGTTCATAATAAA-GCTT
1 ATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAGTTCATAATAAATAC-A
* * *
154978 TTTTGAAAAATTTATTTATTTTCATGAG-TTTTGAATTTTTTCTTTGAAATTTTCATGTTTTCGA
65 TTTTCAAAAATTTATTCATTTTCATGAGTTTTTGAATTTTTTC-TTGAAATTCTCATGTTTTCGA
* *
155042 AAAACCAAGTTTTCTATTCCATGAACATTTTT-GGGAAA
129 AAAACCAAGTTTTCTATTCCATAAACATTTTTAAGG-AA
** ** *
155080 ATTTTTCTTAATTTAAAATTTTTAAAATTCATCTAATATTATTATT
1 ATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATT
155126 AAACTCTCAT
Statistics
Matches: 179, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
165 17 0.09
166 162 0.91
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.53
Consensus pattern (166 bp):
ATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAGTTCATAATAAATACAT
TTTCAAAAATTTATTCATTTTCATGAGTTTTTGAATTTTTTCTTGAAATTCTCATGTTTTCGAAA
AACCAAGTTTTCTATTCCATAAACATTTTTAAGGAA
Found at i:155660 original size:11 final size:11
Alignment explanation
Indices: 155646--155686 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
155636 AAAGTGAAGG
155646 AAAAATAGAGAA
1 AAAAATAGAG-A
155658 AAAAATAGAGA
1 AAAAATAGAGA
*
155669 AAAAATAAAGA
1 AAAAATAGAGA
155680 AAAAATA
1 AAAAATA
155687 AAAACTAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (11 bp):
AAAAATAGAGA
Found at i:155661 original size:12 final size:12
Alignment explanation
Indices: 155646--155684 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
155636 AAAGTGAAGG
155646 AAAAATAGAGAA
1 AAAAATAGAGAA
155658 AAAAATAGAG-A
1 AAAAATAGAGAA
*
155669 AAAAATAAAGAA
1 AAAAATAGAGAA
155681 AAAA
1 AAAA
155685 TAAAAACTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (12 bp):
AAAAATAGAGAA
Found at i:156216 original size:167 final size:168
Alignment explanation
Indices: 156028--156331 Score: 511
Period size: 167 Copynumber: 1.8 Consensus size: 168
156018 TTTGTAAACA
* *
156028 TAGGGACTAAATTGCAAAAAACCCAAAAACCTTTCTTTGAATAATCCATGCTTGGCCGAATATTG
1 TAGGGACTAAATTGCAAAAAACCCAAAAACCTTTCTTTGAATAATCCATACTTGGCCAAATATTG
* *
156093 ATGAGGATTTTTGCCATGTTTGGTTGCTGATTCAAAGCTGATTTCATATCTTGATAGTGTA-TTT
66 ATGAGGATTTTTGCCATGTTTGGTTGCTAATTCAAAGCTAATTTCATATCTTGATAGTGTATTTT
156157 TTATGTTATTTAGGATTAAAATACAAATTTAACAAGTT
131 TTATGTTATTTAGGATTAAAATACAAATTTAACAAGTT
* * * *
156195 TAGGTACTAAATTGTAAAAAACCCAAAAACTTTTCTTTGAATGATCCATACTTGGCCAAATATTG
1 TAGGGACTAAATTGCAAAAAACCCAAAAACCTTTCTTTGAATAATCCATACTTGGCCAAATATTG
* *
156260 ATGAGGATTTTTGCCATGTTTGGTTGCTAATTCCAAGCTAATTTCATGTCTTGATAGTGTATTTT
66 ATGAGGATTTTTGCCATGTTTGGTTGCTAATTCAAAGCTAATTTCATATCTTGATAGTGTATTTT
156325 TTATGTT
131 TTATGTT
156332 GTTTTTTTTA
Statistics
Matches: 126, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
167 116 0.92
168 10 0.08
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (168 bp):
TAGGGACTAAATTGCAAAAAACCCAAAAACCTTTCTTTGAATAATCCATACTTGGCCAAATATTG
ATGAGGATTTTTGCCATGTTTGGTTGCTAATTCAAAGCTAATTTCATATCTTGATAGTGTATTTT
TTATGTTATTTAGGATTAAAATACAAATTTAACAAGTT
Found at i:160121 original size:13 final size:13
Alignment explanation
Indices: 160103--160130 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
160093 ATACAAAGAT
160103 CAATGTATCGATA
1 CAATGTATCGATA
160116 CAATGTATCGATA
1 CAATGTATCGATA
160129 CA
1 CA
160131 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:160835 original size:155 final size:156
Alignment explanation
Indices: 160571--160870 Score: 433
Period size: 155 Copynumber: 1.9 Consensus size: 156
160561 AGATATATTC
* * * *
160571 ATGTCGAAGGTATACCCATAAGGGCGTTTTCGTAATTTTTTTAGAGCCAAGTCTTAGGTTGTCAC
1 ATGTCGAAGGTATACCCATAAGGGCATTTTCGTAATATTTCTAGAGCCAAGTCTTAGGTTATCAC
* * * ** * *
160636 CGGTCTGCTTTTGTGCTGAAGGTGAGTATTTTGGATAGGTTTCATCCCATCTAAATCCTTTTTAG
66 CGGTCCGATTTTATGCCAAAAGTGAGTATTTAGGATAGGTTTCATCCCATCTAAATCCTTTTTAG
160701 GTCCTTTAGGGGTATCATGTACTTTT
131 GTCCTTTAGGGGTATCATGTACTTTT
** *
160727 ATGTCGAAGGTATTTCC-TAAGGGCATTTTCGTAATATTTCTAGAGCCGAGTCTTAGGTTATCAT
1 ATGTCGAAGGTATACCCATAAGGGCATTTTCGTAATATTTCTAGAGCCAAGTCTTAGGTTATCA-
* *
160791 CGGGTCCGATTTTATGCCAAAAGTGGGTATTTAGGATAGG-TTCATCCCATCTAAATCCTTTTTA
65 CCGGTCCGATTTTATGCCAAAAGTGAGTATTTAGGATAGGTTTCATCCCATCTAAATCCTTTTTA
