Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005851.1 Hibiscus syriacus cultivar Beakdansim tig00013734_pilon, whole genome shotgun sequence
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: 112027
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:12109 original size:10 final size:10
Alignment explanation
Indices: 12094--12158 Score: 78
Period size: 10 Copynumber: 6.3 Consensus size: 10
12084 ATTATGCTTG
12094 AAGAAAAAGA
1 AAGAAAAAGA
12104 AAGAAAAAGA
1 AAGAAAAAGA
*
12114 AAGAAAAAAA
1 AAGAAAAAGA
12124 AAGGAGAAAAGA
1 AA-GA-AAAAGA
12136 AA-AAGAAAGA
1 AAGAA-AAAGA
*
12146 AAGAAAAAAA
1 AAGAAAAAGA
12156 AAG
1 AAG
12159 GGGGTCAAGG
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
9 1 0.02
10 36 0.75
11 4 0.08
12 7 0.15
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:12118 original size:14 final size:14
Alignment explanation
Indices: 12099--12158 Score: 77
Period size: 14 Copynumber: 4.3 Consensus size: 14
12089 GCTTGAAGAA
12099 AAAGAAAGAAAAAG
1 AAAGAAAGAAAAAG
*
12113 AAAGAAAAAAAAAG
1 AAAGAAAGAAAAAG
*
12127 -GAGAAAAGAAAAAG
1 AAAG-AAAGAAAAAG
*
12141 AAAGAAAGAAAAAA
1 AAAGAAAGAAAAAG
12155 AAAG
1 AAAG
12159 GGGGTCAAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
13 2 0.05
14 35 0.90
15 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAAAG
Found at i:12136 original size:18 final size:17
Alignment explanation
Indices: 12111--12159 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 17
12101 AGAAAGAAAA
12111 AGAAAGAAAAAAAAAGG
1 AGAAAGAAAAAAAAAGG
*
12128 AGAAA-AGAAAAAGAA--
1 AGAAAGA-AAAAAAAAGG
12143 AGAAAGAAAAAAAAAGG
1 AGAAAGAAAAAAAAAGG
12160 GGGTCAAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
15 12 0.46
16 2 0.08
17 12 0.46
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAAAAAAAGG
Found at i:12145 original size:32 final size:32
Alignment explanation
Indices: 12098--12159 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 32
12088 TGCTTGAAGA
12098 AAAAGAAAGAAAAAGAAAGAAAAAAAAAGGAG
1 AAAAGAAAGAAAAAGAAAGAAAAAAAAAGGAG
12130 AAAAGAAA-AAGAAAGAAAGAAAAAAAAAGG
1 AAAAGAAAGAA-AAAGAAAGAAAAAAAAAGG
12160 GGGTCAAGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.07
32 27 0.93
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (32 bp):
AAAAGAAAGAAAAAGAAAGAAAAAAAAAGGAG
Found at i:12522 original size:18 final size:18
Alignment explanation
Indices: 12486--12530 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
12476 CTATTTCAAG
*
12486 TTCAATTTA--TTTGAGA
1 TTCAATTTATTTTTGAAA
12502 TTCAATTTATTTTTGAAA
1 TTCAATTTATTTTTGAAA
12520 TTCAATTTATT
1 TTCAATTTATT
12531 CTTTTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 9 0.35
18 17 0.65
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (18 bp):
TTCAATTTATTTTTGAAA
Found at i:13496 original size:50 final size:50
Alignment explanation
Indices: 13421--13662 Score: 475
Period size: 50 Copynumber: 4.8 Consensus size: 50
13411 TGAATTTACC
13421 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
13471 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
13521 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
13571 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
*
13621 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGA
13663 AGAAGTGTAT
Statistics
Matches: 191, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 191 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.39
Consensus pattern (50 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
Found at i:13509 original size:133 final size:133
Alignment explanation
Indices: 13271--13511 Score: 464
Period size: 133 Copynumber: 1.8 Consensus size: 133
13261 AAACATTAAA
13271 TGAAAGAAAAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGAC
1 TGAAAGAAAAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGAC
13336 AGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACCAATCAGTGA
66 AGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACCAATCAGTGA
13401 ATT
131 ATT
**
13404 TGAAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGAC
1 TGAAAGAAAAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGAC
13469 AGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
66 AGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
13512 ATTAGACAGA
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 106 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (133 bp):
TGAAAGAAAAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGAC
AGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACCAATCAGTGA
ATT
Found at i:14426 original size:113 final size:113
Alignment explanation
Indices: 14225--14646 Score: 708
Period size: 113 Copynumber: 3.7 Consensus size: 113
14215 TCAAATCCAC
* * * *
14225 TTGATGGATCATTCATTACCAGAT-AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAG
1 TTGATGGATCA-ACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
* * *
14289 AAGTTCATAATGAGAAGAACTTGTTCAA-CTTGTTGTTTAAATTCATCAT
65 AAGTTCATAATGAGAAGAATTTGTTCAACCTT-TTGCTTGAATTCATCAT
*
14338 TTGATGGATCAACATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 TTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
14402 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCAT
65 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCAT
14451 TTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
14516 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCAT
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCAT
14564 TTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGA
1 TTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-
14628 AAGTTCATAATGAGAAGAA
65 AAGTTCATAATGAGAAGAA
14647 CTCATCAAGA
Statistics
Matches: 296, Mismatches: 8, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
112 11 0.04
113 282 0.95
114 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (113 bp):
TTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCAT
Found at i:14906 original size:3 final size:3
Alignment explanation
Indices: 14900--14978 Score: 115
Period size: 3 Copynumber: 26.7 Consensus size: 3
14890 TTTTTATCTA
* **
14900 TAT TAT TAT TAT TAA TAT TAT TAT TAT CCT TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
14947 CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
14979 ATTTATATTA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
2 2 0.03
3 65 0.97
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:16551 original size:17 final size:18
Alignment explanation
Indices: 16526--16578 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 18
16516 GGATATTTTT
16526 AAATAAATATAATTTTGA
1 AAATAAATATAATTTTGA
* *
16544 AAAT-AATAGAATTAT-A
1 AAATAAATATAATTTTGA
* *
16560 AATTAAATATATTTTTGA
1 AAATAAATATAATTTTGA
16578 A
1 A
16579 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
16 4 0.15
17 17 0.63
18 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
AAATAAATATAATTTTGA
Found at i:25750 original size:6 final size:6
Alignment explanation
Indices: 25739--26633 Score: 1563
Period size: 6 Copynumber: 153.5 Consensus size: 6
25729 AGCTCGCCTT
25739 TATACA TATAC- -ATACA TATACA TATACA TATACA TATAC- -ATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
25783 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
* *
25831 TATATA CATAC- -ATACA TATACA TATACA TATAC- -ATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
25875 TATACA TA-ACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
25922 TATAC- -ATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
25968 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATAC-
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
26015 -ATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
26062 TATAC- -ATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
26108 TAT--A TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
26154 TATACA TATAC- -ATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
* * *
26200 TATACA TATATA TACATA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
26248 TA-ACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
