Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 25 of 82
Found at i:8595804 original size:130 final size:129
Alignment explanation
Indices: 8595567--8595829 Score: 490
Period size: 130 Copynumber: 2.0 Consensus size: 129
8595557 TCTCTCTCAC
8595567 TAGTTAGGTGCTTTACAGAGAGAAAGAGGAAGCTTTATTAATAGCTTGAAAGTTTTTGGAAAGAA
1 TAGTTAGGTGCTTTACAGAGAGAAAGAGGAAGCTTTATTAATAGCTTGAAAGTTTTTGGAAAGAA
*
8595632 TTTCAAGCACAAAGCTACCAAGGTGAGTAGTGAACTAGAATTGATTTTTAGTGTTGAAAATGAT
66 TTTCAAGCACAAAGCTACCAAGGTGAGTAGTGAACTAAAATTGATTTTTAGTGTTGAAAATGAT
*
8595696 TNAGTTAGGTGCTTTACAGAGAGAAAGAGGAAGCTTTATTAATAGCTTGGAAGTTTTTGGAAAGA
1 T-AGTTAGGTGCTTTACAGAGAGAAAGAGGAAGCTTTATTAATAGCTTGAAAGTTTTTGGAAAGA
*
8595761 ATTTCAAGCACAAAGCTACCAAGGTGAGTAGTGAATTAAAATTGATTTTTAGTGTTGAAAATGAT
65 ATTTCAAGCACAAAGCTACCAAGGTGAGTAGTGAACTAAAATTGATTTTTAGTGTTGAAAATGAT
8595826 TAGT
1 TAGT
8595830 GTTTAGATTT
Statistics
Matches: 130, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
129 4 0.03
130 126 0.97
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (129 bp):
TAGTTAGGTGCTTTACAGAGAGAAAGAGGAAGCTTTATTAATAGCTTGAAAGTTTTTGGAAAGAA
TTTCAAGCACAAAGCTACCAAGGTGAGTAGTGAACTAAAATTGATTTTTAGTGTTGAAAATGAT
Found at i:8596365 original size:37 final size:37
Alignment explanation
Indices: 8596312--8596433 Score: 172
Period size: 37 Copynumber: 3.3 Consensus size: 37
8596302 ATGATGTTGG
* **
8596312 TGATGATGTTGAAGTGTGCGAGTAAAGAGTGCACACA
1 TGATGATGATGAAGTGTGCGAGTAGGGAGTGCACACA
* *
8596349 TGATGATGATGGAGTGTGCAAGTAGGGAGTGCACACA
1 TGATGATGATGAAGTGTGCGAGTAGGGAGTGCACACA
**
8596386 TGATGATGACAAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGATGAAGTGTGCGAGTAGGGAGTGCACACA
*
8596423 TGATGACGATG
1 TGATGATGATG
8596434 TATGTATATG
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 73 1.00
ACGTcount: A:0.31, C:0.11, G:0.35, T:0.22
Consensus pattern (37 bp):
TGATGATGATGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:8598310 original size:42 final size:42
Alignment explanation
Indices: 8598235--8598353 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 42
8598225 TCGTCATCAG
* * *
8598235 CTTATGTGCACTCCCCACTAGCACATGGTTGGGTCATCATCGA
1 CTTATGTGCACT-CCCACTCGCACATAGCTGGGTCATCATCGA
* * *
8598278 CTTATGTGCACTCCCACTCTCACATAGCTGGGTCATTATCGG
1 CTTATGTGCACTCCCACTCGCACATAGCTGGGTCATCATCGA
** * * *
8598320 CTTATGCACACTCCTACTCGCATATAGCTAGGTC
1 CTTATGTGCACTCCCACTCGCACATAGCTGGGTC
8598354 CACATCAACA
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 52 0.81
43 12 0.19
ACGTcount: A:0.21, C:0.31, G:0.18, T:0.29
Consensus pattern (42 bp):
CTTATGTGCACTCCCACTCGCACATAGCTGGGTCATCATCGA
Found at i:8600476 original size:55 final size:55
Alignment explanation
Indices: 8600401--8600609 Score: 285
Period size: 55 Copynumber: 3.8 Consensus size: 55
8600391 CCACCGACTT
*
8600401 ATCAGCTCATGTGCACTCCCACGCCGCACATAGCTGGAATCACCATCCACCAGTC
1 ATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCACCATCCACCAGTC
* * * * * *
8600456 ATCAACTCATGTGCACTCCCACACCGTACATTGCTAGAAATCATCATCCATCAGTC
1 ATCAGCTCATGTGCACTCCCACACCGCACATAGCT-GGAATCACCATCCACCAGTC
* *
8600512 ATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCATCCACC-GATC