160855 GGTCCTTTAGGGGTAT
130 GGTCCTTTAGGGGTAT
160871 GGTTATTTTT
Statistics
Matches: 127, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
155 81 0.64
156 46 0.36
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (156 bp):
ATGTCGAAGGTATACCCATAAGGGCATTTTCGTAATATTTCTAGAGCCAAGTCTTAGGTTATCAC
CGGTCCGATTTTATGCCAAAAGTGAGTATTTAGGATAGGTTTCATCCCATCTAAATCCTTTTTAG
GTCCTTTAGGGGTATCATGTACTTTT
Found at i:160939 original size:155 final size:155
Alignment explanation
Indices: 160597--161018 Score: 395
Period size: 155 Copynumber: 2.7 Consensus size: 155
160587 CATAAGGGCG
* * * * * * * * * ** * *
160597 TTTTCGTAATTTTTTTAGAGCCAAGTCTTAGGTTGTCACCG-GTCTGCTTTTGTGCTGAAGGTGA
1 TTTTCGTAATATTTCTAAAACCAAGTCCTAGGTTATCACCGAGTCCGATTTTATGCCAAAAGTGG
*
160661 GTATTTTGGATAGGTTTCATCCCATCTAAATCCTTTTTAGGTCCTTTAGGGGTATCATGTACTTT
66 GTATTTAGGATAGG-TTCATCCCATCTAAATCCTTTTTAGGTCCTTTAGGGGTATCATGTACTTT
* * *
160726 TATGTCGAAGGTATTTCCTAAGGGCA
130 TACGTCAAAGGTATTTCCTAAAGGCA
* * * * * *
160752 TTTTCGTAATATTTCTAGAGCCGAGTCTTAGGTTATCATCGGGTCCGATTTTATGCCAAAAGTGG
1 TTTTCGTAATATTTCTAAAACCAAGTCCTAGGTTATCACCGAGTCCGATTTTATGCCAAAAGTGG
** *
160817 GTATTTAGGATAGGTTCATCCCATCTAAATCCTTTTTAGGTCCTTTAGGGGTATGGT-TATTTTT
66 GTATTTAGGATAGGTTCATCCCATCTAAATCCTTTTTAGGTCCTTTAGGGGTATCATGTACTTTT
160881 ACGTCAAAGGTA-TTCTCTAAAGGCA
131 ACGTCAAAGGTATTTC-CTAAAGGCA
* * * * * * ** *
160906 -TTTCAGTAATTTTTTTGAAAACCAAGTCCTAGGTTGTCACCGAGTTCGTTTTTATGTCGGAGGT
1 TTTTC-GTAATATTTCT-AAAACCAAGTCCTAGGTTATCACCGAGTCCGATTTTATGCCAAAAGT
* * * * * *
160970 GGGTAATTAGGATATGTTTATCCCTTTTATAAT-CTTTTTAAGTCCTTTA
64 GGGTATTTAGGATAGGTTCATCCCATCTA-AATCCTTTTTAGGTCCTTTA
161019 AGATCTCTGG
Statistics
Matches: 222, Mismatches: 40, Indels: 10
0.82 0.15 0.04
Matches are distributed among these distances:
153 7 0.03
154 33 0.15
155 150 0.68
156 32 0.14
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (155 bp):
TTTTCGTAATATTTCTAAAACCAAGTCCTAGGTTATCACCGAGTCCGATTTTATGCCAAAAGTGG
GTATTTAGGATAGGTTCATCCCATCTAAATCCTTTTTAGGTCCTTTAGGGGTATCATGTACTTTT
ACGTCAAAGGTATTTCCTAAAGGCA
Found at i:164384 original size:12 final size:13
Alignment explanation
Indices: 164380--164409 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
164370 AAAAAAAATG
164380 AAAAATGAAAAG-
1 AAAAATGAAAAGA
164392 AAAAATGAAAAGA
1 AAAAATGAAAAGA
164405 AAAAA
1 AAAAA
164410 ATGTGCAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (13 bp):
AAAAATGAAAAGA
Found at i:164455 original size:15 final size:14
Alignment explanation
Indices: 164435--164470 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
164425 AAGGTACAGA
164435 AAAAAAGAAAAAAT
1 AAAAAAGAAAAAAT
164449 GAAAAAAG-AAAAAT
1 -AAAAAAGAAAAAAT
164463 AAAAAAGA
1 AAAAAAGA
164471 TGAGGAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 7 0.35
14 6 0.30
15 7 0.35
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (14 bp):
AAAAAAGAAAAAAT
Found at i:166372 original size:89 final size:89
Alignment explanation
Indices: 166207--166723 Score: 644
Period size: 89 Copynumber: 5.8 Consensus size: 89
166197 CACATATTCT
* * * * *
166207 TAATCATATCCCCTTCACCTAATCATTAAATGGTATTGATGCATCACAAAGCCTGATTTCCTT-G
1 TAATCATATCCCCTTCACCCAACCACTAGATGGTATTGATGCATCACAAAGCTTGATTTCCTTAG
** * * **
166271 AGGCAAAATATAGCTCGCACATCTT
66 -GGCAAGGTATAGCCCACACATCCC
* * * * *
166296 TAATCATATTCCCTTCATCTAACCACTAGATGGTATTGATGCATCACAAAGCTTAATTTCCCTAG
1 TAATCATATCCCCTTCACCCAACCACTAGATGGTATTGATGCATCACAAAGCTTGATTTCCTTAG
* *
166361 GGTAGGGTATAGCCCACACATCCC
66 GGCAAGGTATAGCCCACACATCCC
* * *
166385 TAATCATATCCCCTTCACCCAATCACTAGATGGTATT-ATTGCATCACAAAGCTTGATTTTCTTG
1 TAATCATATCCCCTTCACCCAACCACTAGATGGTATTGA-TGCATCACAAAGCTTGATTTCCTTA
* *
166449 GGGCAAGGTGTAGCCCACACATTCC
65 GGGCAAGGTATAGCCCACACATCCC
*
166474 TAATCATATCACCTTCACCCAACCACTAGATGGTATTGATGCATCACAAAGCTTGATTTCCTTAG
1 TAATCATATCCCCTTCACCCAACCACTAGATGGTATTGATGCATCACAAAGCTTGATTTCCTTAG
* *
166539 GGTAAGGTGTAGCCCACACATCCC
66 GGCAAGGTATAGCCCACACATCCC
* * * *
166563 TAATCATATTCCCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATTTCCTTGG
1 TAATCATATCCCCTTCACCCAACCACTAGATGGTATTGATGCATCACAAAGCTTGATTTCCTTAG
* *