26295 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
26343 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
26391 TATACA TATAC- -ATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
26437 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
26485 TATACA TAT--A TATACA TATAC- -ATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
26529 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
26577 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
26625 TATACA TAT
1 TATACA TAT
26634 TCATTGGTTT
Statistics
Matches: 856, Mismatches: 7, Indels: 52
0.94 0.01 0.06
Matches are distributed among these distances:
4 48 0.06
5 10 0.01
6 798 0.93
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
TATACA
Found at i:28415 original size:35 final size:35
Alignment explanation
Indices: 28328--28417 Score: 135
Period size: 35 Copynumber: 2.5 Consensus size: 35
28318 TTCAGCTTTC
*
28328 TCAAGCTGGTAATTCCTCATATAGGTTCAACACCGA
1 TCAA-CTGGTAATTCCTTATATAGGTTCAACACCGA
** *
28364 TCAGTTGGTAATTCCTTATATAGGTTCAACATCGA
1 TCAACTGGTAATTCCTTATATAGGTTCAACACCGA
28399 TCAACTGGTAATTCCTTAT
1 TCAACTGGTAATTCCTTAT
28418 GGATCTAAGG
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 45 0.94
36 3 0.06
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (35 bp):
TCAACTGGTAATTCCTTATATAGGTTCAACACCGA
Found at i:30815 original size:19 final size:19
Alignment explanation
Indices: 30779--30834 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
30769 ACGAACTGGT
* *
30779 CTGAACCGTTAACCTTGA-
1 CTGAACCGTTGACTTTGAC
30797 CTCGAACCGTTGACTTTGAC
1 CT-GAACCGTTGACTTTGAC
30817 CTG-ACCGTTGACTGTTGA
1 CTGAACCGTTGACT-TTGA
30835 TCAGACCCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 12 0.36
19 19 0.58
20 2 0.06
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (19 bp):
CTGAACCGTTGACTTTGAC
Found at i:30841 original size:19 final size:18
Alignment explanation
Indices: 30802--30855 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
30792 CTTGACTCGA
*
30802 ACCGTTGACTTTGACCTG
1 ACCGTTGACTTTGACCAG
*
30820 ACCGTTGACTGTTGATCAG
1 ACCGTTGACT-TTGACCAG
* *
30839 ACCCATTAACTTTGACC
1 A-CCGTTGACTTTGACC
30856 TTTGACCAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 10 0.34
19 12 0.41
20 7 0.24
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (18 bp):
ACCGTTGACTTTGACCAG
Found at i:32227 original size:21 final size:21
Alignment explanation
Indices: 32185--32227 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
32175 TTTCTGGGCT
* *
32185 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
32206 AGGGGAATCGATCCCCCCTCA
1 AGGGGAATCGATACCCACTCA
32227 A
1 A
32228 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:32280 original size:20 final size:20
Alignment explanation
Indices: 32255--32292 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32245 GAATGCTAGA
*
32255 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
32275 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
32293 TAATGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:33158 original size:4 final size:4
Alignment explanation
Indices: 33149--33181 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
33139 AAATGATGAC
*
33149 ATGT ATGT ATGT ATGT ATGT ATGT ATAT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
33182 AGGGTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:33394 original size:31 final size:31
Alignment explanation
Indices: 33356--33429 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
33346 GTCAAAGAAC
**
33356 TACCTATG-TCTTTCGAGACATATGGATAGTA
1 TACCTATGTTCTAACGA-ACATATGGATAGTA
* *
33387 TACCTATGTTCTAAGGAACATATGGATAGTT
1 TACCTATGTTCTAACGAACATATGGATAGTA
*
33418 TACCTAGGTTCT
1 TACCTATGTTCT
33430 TCGGGACCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 32 0.86
32 5 0.14
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (31 bp):
TACCTATGTTCTAACGAACATATGGATAGTA
Found at i:33442 original size:31 final size:31
Alignment explanation
Indices: 33367--33448 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
33357 ACCTATGTCT
* * *
33367 TTCGAGACATATGGATAGTATACCTATGTTC
1 TTCGGGACATATGGATAGTTTACCTAGGTTC
** *
33398 TAAGGAACATATGGATAGTTTACCTAGGTTC
1 TTCGGGACATATGGATAGTTTACCTAGGTTC
* *
33429 TTCGGGACCTATGGACAGTT
1 TTCGGGACATATGGATAGTT
33449 ACCGAGGATC
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (31 bp):
TTCGGGACATATGGATAGTTTACCTAGGTTC
Found at i:33468 original size:30 final size:30
Alignment explanation
Indices: 33434--33566 Score: 239
Period size: 30 Copynumber: 4.4 Consensus size: 30
33424 GGTTCTTCGG
* *
33434 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
33464 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
33494 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
33524 GACCTCTGGATAGTTACCGAAGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
33554 GACCTCTGGATAG
1 GACCTCTGGATAG
33567 GTCCTTCGGA
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 100 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:49516 original size:37 final size:34
Alignment explanation
Indices: 49442--49519 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 34
49432 ATAAAATTTT
* * *
49442 AATTATTAAAATTTAAAAATTATCATTATTTTCA
1 AATTATTAAAAATTAAAAATTATAATTATTTTAA
49476 AATTATTATAAAATTAATAAATT-TAATTATCATTTAA
1 AATTATTA-AAAATTAA-AAATTATAATTAT--TTTAA
49513 AATTATT
1 AATTATT
49520 TGAAAGTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 8 0.22
35 13 0.35
36 5 0.14
37 11 0.30
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (34 bp):
AATTATTAAAAATTAAAAATTATAATTATTTTAA
Found at i:49550 original size:20 final size:19
Alignment explanation
Indices: 49508--49555 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
49498 TTAATTATCA
* **
49508 TTTAAAATTATTTGAAAGT
1 TTTAAAATTATTTAAAAAC
49527 TTTAATAATTATTTAAAAAC
1 TTTAA-AATTATTTAAAAAC
49547 TTTAAAATT
1 TTTAAAATT
49556 TCAATAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (19 bp):
TTTAAAATTATTTAAAAAC
Found at i:49741 original size:29 final size:29
Alignment explanation
Indices: 49697--49810 Score: 183
Period size: 29 Copynumber: 3.9 Consensus size: 29
49687 GTGTTGGCCG
* *
49697 TAGGTCGCCATGCACTCCGAGCGACCTTG
1 TAGGTCGCCATGCACTCCGGGCGACCTTA
*
49726 TAGGTCGCCATACACTCCGGGCGACCTTA
1 TAGGTCGCCATGCACTCCGGGCGACCTTA
*
49755 TAGGTCGTCATGCACTCCGGGCGACCTTA
1 TAGGTCGCCATGCACTCCGGGCGACCTTA
*
49784 TAGGTCGTCATGCACTCCGGGCGACCT
1 TAGGTCGCCATGCACTCCGGGCGACCT
49811 ACCCTTGAGA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 80 1.00
ACGTcount: A:0.18, C:0.33, G:0.27, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCGGGCGACCTTA
Found at i:49900 original size:33 final size:33
Alignment explanation
Indices: 49862--49933 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
49852 CCTACCCTCG
* *
49862 CTCGGATTCCCTCGCATAGCTCACTCGGTTGCC
1 CTCGGATGCCCTCGCATAGCTCACTCGGATGCC
* *
49895 CTCGGATGCCCTCGCATAGCTCATTCGGATGGC
1 CTCGGATGCCCTCGCATAGCTCACTCGGATGCC
49928 CTCGGA
1 CTCGGA
49934 CGAATGGCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.14, C:0.36, G:0.25, T:0.25
Consensus pattern (33 bp):
CTCGGATGCCCTCGCATAGCTCACTCGGATGCC
Found at i:49904 original size:10 final size:10
Alignment explanation
Indices: 49862--50006 Score: 65
Period size: 10 Copynumber: 13.1 Consensus size: 10
49852 CCTACCCTCG
*
49862 CTCGGATTCC
1 CTCGGATGCC
*
49872 CTCGCATAGCTC
1 CTCGGAT-GC-C
*
49884 ACTCGGTTGCC
1 -CTCGGATGCC
49895 CTCGGATGCC
1 CTCGGATGCC
*
49905 CTCGCATAGCTC
1 CTCGGAT-GC-C
* *
49917 ATTCGGATGGC
1 -CTCGGATGCC
*
49928 CTCGGACGAATGGC
1 CTC-G--G-ATGCC
*
49942 CTCGGATGCT
1 CTCGGATGCC
*
49952 CTCGGATGGC
1 CTCGGATGCC
*
49962 CTCGGATGCT
1 CTCGGATGCC
49972 CTCGGATGGCC
1 CTCGGAT-GCC
*
49983 TCGGTCGGATGGC
1 -C--TCGGATGCC
49996 CTCGGATGCC
1 CTCGGATGCC
50006 C
1 C
50007 AGCGTGTTGG
Statistics
Matches: 102, Mismatches: 19, Indels: 28
0.68 0.13 0.19
Matches are distributed among these distances:
10 58 0.57
11 9 0.09
12 7 0.07
13 14 0.14
14 14 0.14
ACGTcount: A:0.12, C:0.34, G:0.30, T:0.23
Consensus pattern (10 bp):