1 ATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCACCATCCACCAG-TC
* **
8600567 ATCAGCTCATGTGCACTCCCACAGCATACATAGCTGGAATCAC
1 ATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCAC
8600610 TCGTCATCAT
Statistics
Matches: 134, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
54 1 0.01
55 84 0.63
56 49 0.37
ACGTcount: A:0.29, C:0.36, G:0.14, T:0.21
Consensus pattern (55 bp):
ATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCACCATCCACCAGTC
Found at i:8600512 original size:56 final size:54
Alignment explanation
Indices: 8600401--8600645 Score: 284
Period size: 55 Copynumber: 4.6 Consensus size: 54
8600391 CCACCGACTT
* * *
8600401 ATCAGCTCATGTGCACTCCCACGCCGCACATAGCTGGAATCACCATCCACCAGTC
1 ATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCATCCA-CAGTC
* * *
8600456 ATCAACTCATGTGCACTCCCACACCGTACATTGCTAGAAATCATCATCCATCAGTC
1 ATCAGCTCATGTGCACTCCCACACCGCACATAGCTAG-AATCATCATCCA-CAGTC
*
8600512 ATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCATCCACCGATC
1 ATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCATCCACAG-TC
* ** * **
8600567 ATCAGCTCATGTGCACTCCCACAGCATACATAGCTGGAATCA-C-TCGTCA-TC
1 ATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCATCCACAGTC
* *
8600618 ATC-G-GCATGTGCACTTCCACACCGCACA
1 ATCAGCTCATGTGCACTCCCACACCGCACA
8600646 CGCGTGGTTA
Statistics
Matches: 165, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
49 19 0.12
50 1 0.01
51 5 0.03
53 3 0.02
54 3 0.02
55 84 0.51
56 50 0.30
ACGTcount: A:0.28, C:0.37, G:0.14, T:0.21
Consensus pattern (54 bp):
ATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCATCCACAGTC
Found at i:8600597 original size:111 final size:106
Alignment explanation
Indices: 8600401--8600645 Score: 316
Period size: 111 Copynumber: 2.3 Consensus size: 106
8600391 CCACCGACTT
* *
8600401 ATCAGCTCATGTGCACTCCCACGCCGCACATAGCTGGAATCACCATCCACCAGTCATCAACTCAT
1 ATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCACCATCCACCAGTCATCAACTCAT
* *
8600466 GTGCACTCCCACACCGTACATTGCTAGAAATCATCATCCATCAGTC
66 GTGCACTCCCACACCATACATAGCT-GAAATCA-C-T-CATCA-TC
* *
8600512 ATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCATCCACC-GATCATCAGCTCA
1 ATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCACCATCCACCAG-TCATCAACTCA
* * *
8600576 TGTGCACTCCCACAGCATACATAGCTGGAATCACTCGTCATC
65 TGTGCACTCCCACACCATACATAGCTGAAATCACTCATCATC
* *
8600618 ATC-G-GCATGTGCACTTCCACACCGCACA
1 ATCAGCTCATGTGCACTCCCACACCGCACA
8600646 CGCGTGGTTA
Statistics
Matches: 122, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
104 22 0.18
105 1 0.01
106 5 0.04
107 4 0.03
108 1 0.01
109 1 0.01
110 7 0.06
111 81 0.66
ACGTcount: A:0.28, C:0.37, G:0.14, T:0.21
Consensus pattern (106 bp):
ATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCACCATCCACCAGTCATCAACTCAT
GTGCACTCCCACACCATACATAGCTGAAATCACTCATCATC
Found at i:8603431 original size:24 final size:25
Alignment explanation
Indices: 8603388--8603434 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
8603378 GTGGTCGCAA
8603388 CCACGTATATCAACTCGTGGCCTAG
1 CCACGTATATCAACTCGTGGCCTAG
*
8603413 CCACGTATA-CAACTTGTGGCCT