166628 GGCAAGAG-GTAGCCTACACATCCC
66 GGCAAG-GTATAGCCCACACATCCC
* * ** * *
166652 TAATCATATCCCCTTCATCGAACCACTAGATGGTATTGATGTGTCACAAAACTTGATTTCCTTGG
1 TAATCATATCCCCTTCACCCAACCACTAGATGGTATTGATGCATCACAAAGCTTGATTTCCTTAG
166717 GGCAAGG
66 GGCAAGG
166724 GTGCTTCCCA
Statistics
Matches: 377, Mismatches: 47, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
88 2 0.01
89 372 0.99
90 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (89 bp):
TAATCATATCCCCTTCACCCAACCACTAGATGGTATTGATGCATCACAAAGCTTGATTTCCTTAG
GGCAAGGTATAGCCCACACATCCC
Found at i:166682 original size:267 final size:266
Alignment explanation
Indices: 166197--166723 Score: 720
Period size: 267 Copynumber: 2.0 Consensus size: 266
166187 ATTATGGAAA
* * * * * *
166197 CACATATTCTTAATCATATCCCCTTCACCTAATCATTAAATGGTATTGATGCATCACAAAGCCTG
1 CACACATTCCTAATCATATCACCTTCACCCAACCACTAAATGGTATTGATGCATCACAAAGCCTG
* * ** *
166262 ATTTCCTTGAGGCAAAATATAGCTCGCACATCTTTAATCATATTCCCTTCATCTAACCACTAGAT
66 ATTTCCTTGAGGCAAAATATAGCCCACACATCCCTAATCATATTCCCTTCATCCAACCACTAGAT
* *
166327 GGTATTGATGCATCACAAAGCTTAATTTCCCTAGGGTAGGGTATAGCCCACACATCCCTAATCAT
131 GGTATTGATGCATCACAAAGCCTAATTTCCCTAGGGAAGGG-ATAGCCCACACATCCCTAATCAT
* * *
166392 ATCCCCTTCACCCAATCACTAGATGGTATT-AT-TGCATCACAAAGCTTGATTTTCTTGGGGCAA
195 ATCCCCTTCACCCAACCACTAGATGGTATTGATGTG--TCACAAAACTTGATTTCCTTGGGGCAA
166455 GGTGTAGCC
258 GGTGTAGCC
* *
166464 CACACATTCCTAATCATATCACCTTCACCCAACCACTAGATGGTATTGATGCATCACAAAGCTTG
1 CACACATTCCTAATCATATCACCTTCACCCAACCACTAAATGGTATTGATGCATCACAAAGCCTG
* ** *
166529 ATTTCCTT-AGGGTAAGGTGTAGCCCACACATCCCTAATCATATTCCCTTCATCCAACCACTAGA
66 ATTTCCTTGA-GGCAAAATATAGCCCACACATCCCTAATCATATTCCCTTCATCCAACCACTAGA
* * * *
166593 TGGTATTGATGCATCACAAAGCCTGATTTCCTTGGGGCAAGAGG-TAGCCTACACATCCCTAATC
130 TGGTATTGATGCATCACAAAGCCTAATTTCCCTAGGG-AAG-GGATAGCCCACACATCCCTAATC
* *
166657 ATATCCCCTTCATCGAACCACTAGATGGTATTGATGTGTCACAAAACTTGATTTCCTTGGGGCAA
193 ATATCCCCTTCACCCAACCACTAGATGGTATTGATGTGTCACAAAACTTGATTTCCTTGGGGCAA
166722 GG
258 GG
166724 GTGCTTCCCA
Statistics
Matches: 227, Mismatches: 28, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
266 1 0.00
267 218 0.96
268 4 0.02
269 4 0.02
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (266 bp):
CACACATTCCTAATCATATCACCTTCACCCAACCACTAAATGGTATTGATGCATCACAAAGCCTG
ATTTCCTTGAGGCAAAATATAGCCCACACATCCCTAATCATATTCCCTTCATCCAACCACTAGAT
GGTATTGATGCATCACAAAGCCTAATTTCCCTAGGGAAGGGATAGCCCACACATCCCTAATCATA
TCCCCTTCACCCAACCACTAGATGGTATTGATGTGTCACAAAACTTGATTTCCTTGGGGCAAGGT
GTAGCC
Found at i:167264 original size:20 final size:20
Alignment explanation
Indices: 167241--167313 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
167231 ACAATTCAAA
167241 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
167261 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
167282 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
167302 GTATCGATACAT
1 GTATCGATACAT
167314 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:167285 original size:21 final size:21
Alignment explanation
Indices: 167259--167334 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
167249 ACATGTTGCA
167259 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
167280 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
167300 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
167321 TTGTATCGATACAT
1 ATGTATCGATACAT
167335 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:167292 original size:41 final size:41
Alignment explanation
Indices: 167241--167334 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
167231 ACAATTCAAA
*
167241 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
167282 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
167323 GTATCGATACAT
1 GTATCGATACAT
167335 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:167390 original size:13 final size:13
Alignment explanation
Indices: 167372--167398 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
167362 ATACAGCAAG
167372 AATGTATCGATAC
1 AATGTATCGATAC
167385 AATGTATCGATAC
1 AATGTATCGATAC
167398 A
1 A
167399 CAAAAAATTG