CTCGGATGCC
Found at i:49962 original size:20 final size:20
Alignment explanation
Indices: 49937--49986 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
49927 CCTCGGACGA
49937 ATGGCCTCGGATGCTCTCGG
1 ATGGCCTCGGATGCTCTCGG
49957 ATGGCCTCGGATGCTCTCGG
1 ATGGCCTCGGATGCTCTCGG
49977 ATGGCCTCGG
1 ATGGCCTCGG
49987 TCGGATGGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.10, C:0.30, G:0.36, T:0.24
Consensus pattern (20 bp):
ATGGCCTCGGATGCTCTCGG
Found at i:49992 original size:14 final size:14
Alignment explanation
Indices: 49973--50000 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
49963 TCGGATGCTC
49973 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
49987 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
50001 ATGCCCAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.43, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:51855 original size:15 final size:15
Alignment explanation
Indices: 51835--51864 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
51825 TACCGACACG
51835 TTTTCGATAATGGTA
1 TTTTCGATAATGGTA
51850 TTTTCGATAATGGTA
1 TTTTCGATAATGGTA
51865 CAGGCACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (15 bp):
TTTTCGATAATGGTA
Found at i:53704 original size:60 final size:60
Alignment explanation
Indices: 53577--53704 Score: 136
Period size: 60 Copynumber: 2.1 Consensus size: 60
53567 AAATGGTCCT
* *
53577 TCGACTATAAGATATTATTTTATTAAGTCACTTGACTATTAAAAATTATAAAATAGTCCC
1 TCGACTATAAGATATTATTTTATTAAGTCACTTGACTATTAAAAATTACAAAATAGTCAC
** * * * *
53637 TTAACTATAGGGA-ATTATTTTGTTGAGTC-CTTTGACTATTAAAAGTTACAAAAT-GATCAC
1 TCGACTATA-AGATATTATTTTATTAAGTCAC-TTGACTATTAAAAATTACAAAATAG-TCAC
53697 TCGACTAT
1 TCGACTAT
53705 TCATTATTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
59 2 0.04
60 51 0.93
61 2 0.04
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (60 bp):
TCGACTATAAGATATTATTTTATTAAGTCACTTGACTATTAAAAATTACAAAATAGTCAC
Found at i:57716 original size:17 final size:18
Alignment explanation
Indices: 57678--57716 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
57668 ATAATACATA
57678 AAAATATATAATTTTAAT
1 AAAATATATAATTTTAAT
* *
57696 AAAATATTTTATTTT-AT
1 AAAATATATAATTTTAAT
57713 AAAA
1 AAAA
57717 AATAAGCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAATATATAATTTTAAT
Found at i:58434 original size:136 final size:135
Alignment explanation
Indices: 58231--58583 Score: 365
Period size: 137 Copynumber: 2.6 Consensus size: 135
58221 AGCTTAAAGG
* * * * *
58231 ATTAAACCTAAAATGAAGTGTCTAATATTAAAACCTAACTAATTTTAACAACTTATTGGATCAAA
1 ATTAAACCTAAAATGAAG-GTCTAATATT-AATCATAACCAATTTTAGCAAATTATTGG-TCAAA
* * * * *
58296 TAATTAAAATGAAACATTAGGC-AAAT-ACGAGGACTAAATCAAAAATTCTTCTCATTTAAGGAG
63 TAATTAAAATGAAACATTAGGCAAAATGA-GAGGACCAAATAAAAAATTCTCCTAATTTAAGGAC
*
58359 TAAAGTGAA
127 TAAAATGAA
* * * *
58368 ATTAAACCTAAAACGGAGGCTCTAATATTAATCATAACCAATTTTAGCAATTTATTGGTTCGAAT
1 ATTAAACCTAAAATGAAGG-TCTAATATTAATCATAACCAATTTTAGCAAATTATTGG-TCAAAT
* *
58433 AACTAAAAT-AGAACCTTAGGCATAAATGAGAGGACCAAATAAAAAATTCTCCTAATTTAAGGAC
64 AATTAAAATGA-AACATTAGGCA-AAATGAGAGGACCAAATAAAAAATTCTCCTAATTTAAGGAC
58497 TAAAATGAA
127 TAAAATGAA
** * * *
58506 ATT-AATGT-AAATGAAAGGTCTAATTGTTAATCATAATCAATTTAAGCAAATTATTGAGTCAAA
1 ATTAAACCTAAAATG-AAGGTCTAA-TATTAATCATAACCAATTTTAGCAAATTATTG-GTCAAA
*
58569 TAATCAAAATGAAAC
63 TAATTAAAATGAAAC
58584 CTCAAGCATA
Statistics
Matches: 179, Mismatches: 28, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
135 1 0.01
136 56 0.31
137 74 0.41
138 47 0.26
139 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (135 bp):
ATTAAACCTAAAATGAAGGTCTAATATTAATCATAACCAATTTTAGCAAATTATTGGTCAAATAA
TTAAAATGAAACATTAGGCAAAATGAGAGGACCAAATAAAAAATTCTCCTAATTTAAGGACTAAA
ATGAA
Found at i:58509 original size:138 final size:137
Alignment explanation
Indices: 58231--58510 Score: 334
Period size: 136 Copynumber: 2.0 Consensus size: 137
58221 AGCTTAAAGG
* * *
58231 ATTAAACCTAAAATGAAGTGTCTAATATTAAAACCTAACTAATTTTAACAACTTATTGGATCAAA
1 ATTAAACCTAAAACGAAGTGTCTAATATTAAAACATAACCAATTTTAACAACTTATTGGATCAAA
* * * * * *
58296 TAATTAAAATGAAACATTAGGCAAATACGAGGACTAAATCAAAAATTCTTCTCATTTAAGGAGTA
66 TAACTAAAATGAAACATTAGGCAAATACGAGGACCAAATAAAAAATTCTCCTAATTTAAGGACTA
*
58361 AAGTGAA
131 AAATGAA
* * * * * *
58368 ATTAAACCTAAAACGGAG-GCTCTAATATT-AATCATAACCAATTTTAGCAATTTATTGGTTCGA
1 ATTAAACCTAAAACGAAGTG-TCTAATATTAAAACATAACCAATTTTAACAACTTATTGGATCAA
*
58431 ATAACTAAAAT-AGAACCTTAGGCATAAATGA-GAGGACCAAATAAAAAATTCTCCTAATTTAAG
65 ATAACTAAAATGA-AACATTAGGC--AAAT-ACGAGGACCAAATAAAAAATTCTCCTAATTTAAG
58494 GACTAAAATGAA
126 GACTAAAATGAA
58506 ATTAA
1 ATTAA
58511 TGTAAATGAA
Statistics
Matches: 121, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
135 1 0.01
136 47 0.39
137 25 0.21
138 47 0.39
139 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (137 bp):
ATTAAACCTAAAACGAAGTGTCTAATATTAAAACATAACCAATTTTAACAACTTATTGGATCAAA
TAACTAAAATGAAACATTAGGCAAATACGAGGACCAAATAAAAAATTCTCCTAATTTAAGGACTA
AAATGAA
Found at i:60133 original size:23 final size:23
Alignment explanation
Indices: 60107--60151 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
60097 CACCACAGCT
*
60107 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
60130 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
60152 ATATAATAAT
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:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:60372 original size:149 final size:149
Alignment explanation
Indices: 60127--60433 Score: 526
Period size: 149 Copynumber: 2.1 Consensus size: 149
60117 CACCGAAGTG
60127 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAG
* ** *
60192 AATCATATACATATGCTAATGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCACAGAAT
66 AATCATATACATATGCTAAGGATCAAGTATGTGTCTCACAAGACTTCACACATGTTCCAAAGAAT
60257 ATATATATATCCCGAAGAA
131 ATATATATATCCCGAAGAA
*
60276 CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAG
* *
60341 AATCATATACATATGCTAGGGATCATA-TATGTGTCTCACCAGACTTCACACATGTTCCAAAGAA
66 AATCATATACATATGCTAAGGATCA-AGTATGTGTCTCACAAGACTTCACACATGTTCCAAAGAA
*
60405 TATATATATATCCCGAAGGA
130 TATATATATATCCCGAAGAA
60425 CCGCGTAGA
1 CCGCGTAGA
60434 CCCTCGACTC
Statistics
Matches: 149, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
149 148 0.99
150 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.27
Consensus pattern (149 bp):
CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAG
AATCATATACATATGCTAAGGATCAAGTATGTGTCTCACAAGACTTCACACATGTTCCAAAGAAT
ATATATATATCCCGAAGAA
Found at i:61070 original size:2 final size:2
Alignment explanation
Indices: 61063--61105 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
61053 ATTTCATGTC
61063 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61105 T
1 T
61106 CCTCAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:61970 original size:64 final size:63
Alignment explanation
Indices: 61872--62032 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 63
61862 TAATGAAGGT
* *
61872 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAT--
*
61935 GG
62 GC
*
61937 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
* *
62001 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
62033 CCTTAAACAA
Statistics
Matches: 86, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
63 1 0.01
64 58 0.67
65 24 0.28
66 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
Found at i:65379 original size:23 final size:23
Alignment explanation
Indices: 65353--65397 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
65343 CACCACAGCT
*
65353 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
65376 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
65398 ATATAATAAT
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:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:66285 original size:2 final size:2
Alignment explanation
Indices: 66278--66321 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
66268 ATTATTTCTT
66278 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
66320 TA
1 TA