1 CCACGTATATCAACTCGTGGCCT
8603435 TGCAACATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (25 bp):
CCACGTATATCAACTCGTGGCCTAG
Found at i:8603445 original size:24 final size:25
Alignment explanation
Indices: 8603393--8603446 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
8603383 CGCAACCACG
* *
8603393 TATATCAACTCGTGGCCTAGCCACG
1 TATATCAACTCGTGGCCTAGCAACA
* *
8603418 TATA-CAACTTGTGGCCTTGCAACA
1 TATATCAACTCGTGGCCTAGCAACA
8603442 TATAT
1 TATAT
8603447 AGCACAGACC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (25 bp):
TATATCAACTCGTGGCCTAGCAACA
Found at i:8606734 original size:2 final size:2
Alignment explanation
Indices: 8606724--8606759 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
8606714 CATGACACAC
* *
8606724 AT AT CT AT AT AT GT 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
8606760 CCATCATCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8606953 original size:42 final size:41
Alignment explanation
Indices: 8606786--8606953 Score: 147
Period size: 42 Copynumber: 4.0 Consensus size: 41
8606776 TCTCCGATCG
* * * * * *
8606786 TCATCAGCTCATGTGCACTCCCCACTAGCACATGGCTGGGTCA
1 TCATCGGCT-ATGCGCACT-CCTACTCGCACATAGCCGGGTCA
* * *
8606829 GCATCGGCTAATGCGCACTCCTACTTGCACATAGCCAGGTCA
1 TCATCGGCT-ATGCGCACTCCTACTCGCACATAGCCGGGTCA
* * *
8606871 TCATCGGCTTATGCGCACTCTTATTCGCACATGGCCGGGTCA
1 TCATCGGC-TATGCGCACTCCTACTCGCACATAGCCGGGTCA
* * * *
8606913 TCATTGACGTATGTGCACTCCTACTCGCACATAGCTGGGTC
1 TCATCGGC-TATGCGCACTCCTACTCGCACATAGCCGGGTC
8606954 CACATCAACA
Statistics
Matches: 101, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
42 85 0.84
43 16 0.16
ACGTcount: A:0.20, C:0.32, G:0.22, T:0.26
Consensus pattern (41 bp):
TCATCGGCTATGCGCACTCCTACTCGCACATAGCCGGGTCA
Found at i:8608321 original size:2 final size:2
Alignment explanation
Indices: 8608311--8608346 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
8608301 TATAACACAC
* *
8608311 AT AT CT AT AT AT GT 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
8608347 CCATCACCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8608445 original size:42 final size:42
Alignment explanation
Indices: 8608387--8608540 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 42
8608377 CAGCTCATAT
* * *
8608387 GCACTCCCACTAGCACATGGCTGGGTCAACATCGGCTTATGC
1 GCACTCCCACTCGCACATAGCTGGGTCAGCATCGGCTTATGC
* * *
8608429 GCACTCCTACTCGCACATAGCTGGGTCAGCATCGACTTATGT
1 GCACTCCCACTCGCACATAGCTGGGTCAGCATCGGCTTATGC
* *
8608471 GCACTCCCCCTCGCACATAG-TCAGGTCAGCATCGGCTTATGC
1 GCACTCCCACTCGCACATAGCT-GGGTCAGCATCGGCTTATGC
* *
8608513 ACACTCCTACTCGCACATAG-TCGGGTCA
1 GCACTCCCACTCGCACATAGCT-GGGTCA
8608541 ATATCATTAC
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 1 0.01
42 95 0.99
ACGTcount: A:0.21, C:0.34, G:0.21, T:0.23
Consensus pattern (42 bp):
GCACTCCCACTCGCACATAGCTGGGTCAGCATCGGCTTATGC
Found at i:8608574 original size:2 final size:2
Alignment explanation
Indices: 8608567--8608593 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8608557 TTATTTGTAT
8608567 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