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:167396 original size:32 final size:33
Alignment explanation
Indices: 167355--167418 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
167345 TAGCCAAACT
*
167355 TGTATCGATACAGC-AAGAA-TGTATCGATACAA
1 TGTATCGATACA-CAAAAAATTGTATCGATACAA
167387 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
167419 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.03
32 16 0.55
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:171479 original size:15 final size:15
Alignment explanation
Indices: 171459--171489 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
171449 TAAAAATGTC
*
171459 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
171474 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
171489 C
1 C
171490 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:173569 original size:20 final size:21
Alignment explanation
Indices: 173500--173577 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
173490 AATGTCCAAA
*
173500 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
173520 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
173545 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
173565 TTGTATCGATACA
1 ATGTATCGATACA
173578 ATGTATCGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 30 0.64
24 3 0.06
25 14 0.30
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:173584 original size:13 final size:13
Alignment explanation
Indices: 173566--173603 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
173556 CATTTTTCTT
173566 TGTATCGATACAA
1 TGTATCGATACAA
*
173579 TGTATCGATACAC
1 TGTATCGATACAA
173592 TGTATCGATACA
1 TGTATCGATACA
173604 GGGTGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:176069 original size:20 final size:20
Alignment explanation
Indices: 176046--176118 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
176036 ACAATTCAAA
176046 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
176066 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
176087 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
176107 GTATCGATACAT
1 GTATCGATACAT
176119 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:176090 original size:21 final size:21
Alignment explanation
Indices: 176064--176139 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
176054 ACATGTTGCA
176064 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
176085 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
176105 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
176126 TTGTATCGATACAT
1 ATGTATCGATACAT
176140 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:176097 original size:41 final size:41
Alignment explanation
Indices: 176046--176139 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
176036 ACAATTCAAA
*
176046 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
176087 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
176128 GTATCGATACAT
1 GTATCGATACAT
176140 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:176195 original size:13 final size:13
Alignment explanation
Indices: 176177--176203 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
176167 ATACAGCAAG
176177 AATGTATCGATAC
1 AATGTATCGATAC
176190 AATGTATCGATAC
1 AATGTATCGATAC
176203 A
1 A
176204 CAAAAATTGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:176201 original size:32 final size:32
Alignment explanation
Indices: 176160--176222 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
176150 TAGCCAAACT
*
176160 TGTATCGATACAGCAAGAA-TGTATCGATACAA
1 TGTATCGATACA-CAAAAATTGTATCGATACAA
176192 TGTATCGATACACAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAATTGTATCGATACA
176223 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 5 0.17
32 24 0.83
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACAAAAATTGTATCGATACAA
Found at i:177561 original size:42 final size:41
Alignment explanation
Indices: 177514--177625 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 41
177504 CTCAAATTTG
*
177514 AGAGACTTTTTTACCTTTCATCTGCTCGTCGGCCCAGACCTA
1 AGAGACTTTTTTACCTTT-ATCTGCCCGTCGGCCCAGACCTA
* * * * *