66322 ATCTAATTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:67070 original size:64 final size:63
Alignment explanation
Indices: 66972--67132 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 63
66962 TAATGAAGGT
* *
66972 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAT--
*
67035 GG
62 GC
*
67037 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
* *
67101 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
67133 CCTTAAACAA
Statistics
Matches: 86, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
63 1 0.01
64 58 0.67
65 24 0.28
66 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
Found at i:70888 original size:30 final size:30
Alignment explanation
Indices: 70852--71025 Score: 181
Period size: 30 Copynumber: 5.5 Consensus size: 30
70842 TAATAAGGTT
70852 ATTTATTTTAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
70882 ATTTATTTTAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
*
70912 ATTTATTATAAAATAATTTACTT-TAAAATA
1 ATTTATTTTAAAATAATTTA-TTATAAAATA
* * *
70942 AATTATTATAAAATATGGATTGATTTATTTTAAAATA
1 ATTTATT-TTAAA-AT--A---ATTTATTATAAAATA
* *
70979 ATTTATTTT-AAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAAATAATTTATTA-TA--AAATA
71011 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
71026 TGGATTGATT
Statistics
Matches: 122, Mismatches: 9, Indels: 23
0.79 0.06 0.15
Matches are distributed among these distances:
29 7 0.06
30 64 0.52
31 5 0.04
32 15 0.12
33 5 0.04
34 3 0.02
35 2 0.02
36 3 0.02
37 18 0.15
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (30 bp):
ATTTATTTTAAAATAATTTATTATAAAATA
Found at i:70909 original size:45 final size:45
Alignment explanation
Indices: 70852--71000 Score: 192
Period size: 45 Copynumber: 3.2 Consensus size: 45
70842 TAATAAGGTT
*
70852 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATA
1 ATTTATTATAAAATAATTTATTATAAAATAATTTATTTTAAAATA
*
70897 ATTTATTATAAAATAATTTATTATAAAATAATTTACTTTAAAATA
1 ATTTATTATAAAATAATTTATTATAAAATAATTTATTTTAAAATA
* *
70942 AATTATTATAAAATATGGATTGATTTATTTTAAAATAATTTATTTT-AAATA
1 ATTTATTAT-AAA-AT--A---ATTTATTATAAAATAATTTATTTTAAAATA
70993 ATTTATTA
1 ATTTATTA
71001 GTATGAATTG
Statistics
Matches: 91, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
45 51 0.56
46 3 0.03
47 2 0.02
49 1 0.01
51 12 0.13
52 22 0.24
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (45 bp):
ATTTATTATAAAATAATTTATTATAAAATAATTTATTTTAAAATA
Found at i:70993 original size:14 final size:15
Alignment explanation
Indices: 70852--70999 Score: 172
Period size: 15 Copynumber: 9.5 Consensus size: 15
70842 TAATAAGGTT
70852 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
70867 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
70882 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
70897 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
70912 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
70927 ATTTACTTTAAAATA
1 ATTTATTTTAAAATA
* *
70942 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
70961 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
70979 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
70993 ATTTATT
1 ATTTATT
71000 AGTATGAATT
Statistics
Matches: 116, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
14 12 0.10
15 84 0.72
16 4 0.03
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.03
22 6 0.05
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:71018 original size:22 final size:22
Alignment explanation
Indices: 71002--71044 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
70992 AATTTATTAG
71002 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
71024 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
71045 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:71018 original size:32 final size:32
Alignment explanation
Indices: 70979--71108 Score: 181
Period size: 32 Copynumber: 4.4 Consensus size: 32
70969 TTTTAAAATA
*
70979 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
71011 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
71033 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
71065 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
71097 ATTTATTTTAAA
1 ATTTATTTTAAA
71109 ATATGGATTG
Statistics
Matches: 87, Mismatches: 1, Indels: 20
0.81 0.01 0.19
Matches are distributed among these distances:
22 13 0.15
23 4 0.05
25 1 0.01
26 3 0.03
28 3 0.03
29 1 0.01
31 4 0.05
32 58 0.67
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:71034 original size:69 final size:67
Alignment explanation
Indices: 70897--71054 Score: 205
Period size: 69 Copynumber: 2.3 Consensus size: 67
70887 TTTTAAAATA
*
70897 ATTTATTATAAAATAATTTATTATAAAATAATTTACTTTAAAATAAATTATTATAAAATATGGAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTACTTTAAAATAAATTATTATAAAATATGGAT
70962 TG
66 TG
* * * * *
70964 ATTTATTTTAAAATAATTTATT-TTAAATAATTTA-TTAGTATGAATTGATTTATTTTAAAATAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTACTT--TA--AAATAAATTATTATAAAATAT
71027 GGATTG
62 GGATTG
71033 ATTTATTTT-AAATAATTTATTA
1 ATTTATTTTAAAATAATTTATTA
71055 GTATGGATTG
Statistics
Matches: 80, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
65 2 0.03
66 11 0.14
67 23 0.29
68 12 0.15
69 32 0.40
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.50
Consensus pattern (67 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTACTTTAAAATAAATTATTATAAAATATGGAT
TG
Found at i:71044 original size:54 final size:54
Alignment explanation
Indices: 70979--71830 Score: 541
Period size: 54 Copynumber: 16.1 Consensus size: 54
70969 TTTTAAAATA
*
70979 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
**
71033 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * *** * *
71088 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTATTGTATTTGTATGGGTTT
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
**
71145 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATATATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
71199 ATTTATTTTAAATAATTTAGTAGTATGGA-TGATTTATTTCAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
71252 ATTTA-TTTAAATAATTTATTAGTATGGATTGATTTA-TTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
71304 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * *
71348 A-TTAGTATCAATTGATTTATTTTAAAATATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTA-TTTTAAATAATTTA--TT--AGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * *
71402 ATTAATATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTATTTTAAAATATGGATTG
* *
71460 ATTTA--TT---T-ATTTATTTGTATGGATTGATTT-TTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * ** * * * *
71503 ATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT---GTATGGATTG
1 ATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTATTTTAAAATATGGATTG
71557 ATTTATTTT-AA-AA--TA-T-G--T--ATTGATTTATTTTAAAATTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA---TATGGATTG
71604 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
71658 ATTTATTTTAAATAA-TTATTAGTATGGA-TGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* ** * * * ***
71706 ATTTTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
1 A-TTTA-TTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
71770 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
71824 ATTTATT
1 ATTTATT
71831 ATTGTAGTTG
Statistics
Matches: 635, Mismatches: 87, Indels: 152
0.73 0.10 0.17
Matches are distributed among these distances:
40 9 0.01
41 3 0.00
42 1 0.00
43 10 0.02
44 4 0.01
45 1 0.00
46 6 0.01
47 46 0.07
48 26 0.04
49 13 0.02
50 12 0.02
51 18 0.03
52 60 0.09
53 71 0.11
54 209 0.33
55 30 0.05
56 20 0.03
57 30 0.05
58 43 0.07
59 2 0.00
60 2 0.00
61 2 0.00
62 9 0.01
63 4 0.01
64 4 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:71177 original size:80 final size:82
Alignment explanation
Indices: 70979--71444 Score: 344
Period size: 86 Copynumber: 5.7 Consensus size: 82
70969 TTTTAAAATA
*
70979 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT-A
*
71044 ATAATTTATTAGTATGGATTG
63 AT-ATGTATTAGTATGGATTG