8608594 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:8608598 original size:2 final size:2
Alignment explanation
Indices: 8608593--8608618 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8608583 ACACACACAC
8608593 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
8608619 CAACACAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8609215 original size:23 final size:23
Alignment explanation
Indices: 8609169--8609216 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
8609159 TTTCTAAATA
* *
8609169 ATTTCCACTCAAATCCATCTTAT
1 ATTTCCACACAAATCCATCATAT
8609192 ATTTCCACACATAATCCA-CATAT
1 ATTTCCACACA-AATCCATCATAT
8609215 AT
1 AT
8609217 GGCAGCAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (23 bp):
ATTTCCACACAAATCCATCATAT
Found at i:8624750 original size:21 final size:20
Alignment explanation
Indices: 8624726--8624773 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
8624716 ATCTTACCTT
**
8624726 TTTTTCACTTGTTTTCTTGAA
1 TTTTTCACTT-TTCCCTTGAA
*
8624747 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTCCCTTGAA
8624768 TTTTTC
1 TTTTTC
8624774 CACCTAGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.15, C:0.21, G:0.06, T:0.58
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTGAA
Found at i:8624800 original size:10 final size:10
Alignment explanation
Indices: 8624785--8624818 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
8624775 ACCTAGGGTT
8624785 TTTTTCTTCC
1 TTTTTCTTCC
8624795 TTTTTCTTCC
1 TTTTTCTTCC
*
8624805 TTTGTTCTTGC
1 TTT-TTCTTCC
8624816 TTT
1 TTT
8624819 GGCTGGCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.00, C:0.24, G:0.06, T:0.71
Consensus pattern (10 bp):
TTTTTCTTCC
Found at i:8629314 original size:37 final size:37
Alignment explanation
Indices: 8629273--8629348 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
8629263 TAGTTACTTA
* *
8629273 TGACATTCTGCTGTGATAATTGCTGATGGTTAAGATT
1 TGACATTCTACTGTGATAATTGCTGATGCTTAAGATT
* * *
8629310 TGACATTCTATTGTGATAATTTCTGATGCTTAGGATT
1 TGACATTCTACTGTGATAATTGCTGATGCTTAAGATT
8629347 TG
1 TG
8629349 GATGCTGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.43
Consensus pattern (37 bp):
TGACATTCTACTGTGATAATTGCTGATGCTTAAGATT
Found at i:8630552 original size:32 final size:33
Alignment explanation
Indices: 8630462--8630609 Score: 160
Period size: 35 Copynumber: 4.4 Consensus size: 33
8630452 GTTAGTTGTT
* *
8630462 AGGTTTTGGTTGATGCCTATGAAAAACCATTGTTG
1 AGGTTTTGGTTGA-GCCTTTGAAAAACCACT-TTG
*
8630497 TAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTG
1 -AGGTTTTGGTTGAGCCTTTGAAAAACCACTTTG
8630531 -GGTTTTGGTTGAG-CTTGTGAAAAACCA-TTGTG
1 AGGTTTTGGTTGAGCCTT-TGAAAAACCACTT-TG
*
8630563 AAAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTG
1 --AGGTTTTGGTTGAGCCTTTGAAAAACCACTTTG
*
8630598 A-GTTTGGGTTGA
1 AGGTTTTGGTTGA
8630610 TCTCGGTAAA
Statistics
Matches: 98, Mismatches: 7, Indels: 18
0.80 0.06 0.15
Matches are distributed among these distances:
31 5 0.05
32 33 0.34
33 1 0.01
34 3 0.03
35 39 0.40
36 17 0.17
ACGTcount: A:0.24, C:0.11, G:0.28, T:0.36
Consensus pattern (33 bp):
AGGTTTTGGTTGAGCCTTTGAAAAACCACTTTG