177556 GGAGACTTCTTTATCTTTGTCTGCCCGTCGGCTCAGACCTA
1 AGAGACTTTTTTACCTTTATCTGCCCGTCGGCCCAGACCTA
* *
177597 AGAGACTTTTTTATCCTTTGTCTTCCCGT
1 AGAGACTTTTTTA-CCTTTATCTGCCCGT
177626 TAGCTAAGAC
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 31 0.53
42 28 0.47
ACGTcount: A:0.16, C:0.29, G:0.18, T:0.38
Consensus pattern (41 bp):
AGAGACTTTTTTACCTTTATCTGCCCGTCGGCCCAGACCTA
Found at i:177643 original size:42 final size:42
Alignment explanation
Indices: 177307--178255 Score: 367
Period size: 42 Copynumber: 22.6 Consensus size: 42
177297 AGTCTTATTC
* * * * * *
177307 AGACTTCTTTATCATTTGTCGGCCTGTCGGCTCAAACTCGAA
1 AGACTTCTTTATCCTTTGTCTGCCCGTCAGCTCAGACTCGAG
* ** * * * * * * * *
177349 AGACTTCTTAATTATTTGTTTGCACATCGGCTTAAACCCAAG
1 AGACTTCTTTATCCTTTGTCTGCCCGTCAGCTCAGACTCGAG
* * * * ** * *
177391 AGACTTCTTTATCTTTTGTTTGTCTGTTGGCTCTGACT-TAGG
1 AGACTTCTTTATCCTTTGTCTGCCCGTCAGCTCAGACTCGA-G
* * * * * * *
177433 AGACTTTTTTATCCTTTGTTTACCTGTTAGCTTAGGCTCGAG
1 AGACTTCTTTATCCTTTGTCTGCCCGTCAGCTCAGACTCGAG
* * * * * * * *
177475 ACACATCTTTATCCTTTGTCT-ACCGTTAACTCAAATTTGAG
1 AGACTTCTTTATCCTTTGTCTGCCCGTCAGCTCAGACTCGAG
* * * * * *
177516 AGACTTTTTTA-CCTTTCATCTGCTCGTCGGCCCAGAC-CTAGG
1 AGACTTCTTTATCCTTT-GTCTGCCCGTCAGCTCAGACTCGA-G
* *
177558 AGACTTCTTTAT-CTTTGTCTGCCCGTCGGCTCAGAC-CTAAG
1 AGACTTCTTTATCCTTTGTCTGCCCGTCAGCTCAGACTC-GAG
* * * *
177599 AGACTTTTTTATCCTTTGTCTTCCCGTTAGCTAAGACTCGAG
1 AGACTTCTTTATCCTTTGTCTGCCCGTCAGCTCAGACTCGAG
* * * ** * * *
177641 AGACTTTTTTATTCATTGTCTGCTTGTCGGCTTAGACTCGGG
1 AGACTTCTTTATCCTTTGTCTGCCCGTCAGCTCAGACTCGAG
* * * * * * *
177683 AGACTTCTTTATCATTT-TTTGGCCTGT-TGACTCAGGCCCGGG
1 AGACTTCTTTATCCTTTGTCT-GCCCGTCAG-CTCAGACTCGAG
* * * * *
177725 AGACTTTTTTATCCTTTGTCTACCCAT-AGGCTCTGGC-CTGAG
1 AGACTTCTTTATCCTTTGTCTGCCCGTCA-GCTCAGACTC-GAG
* * * * * * *
177767 AGACTTCTTTATCTTTTGTCTACCCATCGGCTTAGGC-CTAG
1 AGACTTCTTTATCCTTTGTCTGCCCGTCAGCTCAGACTCGAG
* * * * *
177808 AAGACTT-TTTCATCTTTTGTCAGCCCGTCAACTCAAACTCGGG
1 -AGACTTCTTT-ATCCTTTGTCTGCCCGTCAGCTCAGACTCGAG
* * * * *
177851 AGACTTCTTTGTCTTTTGTTTACCCGTCAGCTCAGA-TCCATG
1 AGACTTCTTTATCCTTTGTCTGCCCGTCAGCTCAGACTCGA-G
* * *
177893 AGACTTCTTTATCTTTTGTCTGCCCATCAGCTCA-AGCCCGAG
1 AGACTTCTTTATCCTTTGTCTGCCCGTCAGCTCAGA-CTCGAG
* * * ** *
177935 AGACTTCTTCATCCTTTGTCTGCCCATTAGCTCAGGGTCGAA
1 AGACTTCTTTATCCTTTGTCTGCCCGTCAGCTCAGACTCGAG
* ** * * *
177977 AGACTT-TTTCATCTTTTGTCAACCCATCAACTCAGACTCGGG
1 AGACTTCTTT-ATCCTTTGTCTGCCCGTCAGCTCAGACTCGAG
* * * *
178019 AGACTTCTTTGTCTTTTATCTGCCAGTC-GACTCAGACTCGAG
1 AGACTTCTTTATCCTTTGTCTGCCCGTCAG-CTCAGACTCGAG
** * *
178061 AGACTTCTTTATCCTTTGTCTGCCTATCAGCTCTGGC-CGAGG
1 AGACTTCTTTATCCTTTGTCTGCCCGTCAGCTCAGACTCGA-G
* * * * * * * *
178103 AGATTTCTTTATCCTTTATCTGCCCATCGGTTTAGACACAAG
1 AGACTTCTTTATCCTTTGTCTGCCCGTCAGCTCAGACTCGAG
* * * *
178145 AGACTTTTTTTTAT-CTTATGTCTACCCGTC-GCCTCA-AGCTTGGG
1 AGAC--TTCTTTATCCTT-TGTCTGCCCGTCAG-CTCAGA-CTCGAG
* * * * *
178189 AGAC-TCTTTTATCTTTTGTCTGCCCGTCAACTTAGGC-CGGGG
1 AGACTTC-TTTATCCTTTGTCTGCCCGTCAGCTCAGACTC-GAG
* *
178231 AGACATCTTTATCCTTTGTTTGCCC
1 AGACTTCTTTATCCTTTGTCTGCCC
178256 ATCAACTCTA
Statistics
Matches: 678, Mismatches: 189, Indels: 80
0.72 0.20 0.08
Matches are distributed among these distances:
40 5 0.01
41 73 0.11
42 549 0.81
43 27 0.04
44 24 0.04
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.38
Consensus pattern (42 bp):
AGACTTCTTTATCCTTTGTCTGCCCGTCAGCTCAGACTCGAG
Found at i:177644 original size:83 final size:83
Alignment explanation
Indices: 177389--177678 Score: 210
Period size: 83 Copynumber: 3.5 Consensus size: 83
177379 CTTAAACCCA
* * * * * *
177389 AGAGACTTCTTTATCTTTTGTTTGTCTGTTGGCTCTGACTTAGGAGACTTTTTTATCCTTTGT-T
1 AGAGACTTCTTTATC-TTTGTCTGCCCGTCGGCTCAGACTTAAGAGACTTTTTTATCCTTTGTCT
* * *
177453 TACCTGTTAGCTTAGGCTCG
65 T-CCCGTTAGCTAAGACTCG
* * * *** * * * *
177473 AGACACATCTTTATCCTTTGTCT-ACCGTTAACTCAAATTTGAGAGACTTTTTTA-CCTTTCATC
1 AGAGACTTCTTTAT-CTTTGTCTGCCCGTCGGCTCAGACTTAAGAGACTTTTTTATCCTTT-GTC
* * ** ** *
177536 TGCTCGTCGGCCCAGAC-CT
64 TTCCCGTTAGCTAAGACTCG
*
177555 AGGAGACTTCTTTATCTTTGTCTGCCCGTCGGCTCAGACCTAAGAGACTTTTTTATCCTTTGTCT