71065 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT-AT-
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTAATA
* * *
71128 TGTATTTGTATGGGTTT
66 TGTATTAGTATGGATTG
**
71145 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATATATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT-A
* *
71210 ATAATTTAGTAGTATGGA-TG
63 AT-ATGTATTAGTATGGATTG
* ** ** * ** * * *
71230 ATTTATTTCAAA-ATATGGATT-G-ATTTATTTAAATAATTTATTAGTATGGATTGATTTATT--
1 ATTTATTTTAAATA-ATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTGATTTATTAA
*
71290 TA---A--AATATGGATTG
64 TATGTATTAGTATGGATTG
* ** **
71304 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATAATTTATTAGTATCAATT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G-ATTTATT
* * * * *
71361 GATTTATTTTAAAATATGGATTG
62 AATATGTATT--AGTATGGATTG
* *
71384 ATTTATTTTAAATAATTTATTAATATGAATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
71445 TTAAAATATG
Statistics
Matches: 299, Mismatches: 49, Indels: 66
0.72 0.12 0.16
Matches are distributed among these distances:
68 5 0.02
69 8 0.03
70 13 0.04
71 5 0.02
72 1 0.00
73 8 0.03
74 7 0.02
75 1 0.00
78 1 0.00
79 1 0.00
80 86 0.29
82 8 0.03
83 12 0.04
84 26 0.09
85 20 0.07
86 93 0.31
87 4 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (82 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTAATA
TGTATTAGTATGGATTG
Found at i:71232 original size:31 final size:29
Alignment explanation
Indices: 71197--71293 Score: 91
Period size: 31 Copynumber: 3.4 Consensus size: 29
71187 AAATATATAT
71197 TGATTTATTTTAAATAATTTAGTAGTATGGA
1 TGATTTA-TTTAAATAATTTA-TAGTATGGA
* *
71228 TGATTTATTTCAA-AA--TAT-GGAT---
1 TGATTTATTTAAATAATTTATAGTATGGA
71250 TGATTTATTTAAATAATTTATTAGTATGGA
1 TGATTTATTTAAATAATTTA-TAGTATGGA
71280 TTGATTTATTTAAA
1 -TGATTTATTTAAA
71294 ATATGGATTG
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
22 12 0.23
23 2 0.04
25 5 0.09
26 2 0.04
27 5 0.09
29 2 0.04
30 5 0.09
31 20 0.38
ACGTcount: A:0.36, C:0.01, G:0.13, T:0.49
Consensus pattern (29 bp):
TGATTTATTTAAATAATTTATAGTATGGA
Found at i:71324 original size:185 final size:186
Alignment explanation
Indices: 71056--71590 Score: 695
Period size: 185 Copynumber: 2.8 Consensus size: 186
71046 AATTTATTAG
71056 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTA-TTTAAATAATTTATTAGTATGGATTGATTTA-TTTAAAATATGGATTGAT
* *
71121 TTATTATTGTATTTGTATGGGTTTATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
64 TTATTATTGTATTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
* * *
71186 AAAATATATATTGATTTATTTTAAATAATTTAGTAGTATGGA-TGATTTATTTCAAAA
129 AAAATATGTATTGATTTATTTTAAATAATTTAGTAATATGAATTGATTTATTTCAAAA
71243 TATGGATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTAAAATATGGATTGATTT
1 TATGGATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTAAAATATGGATTGATTT
* **
71308 ATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATCAATTGATTTATTTTAA
66 ATTATTGTATTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
* * *
71373 AATATGGATTGATTTATTTTAAATAATTTATTAATATGAATTGATTTATTTTAAAA
131 AATATGTATTGATTTATTTTAAATAATTTAGTAATATGAATTGATTTATTTCAAAA
* * * * ***
71429 TATGGATTGATTTATTTTAA-AA--TA-T-GGATTGATTTATTTATTTATTTGTATGGATTGATT
1 TATGGATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTA-AAATATGGATTGA-T
* * *
71489 TTTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTGTATGGA
64 TTATT--AT--TGTATTTGTATGGATTGATTTATTTT--AA-AT--A---ATTTATTAGTATGGA
71554 TTGATTTATTTTAAAATATGTATTGATTTATTTTAAA
117 TTGATTTATTTTAAAATATGTATTGATTTATTTTAAA
71591 ATTGTATGGA
Statistics
Matches: 308, Mismatches: 25, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
181 16 0.05
182 11 0.04
183 7 0.02
185 119 0.39
186 64 0.21
187 38 0.12
189 2 0.01
190 2 0.01
192 1 0.00
195 48 0.16
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (186 bp):
TATGGATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTAAAATATGGATTGATTT
ATTATTGTATTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
AATATGTATTGATTTATTTTAAATAATTTAGTAATATGAATTGATTTATTTCAAAA
Found at i:71367 original size:32 final size:31
Alignment explanation
Indices: 71326--71427 Score: 105
Period size: 32 Copynumber: 3.5 Consensus size: 31
71316 AGTTGTATGG
71326 ATTGATTTATTTTAAATAATTTATTAGTATCA
1 ATTGATTTATTTTAAATAATTTATTAGTAT-A
*
71358 ATTGATTTATTTT-AA-AA--TA-T-G---G
1 ATTGATTTATTTTAAATAATTTATTAGTATA
*
71380 ATTGATTTATTTTAAATAATTTATTAATATGA
1 ATTGATTTATTTTAAATAATTTATTAGTAT-A
71412 ATTGATTTATTTTAAA
1 ATTGATTTATTTTAAA
71428 ATATGGATTG
Statistics
Matches: 57, Mismatches: 3, Indels: 20
0.71 0.04 0.25
Matches are distributed among these distances:
22 13 0.23
23 2 0.04
24 2 0.04
26 3 0.05
27 2 0.04
28 2 0.04
30 2 0.04
31 2 0.04
32 29 0.51
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.53
Consensus pattern (31 bp):
ATTGATTTATTTTAAATAATTTATTAGTATA
Found at i:71430 original size:22 final size:22
Alignment explanation
Indices: 71405--71615 Score: 153
Period size: 22 Copynumber: 9.0 Consensus size: 22
71395 ATAATTTATT
*
71405 AATATGAATTGATTTATTTTAA
1 AATATGGATTGATTTATTTTAA
71427 AATATGGATTGATTTATTTTAA
1 AATATGGATTGATTTATTTTAA
*
71449 AATATGGATTGATTTATTTATTTATT
1 AATATGGATTGATTTA--T-TTTA-A
**
71475 TGTATGGATTGATTT-TTTTAAA
1 AATATGGATTGATTTATTTT-AA
* * *
71497 TAATTTATTTGTATGGATTGATTTATTTTAA
1 -AA--TA--TGGATTGATTTA-TT---TTAA
71528 AATATGGATTGATTTA-TTT--
1 AATATGGATTGATTTATTTTAA
*
71547 -GTATGGATTGATTTATTTTAA
1 AATATGGATTGATTTATTTTAA
*
71568 AATATGTATTGATTTATTTTAA
1 AATATGGATTGATTTATTTTAA
71590 AATTGTATGGATTGATTTATTTTAA
1 AA---TATGGATTGATTTATTTTAA
71615 A
1 A
71616 TAATTTATTA
Statistics
Matches: 150, Mismatches: 17, Indels: 41
0.72 0.08 0.20
Matches are distributed among these distances:
18 14 0.09
19 3 0.02
21 2 0.01
22 61 0.41
23 2 0.01
24 2 0.01
25 26 0.17
26 22 0.15
27 8 0.05
28 2 0.01
29 2 0.01
30 2 0.01
31 2 0.01
32 2 0.01
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.54
Consensus pattern (22 bp):
AATATGGATTGATTTATTTTAA
Found at i:71506 original size:31 final size:32
Alignment explanation
Indices: 71468--71568 Score: 123
Period size: 40 Copynumber: 2.9 Consensus size: 32
71458 TGATTTATTT
71468 ATTTATTTGTATGGATTGATTT-TTTTAAATA
1 ATTTATTTGTATGGATTGATTTATTTTAAATA
71499 ATTTATTTGTATGGATTGATTTATTTTAAAATATGGA
1 ATTTATTTGTATGGATTGATTTATTTT--AA-AT--A
71536 TTGATTTATTTGTATGGATTGATTTATTTTAAA
1 ---ATTTATTTGTATGGATTGATTTATTTTAAA
71569 ATATGTATTG
Statistics
Matches: 61, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
31 22 0.36
32 4 0.07
34 2 0.03
35 2 0.03
37 2 0.03
38 2 0.03
40 27 0.44
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (32 bp):
ATTTATTTGTATGGATTGATTTATTTTAAATA
Found at i:71522 original size:18 final size:18
Alignment explanation
Indices: 71468--71564 Score: 96
Period size: 18 Copynumber: 5.4 Consensus size: 18
71458 TGATTTATTT
71468 ATTTATTTGTATGGATTG
1 ATTTATTTGTATGGATTG
* *
71486 ATTT-TTT-TA---AATA
1 ATTTATTTGTATGGATTG
71499 ATTTATTTGTATGGATTG
1 ATTTATTTGTATGGATTG
*
71517 ATTTATTTTAAAATATGGATTG
1 ATTTA-TTT---GTATGGATTG
71539 ATTTATTTGTATGGATTG
1 ATTTATTTGTATGGATTG
71557 ATTTATTT
1 ATTTATTT
71565 TAAAATATGT
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
13 6 0.09
14 3 0.05
15 2 0.03
16 2 0.03
17 3 0.05
18 28 0.44
19 3 0.05
21 3 0.05
22 14 0.22
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (18 bp):
ATTTATTTGTATGGATTG
Found at i:71565 original size:119 final size:119
Alignment explanation
Indices: 71429--71665 Score: 413
Period size: 119 Copynumber: 2.0 Consensus size: 119
71419 TATTTTAAAA
** *
71429 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTATTTATTTGTATGGATTGATTT-TTT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTT-TAAAATTGTATGGATTGATTTATTT
*
71493 TAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTG
65 TAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTG
*
71548 TATGGATTGATTTATTTTAAAATATGTATTGATTTATTTTAAAATTGTATGGATTGATTTATTTT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATTGTATGGATTGATTTATTTT
71613 AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTT
66 AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTT
71666 TAAATAATTA
Statistics
Matches: 112, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
118 18 0.16
119 94 0.84
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.54
Consensus pattern (119 bp):
TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATTGTATGGATTGATTTATTTT
AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTG
Found at i:71652 original size:22 final size:22
Alignment explanation
Indices: 71627--71669 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
71617 AATTTATTAG
71627 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
71649 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
71670 TAATTATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:71692 original size:30 final size:33
Alignment explanation
Indices: 71649--71893 Score: 176
Period size: 32 Copynumber: 6.6 Consensus size: 33
71639 TATTTTAAAA
71649 TATGGATTGATTTATTTTAAATAA-TTA-TTAG
1 TATGGATTGATTTATTTTAAATAATTTATTTAG
71680 TATGGA-TGATTTATTTTAAATAATTTATTTTAG
1 TATGGATTGATTTATTTTAAATAATTTA-TTTAG
71713 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTTT--AA-AT--A---A--T-TTATT-TA---G
71761 TATGGATTGATTTATTTTAAATAATTTA-TTAG
1 TATGGATTGATTTATTTTAAATAATTTATTTAG
71793 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTTT--AA-AT--A---A--T-TTATT-TA---G
71841 TATGGATTGATTTATTTTAAATAATTTA-TTAG
1 TATGGATTGATTTATTTTAAATAATTTATTTAG
71873 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
71894 ATATCGATTG
Statistics
Matches: 179, Mismatches: 0, Indels: 69
0.72 0.00 0.28
Matches are distributed among these distances:
30 17 0.09
31 9 0.05
32 41 0.23
33 10 0.06
34 13 0.07
35 6 0.03
36 4 0.02
37 9 0.05
38 2 0.01
39 1 0.01
40 3 0.02
42 2 0.01
43 5 0.03
44 4 0.02
45 11 0.06
46 4 0.02
48 38 0.21
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (33 bp):
TATGGATTGATTTATTTTAAATAATTTATTTAG
Found at i:71807 original size:18 final size:18
Alignment explanation
Indices: 71784--71831 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
71774 ATTTTAAATA
*
71784 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
71802 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
71824 ATTTATTA
1 ATTTATTA
71832 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:71813 original size:80 final size:80
Alignment explanation
Indices: 71539--71910 Score: 572
Period size: 80 Copynumber: 4.6 Consensus size: 80
71529 ATATGGATTG
* * ** *
71539 ATTTATTTGTATGGATTGATTTATTTTAAAATATGTATTGATTTATT-TTAAAATTGTATGGATT
1 ATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATT
71603 GATTTATTTTAAATA
66 GATTTATTTTAAATA
71618 ATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAAT-TA-TTAGT
1 ATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GT
71681 ATGGA-TGATTTATTTTAAATA
59 ATGGATTGATTTATTTTAAATA
71702 ATTTATTTTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGA
1 ATTTA--TTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGA
71767 TTGATTTATTTTAAATA
64 TTGATTTATTTTAAATA
71784 ATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATT
1 ATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATT
71849 GATTTATTTTAAATA
66 GATTTATTTTAAATA
* *
71864 ATTTATTAGTATGGATTGATTTATTTTAAAATATCGATTGCTTTATT
1 ATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
71911 TTAAATAATT
Statistics
Matches: 275, Mismatches: 5, Indels: 25
0.90 0.02 0.08
Matches are distributed among these distances:
79 43 0.16
80 121 0.44
81 11 0.04
82 25 0.09
84 26 0.09
85 8 0.03
86 41 0.15
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (80 bp):
ATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATT
GATTTATTTTAAATA
Found at i:71974 original size:31 final size:31
Alignment explanation
Indices: 71939--71998 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
71929 TAGTTGTATG
* *
71939 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
71970 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
71999 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:73033 original size:29 final size:30
Alignment explanation
Indices: 72993--73049 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
72983 CTCACCCCGT
72993 AAACATTCACACAACAATACTCTCAACCGA
1 AAACATTCACACAACAATACTCTCAACCGA
* *
73023 AAACA-TCACACGACAATTCTCTCAACC
1 AAACATTCACACAACAATACTCTCAACC
73050 CGTAAATATC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.44, C:0.35, G:0.04, T:0.18
Consensus pattern (30 bp):
AAACATTCACACAACAATACTCTCAACCGA
Found at i:73067 original size:30 final size:30
Alignment explanation
Indices: 72981--73074 Score: 109
Period size: 30 Copynumber: 3.1 Consensus size: 30
72971 AAATAAAACG
* *
72981 CTCTCACCCCGTAAACATTCACACAACAATA
1 CTCTCAACCCGTAAACA-TCACACGACAATA
* *
73012 CTCTCAA-CCGAAAACATCACACGACAATT
1 CTCTCAACCCGTAAACATCACACGACAATA
* * *
73041 CTCTCAACCCGTAAATATCACCCGACAATC
1 CTCTCAACCCGTAAACATCACACGACAATA
73071 CTCT
1 CTCT
73075 TATCTTTGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
29 18 0.33
30 30 0.56
31 6 0.11
ACGTcount: A:0.36, C:0.38, G:0.05, T:0.20
Consensus pattern (30 bp):
CTCTCAACCCGTAAACATCACACGACAATA
Found at i:75674 original size:46 final size:46
Alignment explanation
Indices: 75621--75720 Score: 114
Period size: 46 Copynumber: 2.2 Consensus size: 46
75611 AACCATGCAT
* *
75621 CGATGCACT-CTTGATTTTATTGAAACATCAAATACATTTTA-TGTAC
1 CGATGCACTCCTGGATCTT-TTGAAACATCAAATACA-TTTAGTGTAC
* * **
75667 CGATGCACTCCTGGCTCTTTTGAAATATCAAATGTATTTAGTGTAC
1 CGATGCACTCCTGGATCTTTTGAAACATCAAATACATTTAGTGTAC
75713 CGATGCAC
1 CGATGCAC
75721 CCCATGTGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
45 4 0.09
46 36 0.78
47 6 0.13
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (46 bp):
CGATGCACTCCTGGATCTTTTGAAACATCAAATACATTTAGTGTAC
Found at i:80415 original size:21 final size:21
Alignment explanation
Indices: 80389--80434 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
80379 ATGAGCATTA
80389 TGGGGGAGCTCTCATTTTTCT
1 TGGGGGAGCTCTCATTTTTCT
80410 TGGGGGAGCTCTCATTTTTCT
1 TGGGGGAGCTCTCATTTTTCT
80431 TGGG
1 TGGG
80435 ACTCCAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.09, C:0.17, G:0.33, T:0.41
Consensus pattern (21 bp):
TGGGGGAGCTCTCATTTTTCT
Found at i:81595 original size:44 final size:44
Alignment explanation
Indices: 81521--81620 Score: 137
Period size: 44 Copynumber: 2.3 Consensus size: 44
81511 TTTTGCTTTG
* * * *
81521 TGCATCGATACACTATGAAAGTGTATCGATGTATCCCTTGAATA
1 TGCATCGATACAATATGAAAGTGCACCGATGCATCCCTTGAATA
* * *
81565 TGCATCGATACAATATGAAGGTGCACCGATGCATTCCTTGAATG
1 TGCATCGATACAATATGAAAGTGCACCGATGCATCCCTTGAATA
81609 TGCATCGATACA
1 TGCATCGATACA
81621 CTAAGCAGTG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
TGCATCGATACAATATGAAAGTGCACCGATGCATCCCTTGAATA
Found at i:82067 original size:17 final size:18
Alignment explanation
Indices: 82032--82068 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
82022 GAAATAATTT
*
82032 TTTTTGTTTTAATTGATG
1 TTTTTGATTTAATTGATG
82050 TTTTTGATTTAATT-ATG
1 TTTTTGATTTAATTGATG
82067 TT
1 TT
82069 GTTTTTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.68
Consensus pattern (18 bp):
TTTTTGATTTAATTGATG
Found at i:83501 original size:36 final size:38
Alignment explanation
Indices: 83454--83540 Score: 133
Period size: 36 Copynumber: 2.3 Consensus size: 38
83444 AGATGTGGCT
*
83454 AATATATGGTTTGAATTGTTTGTTTTG-A-ATATTTTG
1 AATATTTGGTTTGAATTGTTTGTTTTGAATATATTTTG
*
83490 AATATTTGGTTTGGATTGTTTGTTTTGAATATATTTTG
1 AATATTTGGTTTGAATTGTTTGTTTTGAATATATTTTG
*
83528 GATATTTGGTTTG
1 AATATTTGGTTTG
83541 TTTGAATGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
36 25 0.54
37 1 0.02
38 20 0.43
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (38 bp):
AATATTTGGTTTGAATTGTTTGTTTTGAATATATTTTG
Found at i:83539 original size:25 final size:26
Alignment explanation
Indices: 83485--83539 Score: 60
Period size: 25 Copynumber: 2.1 Consensus size: 26
83475 GTTTTGAATA
* *
83485 TTTTGAATATTTGGTTTGGATTGTTTG
1 TTTTGAATATAT-GTTTGGATTGTTGG
83512 TTTTGAATATAT-TTTGGATAT-TTGG
1 TTTTGAATATATGTTTGGAT-TGTTGG