Found at i:8630559 original size:67 final size:68
Alignment explanation
Indices: 8630463--8630636 Score: 239
Period size: 67 Copynumber: 2.6 Consensus size: 68
8630453 TTAGTTGTTA
* * *
8630463 GGTTTTGGTTGATGCCTATGAAAAACCATTGTTG-TAGGTTGTGGTTGAGCCTTTGAAAAACCAC
1 GGTTTTGGTTGA-GCTTGTGAAAAACCATTGTTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCAC
8630527 TTTG
65 TTTG
8630531 GGTTTTGGTTGAGCTTGTGAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACT
1 GGTTTTGGTTGAGCTTGTGAAAAACCATTGTTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACT
8630595 TTG
66 TTG
* * * *
8630598 AGTTTGGGTTGATCTCG-GTAAAAACCATTG-TGAAAGGTT
1 GGTTTTGGTTGAGCTTGTG-AAAAACCATTGTTGAAAGGTT
8630637 TTTGCTAAGC
Statistics
Matches: 97, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
66 3 0.03
67 82 0.85
68 12 0.12
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (68 bp):
GGTTTTGGTTGAGCTTGTGAAAAACCATTGTTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACT
TTG
Found at i:8638051 original size:35 final size:33
Alignment explanation
Indices: 8637999--8638169 Score: 131
Period size: 35 Copynumber: 5.1 Consensus size: 33
8637989 GAAAAGTTAG
*
8637999 TTGTTGGGTTTTGGTTGATCTTGTGAAAAACCA
1 TTGTTGGGTTTTGGTTGACCTTGTGAAAAACCA
* *
8638032 TTGTTGTAGGTTGTGGTTGAGCCTT-TGAAAAACAA
1 TTGTTG--GGTTTTGGTTGA-CCTTGTGAAAAACCA
* *
8638067 CT-TTGGGTTTTGGTTGAGCC-CGTGAAAAACCA
1 TTGTTGGGTTTTGGTTGA-CCTTGTGAAAAACCA
*
8638099 TTG-TGAAAGGTTGTGGTTGAGCCTT-TGAAAAACCA
1 TTGTTG---GGTTTTGGTTGA-CCTTGTGAAAAACCA
* * *
8638134 CT-TTGGGTTTTGGTTGATCTCG-GTAAAAACCA
1 TTGTTGGGTTTTGGTTGACCTTGTG-AAAAACCA
8638166 TTGT
1 TTGT
8638170 GAAAGGTTTT
Statistics
Matches: 110, Mismatches: 15, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
31 3 0.03
32 46 0.42
33 7 0.06
34 3 0.03
35 48 0.44
36 3 0.03
ACGTcount: A:0.23, C:0.12, G:0.27, T:0.37
Consensus pattern (33 bp):
TTGTTGGGTTTTGGTTGACCTTGTGAAAAACCA
Found at i:8638079 original size:67 final size:68
Alignment explanation
Indices: 8638002--8638177 Score: 270
Period size: 67 Copynumber: 2.6 Consensus size: 68
8637992 AAGTTAGTTG
* *
8638002 TTGGGTTTTGGTTGATCTTGTGAAAAACCATTGTTG-TAGGTTGTGGTTGAGCCTTTGAAAAACA
1 TTGGGTTTTGGTTGATCTCGTGAAAAACCATTGTTGAAAGGTTGTGGTTGAGCCTTTGAAAAACA
8638066 ACT
66 ACT
* * *
8638069 TTGGGTTTTGGTTGAGCCCGTGAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTTTGAAAAACC
1 TTGGGTTTTGGTTGATCTCGTGAAAAACCATTGTTGAAAGGTTGTGGTTGAGCCTTTGAAAAACA
8638133 ACT
66 ACT
8638136 TTGGGTTTTGGTTGATCTCG-GTAAAAACCATTG-TGAAAGGTT
1 TTGGGTTTTGGTTGATCTCGTG-AAAAACCATTGTTGAAAGGTT
8638178 TTGGCAAAGC
Statistics
Matches: 100, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
66 3 0.03
67 97 0.97
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (68 bp):
TTGGGTTTTGGTTGATCTCGTGAAAAACCATTGTTGAAAGGTTGTGGTTGAGCCTTTGAAAAACA
ACT
Found at i:8638086 original size:32 final size:32
Alignment explanation
Indices: 8638002--8638150 Score: 149
Period size: 35 Copynumber: 4.5 Consensus size: 32
8637992 AAGTTAGTTG
* *
8638002 TTGGGTTTTGGTTGA-TCTTGTGAAAAACCATT
1 TTGGGTTTTGGTTGAGCCTT-TGAAAAACCACT
* *
8638034 GTTGTAGGTTGTGGTTGAGCCTTTGAAAAACAACT