1 A-GAGACTTCTTTATCTTTGTCTGCCCGTCGGCTCAGACTTAAGAGACTTTTTTATCCTTTGTCT
177620 TCCCGTTAGCTAAGACTCG
65 TCCCGTTAGCTAAGACTCG
* * ** *
177639 AGAGACTTTTTTATTCATTGTCTGCTTGTCGGCTTAGACT
1 AGAGACTTCTTTA-TCTTTGTCTGCCCGTCGGCTCAGACT
177679 CGGGAGACTT
Statistics
Matches: 152, Mismatches: 46, Indels: 16
0.71 0.21 0.07
Matches are distributed among these distances:
82 15 0.10
83 89 0.59
84 47 0.31
85 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (83 bp):
AGAGACTTCTTTATCTTTGTCTGCCCGTCGGCTCAGACTTAAGAGACTTTTTTATCCTTTGTCTT
CCCGTTAGCTAAGACTCG
Found at i:177663 original size:125 final size:126
Alignment explanation
Indices: 177482--177745 Score: 279
Period size: 125 Copynumber: 2.1 Consensus size: 126
177472 GAGACACATC
* * *
177482 TTTATCCTTTGTC-TACCGTTAACTCAAATTTGAGAGACTTTTTTACCTTTCATCTGCTCGTCGG
1 TTTATCCTTTGTCTTACCGTTAACTCAAACTCGAGAGACTTTTTTACCATTCATCTGCTCGTCGG
* *
177546 CCCAGAC-CTAGGAGACTTCTTTATC-TTTGTCT-GCCCGTCGGCTCAGACCTAAGAGACTTT
66 CCCAGACTC-AGGAGACTTCTTTATCATTT-TCTGGCCCGTCGACTCAGACCCAAGAGACTTT
* * * * *
177606 TTTATCCTTTGTCTTCCCGTTAGCT-AAGACTCGAGAGACTTTTTTATTCATT-GTCTGCTTGTC
1 TTTATCCTTTGTCTTACCGTTAACTCAA-ACTCGAGAGACTTTTTTA-CCATTCATCTGCTCGTC
** * * * * * **
177669 GGCTTAGACTCGGGAGACTTCTTTATCATTTTTTGGCCTGTTGACTCAGGCCCGGGAGACTTT
64 GGCCCAGACTCAGGAGACTTCTTTATCATTTTCTGGCCCGTCGACTCAGACCCAAGAGACTTT
177732 TTTATCCTTTGTCT
1 TTTATCCTTTGTCT
177746 ACCCATAGGC
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
124 15 0.13
125 58 0.50
126 42 0.37
ACGTcount: A:0.17, C:0.24, G:0.19, T:0.40
Consensus pattern (126 bp):
TTTATCCTTTGTCTTACCGTTAACTCAAACTCGAGAGACTTTTTTACCATTCATCTGCTCGTCGG
CCCAGACTCAGGAGACTTCTTTATCATTTTCTGGCCCGTCGACTCAGACCCAAGAGACTTT
Found at i:178151 original size:168 final size:164
Alignment explanation
Indices: 177674--178153 Score: 518
Period size: 168 Copynumber: 2.9 Consensus size: 164
177664 TTGTCGGCTT
* * * * * * *
177674 AGACTCGGGAGACTTCTTTATCATTTTTTGGCCTGTTGACTCAGGCCCGGGAGACTTTTTTATCC
1 AGACTCGGGAGACTTCTTTGTC-TTTTTT-GCCAGTCGACTCAGACTCGAGAGACTTCTTTATCC
* * *
177739 TTTGTCTACCCAT-AGGCTCTGGCCTGAGAGACTTCTTTATCTTTTGTCTACCCATCGGCTTAGG
64 TTTGTCTGCCCATCA-GCTCTGGCC-GAGAGACTTCTTTATCCTTTGTCTGCCCATCGGCTTAGG
* * *
177803 CCTAGAAGACTTTTTCATCTTTTGTCAGCCCGTCAACTC
127 CCAAG-AGACTTTTTCATCTTTTGTCAACCCATCAACTC
* * * *
177842 AAACTCGGGAGACTTCTTTGTCTTTTGTTTACCCGTC-AGCTCAGA-TCCATGAGACTTCTTTAT
1 AGACTCGGGAGACTTCTTTGTC-TTT-TTTGCCAGTCGA-CTCAGACTCGA-GAGACTTCTTTAT
* * * * ** *
177905 CTTTTGTCTGCCCATCAGCTCAAGCCCGAGAGACTTCTTCATCCTTTGTCTGCCCATTAGCTCAG
62 CCTTTGTCTGCCCATCAGCTC-TGGCCGAGAGACTTCTTTATCCTTTGTCTGCCCATCGGCTTA-
*
177970 GGTCGAA-AGACTTTTTCATCTTTTGTCAACCCATCAACTC
125 GG-CCAAGAGACTTTTTCATCTTTTGTCAACCCATCAACTC
178010 AGACTCGGGAGACTTCTTTGTCTTTTATCTGCCAGTCGACTCAGACTCGAGAGACTTCTTTATCC
1 AGACTCGGGAGACTTCTTTGTCTTTT-T-TGCCAGTCGACTCAGACTCGAGAGACTTCTTTATCC
* * * * *
178075 TTTGTCTGCCTATCAGCTCTGGCCGAGGAGATTTCTTTATCCTTTATCTGCCCATCGGTTTAGAC
64 TTTGTCTGCCCATCAGCTCTGGCCGA-GAGACTTCTTTATCCTTTGTCTGCCCATCGGCTTAGGC
178140 ACAAGAGACTTTTT
128 -CAAGAGACTTTTT
178154 TTTATCTTAT
Statistics
Matches: 256, Mismatches: 42, Indels: 28
0.79 0.13 0.09
Matches are distributed among these distances:
166 2 0.01
167 14 0.05
168 225 0.88
169 13 0.05
170 2 0.01
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (164 bp):
AGACTCGGGAGACTTCTTTGTCTTTTTTGCCAGTCGACTCAGACTCGAGAGACTTCTTTATCCTT
TGTCTGCCCATCAGCTCTGGCCGAGAGACTTCTTTATCCTTTGTCTGCCCATCGGCTTAGGCCAA
GAGACTTTTTCATCTTTTGTCAACCCATCAACTC
Found at i:181831 original size:51 final size:52
Alignment explanation
Indices: 181755--181868 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 52
181745 ATTTTCGATG
** * ***
181755 GGATACTCCAACCCCGGCTTTATTTCTAAAATATTGAT-TTCTCACAATCGA
1 GGATACTCCAACCCCAACTTTATTTCTAAAACACCAATCTTCTCACAATCGA
* * * *
181806 GGATACTCCAACCCTAATTTTATTTCTAAAACACCAATCTTTTCACAATCGG
1 GGATACTCCAACCCCAACTTTATTTCTAAAACACCAATCTTCTCACAATCGA
181858 GGATACTCCAA
1 GGATACTCCAA
181869 TCCTGTTATT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
51 30 0.58
52 22 0.42
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (52 bp):