83537 TTT
1 TTT
83540 GTTTGAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 13 0.52
26 1 0.04
27 11 0.44
ACGTcount: A:0.18, C:0.00, G:0.22, T:0.60
Consensus pattern (26 bp):
TTTTGAATATATGTTTGGATTGTTGG
Found at i:84277 original size:19 final size:19
Alignment explanation
Indices: 84249--84300 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
84239 AATACATTTT
*
84249 ATGTACCGATGCACAGACC
1 ATGTATCGATGCACAGACC
84268 ATGTATCGATGCACAGACC
1 ATGTATCGATGCACAGACC
*
84287 ATGCATCGATGCAC
1 ATGTATCGATGCAC
84301 TCCTGGCTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (19 bp):
ATGTATCGATGCACAGACC
Found at i:84295 original size:84 final size:83
Alignment explanation
Indices: 84186--84346 Score: 234
Period size: 84 Copynumber: 1.9 Consensus size: 83
84176 ATGCATTTTG
*
84186 TGTACCGATGCACAGCCATGCATCGATGCACTCCT-GATTTTATTGAAACATCGAATACATTTTA
1 TGTACCGATGCACAGCCATGCATCGATGCACTCCTGGATCTT-TTGAAACATCGAATACATTTTA
*
84250 TGTACCGATGCACAGACCA
65 TGTACCAATGCACAGACCA
* * ** *
84269 TGTATCGATGCACAGACCATGCATCGATGCACTCCTGGCTCTTTTGAAACATCGAATGTATTTTG
1 TGTACCGATGCACAG-CCATGCATCGATGCACTCCTGGATCTTTTGAAACATCGAATACATTTTA
84334 TGTACCAATGCAC
65 TGTACCAATGCAC
84347 CCTATGTGTA
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
83 14 0.20
84 51 0.74
85 4 0.06
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (83 bp):
TGTACCGATGCACAGCCATGCATCGATGCACTCCTGGATCTTTTGAAACATCGAATACATTTTAT
GTACCAATGCACAGACCA
Found at i:84357 original size:84 final size:83
Alignment explanation
Indices: 84184--84365 Score: 228
Period size: 84 Copynumber: 2.2 Consensus size: 83
84174 GAATGCATTT
* *
84184 TGTGTACCGATGCACAGCCATGCATCGATGCACTCCTGATTTTATTGAAACATCGAATACATTTT
1 TGTGTATCGATGCACAGCCATGCATCGATGCACTCCTGATCTTATTGAAACATCGAATACATTTT
*
84249 ATGTACCGATGCACAGACCA
66 ATGTACCAATGCAC--ACCA
* **
84269 --TGTATCGATGCACAGACCATGCATCGATGCACTCCTGGCTCTT-TTGAAACATCGAATGTATT
1 TGTGTATCGATGCACAG-CCATGCATCGATGCACTCCT-GATCTTATTGAAACATCGAATACATT
*
84331 TTGTGTACCAATGCAC-CCTA
64 TTATGTACCAATGCACACC-A
84351 TGTGTATCGATGCAC
1 TGTGTATCGATGCAC
84366 TAGGTCTTAT
Statistics
Matches: 85, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
81 2 0.02
82 1 0.01
83 14 0.16
84 64 0.75
85 4 0.05
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (83 bp):
TGTGTATCGATGCACAGCCATGCATCGATGCACTCCTGATCTTATTGAAACATCGAATACATTTT
ATGTACCAATGCACACCA
Found at i:88610 original size:29 final size:30
Alignment explanation
Indices: 88574--88634 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
88564 CAAAAAAAAT
88574 TAATTAAATAAAATACTAA-AAAA-TTTAAA
1 TAATTAAAT-AAATACTAACAAAATTTTAAA
88603 TAATTAAATAAATACTAACAAAATTTTAAA
1 TAATTAAATAAATACTAACAAAATTTTAAA
88633 TA
1 TA
88635 GAATAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
28 9 0.30
29 13 0.43
30 8 0.27
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (30 bp):
TAATTAAATAAATACTAACAAAATTTTAAA
Found at i:88643 original size:28 final size:25
Alignment explanation
Indices: 88566--88644 Score: 77
Period size: 28 Copynumber: 2.9 Consensus size: 25
88556 TATAACTACA
* *
88566 AAAAAAATTAATTAAATAAAATACT
1 AAAAAATTTAAATAAATAAAATACT
*
88591 AAAAAATTTAAATAATTAAATAAATACT
1 AAAAAATTTAAATAA--ATA-AAATACT
88619 AACAAAATTTTAAATAGAATAAAATA
1 AA-AAAA-TTTAAATA-AATAAAATA
88645 TACCTTATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
25 13 0.30
27 2 0.05
28 14 0.32
29 6 0.14
30 8 0.18
31 1 0.02
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (25 bp):
AAAAAATTTAAATAAATAAAATACT
Found at i:97635 original size:2 final size:2
Alignment explanation
Indices: 97628--97668 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
97618 TTAAAATGTA
97628 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
97669 AATGAATAAA
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:103669 original size:11 final size:11
Alignment explanation
Indices: 103624--103672 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
103614 TAAAACTATA
103624 TATTTTATTCT
1 TATTTTATTCT
*
103635 TATCTT-TTCT
1 TATTTTATTCT
*
103645 TA-ATTATT-T
1 TATTTTATTCT
103654 ATATTTTATTCT
1 -TATTTTATTCT
103666 TATTTTA
1 TATTTTA
103673 ACTTATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
9 3 0.10
10 10 0.32
11 17 0.55
12 1 0.03
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (11 bp):
TATTTTATTCT
Found at i:103707 original size:19 final size:18
Alignment explanation
Indices: 103665--103707 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
103655 TATTTTATTC
103665 TTATTTTAACTTATAAAA
1 TTATTTTAACTTATAAAA
* *
103683 TATATTTTAATTTTTTAAAA
1 T-TATTTTAA-CTTATAAAA
103703 TTATT
1 TTATT
103708 CTTATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 12 0.57
20 8 0.38
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATTTTAACTTATAAAA
Found at i:103748 original size:29 final size:29
Alignment explanation
Indices: 103714--103775 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
103704 TATTCTTATA
* * * * *
103714 ATATTTCAACATTCATATAAAAATAAAAT
1 ATATTTCAAAATTAAAACAAAAACAAAAT
*
103743 ATATTTTAAAATTAAAACAAAAACAAAAT
1 ATATTTCAAAATTAAAACAAAAACAAAAT
103772 ATAT
1 ATAT
103776 ATTTTTAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (29 bp):
ATATTTCAAAATTAAAACAAAAACAAAAT
Found at i:103801 original size:29 final size:29
Alignment explanation
Indices: 103730--103825 Score: 102
Period size: 31 Copynumber: 3.2 Consensus size: 29
103720 CAACATTCAT
*
103730 ATAAAAATAAAATATATTTTAAAATTAAA
1 ATAAAAATAATATATATTTTAAAATTAAA
* * *
103759 ACAAAAACAAAATATATATTTTTAAATTAAA
1 A-TAAAA-ATAATATATATTTTAAAATTAAA
** *
103790 ATAAAAATAATATATATAATAAAAATAAGA
1 ATAAAAATAATATATATTTTAAAATTAA-A
103820 ATAAAA
1 ATAAAA
103826 TATATGTTTA
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
29 18 0.33
30 15 0.28
31 21 0.39
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.30
Consensus pattern (29 bp):
ATAAAAATAATATATATTTTAAAATTAAA
Found at i:103826 original size:29 final size:29
Alignment explanation
Indices: 103793--103859 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
103783 AATTAAAATA
103793 AAAATA-ATATATATAATAAAAATAAGAAT
1 AAAATATATATATAT-ATAAAAATAAGAAT
* * * *
103822 AAAATATATGTTTATGTTAAAATAAGAAT
1 AAAATATATATATATATAAAAATAAGAAT
*
103851 AAATTATAT
1 AAAATATAT
103860 TTAATAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 26 0.81
30 6 0.19
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (29 bp):
AAAATATATATATATATAAAAATAAGAAT
Found at i:103947 original size:30 final size:29
Alignment explanation
Indices: 103730--103952 Score: 136
Period size: 30 Copynumber: 7.7 Consensus size: 29
103720 CAACATTCAT
103730 ATAAAAATAAAATATATTTTAA-AATTAAA
1 ATAAAAATAAAATATA-TTTAATAATTAAA
* * **
103759 ACAAAAACAAAATATATATTTTTAAATTAAA
1 ATAAAAATAAAATATAT-TTAAT-AATTAAA
*
103790 ATAAAAAT--AATATA--T-ATAATAAAA
1 ATAAAAATAAAATATATTTAATAATTAAA
* * *
103814 ATAAGAATAAAATATATGTTTAT-GTTAAA
1 ATAAAAATAAAATATAT-TTAATAATTAAA
* * *
103843 ATAAGAATAAATTATATTTAATAATTTAAG
1 ATAAAAATAAAATATATTTAATAA-TTAAA
* * * * **
103873 GTAAGACTAGAATATATTTAATAATTTAGT
1 ATAAAAATAAAATATATTTAATAA-TTAAA
* * * *
103903 TTAAGAATATAATATATGTAATAAGTTAAA
1 ATAAAAATAAAATATATTTAATAA-TTAAA
103933 ATAAAAATAAAATATTATTT
1 ATAAAAATAAAATA-TATTT
103953 TAGGTTAAGA
Statistics
Matches: 150, Mismatches: 32, Indels: 22
0.74 0.16 0.11
Matches are distributed among these distances:
24 13 0.09
25 1 0.01
26 7 0.05
28 5 0.03
29 43 0.29
30 64 0.43
31 17 0.11
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.36
Consensus pattern (29 bp):
ATAAAAATAAAATATATTTAATAATTAAA
Found at i:104392 original size:13 final size:14
Alignment explanation
Indices: 104376--104409 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
104366 TTGTTAGGTT
104376 TTAATTGAA-TAAA
1 TTAATTGAATTAAA
104389 TTAATTGAATTAAA
1 TTAATTGAATTAAA
104403 TTCAATT
1 TT-AATT
104410 TGATTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 6 0.32
15 4 0.21
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (14 bp):
TTAATTGAATTAAA
Found at i:105424 original size:20 final size:21
Alignment explanation