1 -TTG--GGTTTTGGTTGAGCCTTTGAAAAACCACT
**
8638069 TTGGGTTTTGGTTGAGCCCGTGAAAAACCA-T
1 TTGGGTTTTGGTTGAGCCTTTGAAAAACCACT
*
8638100 TGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACT
1 T-TG---GGTTTTGGTTGAGCCTTTGAAAAACCACT
8638136 TTGGGTTTTGGTTGA
1 TTGGGTTTTGGTTGA
8638151 TCTCGGTAAA
Statistics
Matches: 96, Mismatches: 12, Indels: 17
0.77 0.10 0.14
Matches are distributed among these distances:
31 2 0.02
32 36 0.38
33 3 0.03
34 3 0.03
35 47 0.49
36 5 0.05
ACGTcount: A:0.23, C:0.11, G:0.29, T:0.37
Consensus pattern (32 bp):
TTGGGTTTTGGTTGAGCCTTTGAAAAACCACT
Found at i:8640497 original size:38 final size:38
Alignment explanation
Indices: 8640455--8640549 Score: 190
Period size: 38 Copynumber: 2.5 Consensus size: 38
8640445 GCTCGTGTGC
8640455 ATGATGTGGGGGGATGCACATGATGGCATTAACTATGA
1 ATGATGTGGGGGGATGCACATGATGGCATTAACTATGA
8640493 ATGATGTGGGGGGATGCACATGATGGCATTAACTATGA
1 ATGATGTGGGGGGATGCACATGATGGCATTAACTATGA
8640531 ATGATGTGGGGGGATGCAC
1 ATGATGTGGGGGGATGCAC
8640550 TAGAGCTGGG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 57 1.00
ACGTcount: A:0.27, C:0.11, G:0.37, T:0.25
Consensus pattern (38 bp):
ATGATGTGGGGGGATGCACATGATGGCATTAACTATGA
Found at i:8640597 original size:54 final size:54
Alignment explanation
Indices: 8640533--8640674 Score: 205
Period size: 54 Copynumber: 2.6 Consensus size: 54
8640523 AACTATGAAT
* *
8640533 GATGTGGGGGGATGCAC-TAGAGCTGGGTGAGATGGGATGTCTAGCTATGTGCAC
1 GATGTGGGGGGATGCACAT-GAGCTGGGTGAGATGGGATGTCCAGCTATGTACAC
* * *
8640587 GATGTAGGGGGATGCACATGAGCTGGGTGAGATGGGGTGTCCGGCTATGTACAC
1 GATGTGGGGGGATGCACATGAGCTGGGTGAGATGGGATGTCCAGCTATGTACAC
* *
8640641 AATGTGGGGGGATGCACATGAGCTGGATGAGATG
1 GATGTGGGGGGATGCACATGAGCTGGGTGAGATG
8640675 TGATTGTATA
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 78 0.99
55 1 0.01
ACGTcount: A:0.22, C:0.13, G:0.43, T:0.23
Consensus pattern (54 bp):
GATGTGGGGGGATGCACATGAGCTGGGTGAGATGGGATGTCCAGCTATGTACAC
Found at i:8646349 original size:2 final size:2
Alignment explanation
Indices: 8646342--8646419 Score: 88
Period size: 2 Copynumber: 39.5 Consensus size: 2
8646332 GTATAATGTN
*
8646342 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CA- AC AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
* * * *
8646383 AT AC AG AA AC 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 A
8646420 CTATGTCATA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
1 2 0.03
2 64 0.96
3 1 0.01
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.42
Consensus pattern (2 bp):
AT
Found at i:8646636 original size:54 final size:54
Alignment explanation
Indices: 8646569--8646817 Score: 367
Period size: 54 Copynumber: 4.6 Consensus size: 54
8646559 TGGCATTAAC
* *
8646569 TGTGCATGATGTGGAGGGATGCACACGAGCTGGGTGAGATGAGGTGTCCGGCTA
1 TGTGCATGATGTGGGGGGATGCACATGAGCTGGGTGAGATGAGGTGTCCGGCTA
*
8646623 TGTTCACT-ATGTGGGGGGATGCACATGAGCTGGGTGAGATG-GGATGTCCGGCTA
1 TGTGCA-TGATGTGGGGGGATGCACATGAGCTGGGTGAGATGAGG-TGTCCGGCTA
* * *
8646677 TGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGAGATGTCTGGCTA
1 TGTGCATGATGTGGGGGGATGCACATGAGCTGGGTGAGATGAGGTGTCCGGCTA