GGATACTCCAACCCCAACTTTATTTCTAAAACACCAATCTTCTCACAATCGA
Found at i:181960 original size:51 final size:51
Alignment explanation
Indices: 181887--182002 Score: 135
Period size: 51 Copynumber: 2.3 Consensus size: 51
181877 TTTTCGAGGA
* * * *
181887 GATACTCCAATCCCGGCTTTATTTCTAAAACACCAATTTTTCACAATC-GAG
1 GATACTCCAACCCCGACCTTATTTCTAAAACACCAATTTTCCACAATCAG-G
* * * *
181938 GATACTCCAACCCCGACCTTATTTCTAAAGCATCGATTTTCCATAATCAGG
1 GATACTCCAACCCCGACCTTATTTCTAAAACACCAATTTTCCACAATCAGG
*
181989 GATACTCTAACCCC
1 GATACTCCAACCCC
182003 ATTATTTTCG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 54 0.98
52 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.29
Consensus pattern (51 bp):
GATACTCCAACCCCGACCTTATTTCTAAAACACCAATTTTCCACAATCAGG
Found at i:182065 original size:130 final size:129
Alignment explanation
Indices: 181676--182076 Score: 443
Period size: 131 Copynumber: 3.1 Consensus size: 129
181666 TTCATCTCAG
* * *
181676 GGATACTCCAACCTCGGTTTTATTTCTAAAATATCAATTTTTCATAATCGGGGATACTCCAATCC
1 GGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAA-CC
* * *
181741 CCTTATTTTCGATGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGA-TTTCTCACAATCG
65 CCTTATTTTCGAGGGGATACTCCAA-CCCGGCTTTATTTCTAAAACACTGATTTTCTCACAATCG
181805 A
129 A
** * *
181806 GGATACTCCAACCCTAATTTTATTTCTAAAACACCAATCTTTTCACAATCGGGGATACTCCAATC
1 GGATACTCCAACCCCGATTTTATTTCTAAAACATCAAT-TTTTCATAATCGGGGATACTCCAA-C
** * **
181871 CTGTTATTTTCGAGGAGATACTCCAATCCCGGCTTTATTTCTAAAACACCAATTTT-TCACAATC
64 CCCTTATTTTCGAGGGGATACTCCAA-CCCGGCTTTATTTCTAAAACACTGATTTTCTCACAATC
181935 GA
128 GA
** * * * * *
181937 GGATACTCCAACCCCGACCTTATTTCTAAAGCATCGATTTTCCATAATCAGGGATACTCTAACCC
1 GGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCC
* *** *
182002 CATTATTTTCGAGGGGATACTCCGACCCTAATTTTATTT-TCAAAACACTGATTTTCT-ATAATC
66 C-TTATTTTCGAGGGGATACTCCAACCC-GGCTTTATTTCT-AAAACACTGATTTTCTCACAATC
182065 G-
128 GA
182066 GAGATACTCCA
1 G-GATACTCCA
182077 GCCTCGTTGT
Statistics
Matches: 227, Mismatches: 37, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
129 7 0.03
130 107 0.47
131 110 0.48
132 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (129 bp):
GGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCC
CTTATTTTCGAGGGGATACTCCAACCCGGCTTTATTTCTAAAACACTGATTTTCTCACAATCGA
Found at i:183236 original size:42 final size:42
Alignment explanation
Indices: 183101--183240 Score: 124
Period size: 42 Copynumber: 3.3 Consensus size: 42
183091 TCAAGCTTAG
* * *
183101 GAGACTTT-TTTATCTTTTGTATGCCTATC-AGTTCAGGCTCGA
1 GAGA-TTTCTTTATCTTTTGTATGCCCATCGACTT-AGACTCGA
* * * * * * *
183143 TAGATTTCTTTATCCTTTGTCTGCCCATTGGCTCAGAC-CCA
1 GAGATTTCTTTATCTTTTGTATGCCCATCGACTTAGACTCGA
* *
183184 GGAGACTTCTTTATCTTTTGTTTGCCCATCGACTTAGACTCGA
1 -GAGATTTCTTTATCTTTTGTATGCCCATCGACTTAGACTCGA
183227 GAGATTTCTTTATC
1 GAGATTTCTTTATC
183241 ATTTATCAAC
Statistics
Matches: 75, Mismatches: 19, Indels: 8
0.74 0.19 0.08
Matches are distributed among these distances:
41 5 0.07
42 67 0.89
43 3 0.04
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (42 bp):
GAGATTTCTTTATCTTTTGTATGCCCATCGACTTAGACTCGA
Found at i:183260 original size:84 final size:84
Alignment explanation
Indices: 183099--183288 Score: 220
Period size: 84 Copynumber: 2.3 Consensus size: 84
183089 GCTCAAGCTT
* * * * * *
183099 AGGAGACTTTTTTATCTTTTGTATGCCTATCAGTTCAGGCTCGATAGATTTCTTTATCCTTTGTC
1 AGGAGACTTTTTTATCTTTTGTATGCCCATCACTTCAGACTCGAGAGATTTCTTTATCATTTATC
** *
183164 TGCCCATTGGCTCAGACCC
66 AACCCATCGGCTCAGACCC
* *
183183 AGGAGACTTCTTTATCTTTTGTTTGCCCATCGACTT-AGACTCGAGAGATTTCTTTATCATTTAT
1 AGGAGACTTTTTTATCTTTTGTATGCCCATC-ACTTCAGACTCGAGAGATTTCTTTATCATTTAT
* * * *
183247 CAACTCGTCGGCTCAGGCTC
65 CAACCCATCGGCTCAGACCC
*
183267 AAGAGACTTTTTTATCTTTTGT
1 AGGAGACTTTTTTATCTTTTGT
183289 CTGCTTGTCT
Statistics
Matches: 88, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
84 85 0.97
85 3 0.03
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (84 bp):
AGGAGACTTTTTTATCTTTTGTATGCCCATCACTTCAGACTCGAGAGATTTCTTTATCATTTATC
AACCCATCGGCTCAGACCC
Found at i:183428 original size:42 final size:42
Alignment explanation