Indices: 105399--105491 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
105389 TTTTCCCAAT
*
105399 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
105419 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
105440 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
105460 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
105481 TCGCAATGCGA
1 TCGCAATGCGA
105492 TATTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:105442 original size:21 final size:21
Alignment explanation
Indices: 105416--105496 Score: 101
Period size: 21 Copynumber: 3.9 Consensus size: 21
105406 GCGAATAAGT
105416 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* ** *
105437 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
105457 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
*
105478 AAATCGCAATGCGATATTG
1 AAATCGCAACGCGA-ATTG
105497 ACTATCGCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
20 16 0.33
21 29 0.59
22 4 0.08
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.19
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:105505 original size:20 final size:19
Alignment explanation
Indices: 105480--105614 Score: 74
Period size: 20 Copynumber: 6.7 Consensus size: 19
105470 AATTGGGAAA
*
105480 ATCGCAATGCGATATTGACT
1 ATCGCAACGCGATATT-ACT
* * * *
105500 ATCGCAATGTGATAATACAAA
1 ATCGCAACGCGATATTAC--T
*
105521 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATA-TTACT
* *
105541 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATA-TTACT
*
105561 TTCGCAACGCGAT-TCTGACT
1 ATCGCAACGCGATAT-T-ACT
* *
105581 TTCGCAACGCGATAATACAT
1 ATCGCAACGCGATATTAC-T
*
105601 AATCGCAATGCGAT
1 -ATCGCAACGCGAT
105615 TTTCAAAGCG
Statistics
Matches: 93, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
18 1 0.01
19 4 0.04
20 62 0.67
21 23 0.25
22 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (19 bp):
ATCGCAACGCGATATTACT
Found at i:105506 original size:41 final size:41
Alignment explanation
Indices: 105399--105491 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
105389 TTTTCCCAAT
105399 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
105440 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
105481 TCGCAATGCGA
1 TCGCAATGCGA
105492 TATTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:105522 original size:41 final size:41
Alignment explanation
Indices: 105477--105614 Score: 131
Period size: 41 Copynumber: 3.4 Consensus size: 41
105467 GCGAATTGGG
* * * *
105477 AAAATCGCAATGCGATATTGACTATCGCAATGTGATAATAC
1 AAAATCGCAACGCGATATTGACTTTCGCAACGCGATAATAC
* *
105518 AAAATCGCAACGAGATACTT-ACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATA-TTGACTTTCGCAACGCGATAAT-AC
**
105560 --TTTCGCAACGCGAT-TCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATAT-TGACTTTCGCAACGCGATAATAC
* *
105599 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
105615 TTTCAAAGCG
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 29 0.37
41 41 0.53
42 4 0.05
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (41 bp):
AAAATCGCAACGCGATATTGACTTTCGCAACGCGATAATAC
Found at i:105810 original size:22 final size:22
Alignment explanation
Indices: 105782--105825 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
105772 CACTCTCTCA
*
105782 CCCATCTCCGACGAAATTCGTC
1 CCCATCTCCGACGAAATCCGTC
*
105804 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
105826 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:106114 original size:20 final size:20
Alignment explanation
Indices: 106089--106135 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
106079 GATTCTCTCT
106089 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
* ** *
106109 TTGCGACAGTCATTTTCGTG
1 TTGCGATAGTCAAATTCGCG
106129 TTGCGAT
1 TTGCGAT
106136 TTTCATTTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCG
Found at i:107484 original size:18 final size:18
Alignment explanation
Indices: 107463--107507 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
107453 TCCACTTCGG
*
107463 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
107481 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
107499 GAGCCATCA
1 GAGCCATCA
107508 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:108042 original size:19 final size:20
Alignment explanation
Indices: 107988--108054 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
107978 TAGTTTACTT
* *
107988 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
108008 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
108028 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
108047 TCGCAACG
1 TCGCAACG
108055 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:108062 original size:14 final size:14
Alignment explanation
Indices: 108043--108100 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
108033 ATGCGAAATG
108043 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
108057 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
108073 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
108089 AAAATCGCAACG
1 AAAATCGCAACG
108101 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:108085 original size:32 final size:33
Alignment explanation
Indices: 108027--108117 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
108017 GGAAATGGCT
*
108027 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
108060 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
108092 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
108118 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:108111 original size:19 final size:19
Alignment explanation
Indices: 107988--108122 Score: 85
Period size: 19 Copynumber: 7.6 Consensus size: 19
107978 TAGTTTACTT
* **
107988 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
108008 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
108028 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
108047 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
108061 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
108079 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
108093 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
108112 TCGCAATGCGA
1 TCGCAACGCGA
108123 TTTGTGTTTC
Statistics
Matches: 92, Mismatches: 11, Indels: 25
0.72 0.09 0.20
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 27 0.29
20 24 0.26
21 1 0.01
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:108153 original size:14 final size:14
Alignment explanation
Indices: 108134--108191 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
108124 TTGTGTTTCG
108134 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
108148 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
108164 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
108180 CGTTGCGATTTT
1 CGTTGCGATTTT
108192 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:108168 original size:32 final size:33
Alignment explanation
Indices: 108129--108207 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
108119 GCGATTTGTG
108129 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
108161 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
108194 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
108208 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:108226 original size:20 final size:19
Alignment explanation
Indices: 108192--108247 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
108182 TTGCGATTTT
*
108192 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
108211 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
108231 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
108248 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:110829 original size:24 final size:24
Alignment explanation
Indices: 110802--110855 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
110792 GTATTCGAAA
* *
110802 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
110826 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
110850 TTTGAT
1 TTTGAT
110856 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Done.