Indices: 183354--183627 Score: 141
Period size: 42 Copynumber: 6.5 Consensus size: 42
183344 CAGACTTGAA
* * * **
183354 AGACTTCTTCATCTTTTATCTAGCCTTTAGCTT-AGGCTCGAG
1 AGACTTCTTTATCTTTTATCTAGCCATCAGCTTAAACCT-GAG
*
183396 AGCCTTCTTTATCTTTTATC-AGTCCATCAGCTTAAACCTGAG
1 AGACTTCTTTATCTTTTATCTAG-CCATCAGCTTAAACCTGAG
* * * * *
183438 AGACTTCTTTATCTTTTGT-TGGCCCATCGGCTTAGA-CTCAGG
1 AGACTTCTTTATCTTTTATCTAG-CCATCAGCTTAAACCTGA-G
* * * * * *
183480 AGATTTCTTTATCTTTTGTCT-GCCCCTTAGCTTAGACCTGAA
1 AGACTTCTTTATCTTTTATCTAG-CCATCAGCTTAAACCTGAG
* * * * * * * *
183522 AGACTTTTTTATCATTTGTCGACCCGATGA-CTTAGACCTGGG
1 AGACTTCTTTATCTTTTATCTAGCC-ATCAGCTTAAACCTGAG
* * * ** *
183564 AGGCTT-TTTCATTTTTTATCT-GCCCATCGGCTTATTCCTGGG
1 AGACTTCTTT-ATCTTTTATCTAG-CCATCAGCTTAAACCTGAG
183606 AGACTTCTTTATCTTTTATCTA
1 AGACTTCTTTATCTTTTATCTA
183628 TCCGTCGGCT
Statistics
Matches: 179, Mismatches: 40, Indels: 25
0.73 0.16 0.10
Matches are distributed among these distances:
41 10 0.06
42 157 0.88
43 12 0.07
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.41
Consensus pattern (42 bp):
AGACTTCTTTATCTTTTATCTAGCCATCAGCTTAAACCTGAG
Found at i:183471 original size:84 final size:84
Alignment explanation
Indices: 183399--183618 Score: 194
Period size: 84 Copynumber: 2.6 Consensus size: 84
183389 GCTCGAGAGC
* * *
183399 CTTCTTTATCTTTTATCAGTCCATCAGCTTAAACCTGAGAGACTTCTTTATCTTTTGTTGGCCCA
1 CTTCTTTATCTTTTATCAGCCCATCAGCTTAAACCTGAAAGACTTCTTTATCATTTGTTGGCCCA
183464 TCGGCTTAGACTCAGGAGA
66 TCGGCTTAGACTCAGGAGA
* * * * * * * * *
183483 TTTCTTTATCTTTTGTCTGCCCCTTAGCTTAGACCTGAAAGACTTTTTTATCATTTGTCGACCCG
1 CTTCTTTATCTTTTATCAGCCCATCAGCTTAAACCTGAAAGACTTCTTTATCATTTGTTGGCCC-
* * *
183548 AT-GACTTAGAC-CTGGGAGG
65 ATCGGCTTAGACTC-AGGAGA
* * * ** **
183567 CTT-TTTCATTTTTTATCTGCCCATCGGCTTATTCCTGGGAGACTTCTTTATC
1 CTTCTTT-ATCTTTTATCAGCCCATCAGCTTAAACCTGAAAGACTTCTTTATC
183619 TTTTATCTAT
Statistics
Matches: 107, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
83 4 0.04
84 101 0.94
85 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.41
Consensus pattern (84 bp):
CTTCTTTATCTTTTATCAGCCCATCAGCTTAAACCTGAAAGACTTCTTTATCATTTGTTGGCCCA
TCGGCTTAGACTCAGGAGA
Found at i:183494 original size:126 final size:126
Alignment explanation
Indices: 183185--183514 Score: 292
Period size: 126 Copynumber: 2.6 Consensus size: 126
183175 TCAGACCCAG
* * *
183185 GAGACTTCTTTATCTTTTGTTTGCCCATCGACTTAGACTCGAGAGATTTCTTTATCATTTATC-A
1 GAGACTTCTTTATCTTTTGTTAGCCCATCGGCTTAGACTCGAGAGATTTCTTTATCTTTTATCTA
* * ** * * * * ** * *
183249 ACTCGTCGGCTCAGGCTCAAGAGACTTTTTTATCTTTTGTCTGCTTGTCTGCTAAAGCTCGA
66 GC-CCTTAGCTTAGGCTCAAGAGACTTCTTTATCTTTTATCAGCTCATCAGCTAAACCTCGA
* * * *** * * * * * *
183311 GAGACTTCTCTATCATTTGTCAGCCTGCCAGCTCAGACTTGAAAGACTTCTTCATCTTTTATCTA
1 GAGACTTCTTTATCTTTTGTTAGCCCATCGGCTTAGACTCGAGAGATTTCTTTATCTTTTATCTA
* * *
183376 GCCTTTAGCTTAGGCTCGAGAGCCTTCTTTATCTTTTATCAG-TCCATCAGCTTAAACCT-GA
66 GCCCTTAGCTTAGGCTCAAGAGACTTCTTTATCTTTTATCAGCT-CATCAGC-TAAACCTCGA
* *
183437 GAGACTTCTTTATCTTTTGTTGGCCCATCGGCTTAGACTC-AGGAGATTTCTTTATCTTTTGTCT
1 GAGACTTCTTTATCTTTTGTTAGCCCATCGGCTTAGACTCGA-GAGATTTCTTTATCTTTTATCT
183501 -GCCCCTTAGCTTAG
65 AG-CCCTTAGCTTAG
183515 ACCTGAAAGA
Statistics
Matches: 155, Mismatches: 44, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
125 3 0.02
126 144 0.93
127 8 0.05
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (126 bp):
GAGACTTCTTTATCTTTTGTTAGCCCATCGGCTTAGACTCGAGAGATTTCTTTATCTTTTATCTA
GCCCTTAGCTTAGGCTCAAGAGACTTCTTTATCTTTTATCAGCTCATCAGCTAAACCTCGA
Found at i:183636 original size:42 final size:42
Alignment explanation
Indices: 183558--183637 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
183548 ATGACTTAGA
* * *
183558 CCTGGGAGGCTTTTTCATTTTTTATCTGCCCATCGGCTTATT
1 CCTGGGAGACTTTTTCATCTTTTATCTACCCATCGGCTTATT
* *
183600 CCTGGGAGACTTCTTT-ATCTTTTATCTATCCGTCGGCT
1 CCTGGGAGACTT-TTTCATCTTTTATCTACCCATCGGCT
183638 CAGACCCGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 29 0.91
43 3 0.09
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (42 bp):
CCTGGGAGACTTTTTCATCTTTTATCTACCCATCGGCTTATT
Done.