** * *
8646731 TGTGCATGATGTGGGGGGATGCACATGAGCTAAGTGAGATGGGGTGTCCAGCTA
1 TGTGCATGATGTGGGGGGATGCACATGAGCTGGGTGAGATGAGGTGTCCGGCTA
*
8646785 TGTGCATGATGTGGGGGCATGCACATGAGCTGG
1 TGTGCATGATGTGGGGGGATGCACATGAGCTGG
8646818 ATGAAATGTG
Statistics
Matches: 174, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
53 2 0.01
54 170 0.98
55 2 0.01
ACGTcount: A:0.20, C:0.14, G:0.42, T:0.24
Consensus pattern (54 bp):
TGTGCATGATGTGGGGGGATGCACATGAGCTGGGTGAGATGAGGTGTCCGGCTA
Found at i:8652536 original size:19 final size:19
Alignment explanation
Indices: 8652509--8652546 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8652499 CCATTTGACT
8652509 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
8652528 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
8652547 GTTAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:8656013 original size:42 final size:42
Alignment explanation
Indices: 8655958--8656170 Score: 266
Period size: 42 Copynumber: 5.0 Consensus size: 42
8655948 TGTTGATGTA
*
8655958 GACCCGGCTATGTGCGAGTAGGAGTGCGCATACA-CCAATGAT
1 GACCCGGCTATGTGCGAGTAGGAGTGCGCATA-AGCCGATGAT
* * *
8656000 GACCTGGCTATGTGCGAGTAGGAGTGTGCATACGCCGATGAT
1 GACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
* *
8656042 GACCCGGTTATGTGCGAGTAGGAGTGTGCATAAGCCGATGAT
1 GACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
* *
8656084 GACCTGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGATGAT
1 GACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
* * * * * * *
8656126 GACCCAGCCATGTACGAGTGGGGAGTGCACATGAGCTGATGAT
1 GACCCGGCTATGTGCGAGT-AGGAGTGCGCATAAGCCGATGAT
8656169 GA
1 GA
8656171 TGGGATGGTG
Statistics
Matches: 151, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
42 129 0.85
43 22 0.15
ACGTcount: A:0.24, C:0.20, G:0.35, T:0.21
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
Found at i:8659446 original size:38 final size:38
Alignment explanation
Indices: 8659399--8659516 Score: 146
Period size: 38 Copynumber: 3.1 Consensus size: 38
8659389 ACACATGATG
* *
8659399 ATGATGATGATATTGAAATGTGCGAGTAAGGATAGCGC
1 ATGATGATGATATTGAAATGTGCGAGTAAGGAGAGCAC
* *
8659437 ATGATGATGATATGGAAATGTGTGAGTAAGGAGAGCAC
1 ATGATGATGATATTGAAATGTGCGAGTAAGGAGAGCAC
*** * * *
8659475 ATGATGATGATATTGCCTTGTGCGTGTAGGGAGTGCAC
1 ATGATGATGATATTGAAATGTGCGAGTAAGGAGAGCAC
8659513 ATGA
1 ATGA
8659517 GCTGAGTCAG
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 68 1.00
ACGTcount: A:0.31, C:0.08, G:0.33, T:0.27
Consensus pattern (38 bp):
ATGATGATGATATTGAAATGTGCGAGTAAGGAGAGCAC
Found at i:8660416 original size:26 final size:24
Alignment explanation
Indices: 8660374--8660429 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
8660364 AGTATAGTAT
* *
8660374 TGAAATACTTGTTGTTAAGAATTA
1 TGAAATACTTGTAGTTAAGAATGA
*
8660398 TGAAATACAGTTGTAGTTATGAATGA
1 TGAAATAC--TTGTAGTTAAGAATGA
8660424 TGAAAT
1 TGAAAT
8660430 CGATGAATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 8 0.30
26 19 0.70
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.38
Consensus pattern (24 bp):
TGAAATACTTGTAGTTAAGAATGA
Found at i:8675702 original size:39 final size:39
Alignment explanation
Indices: 8675648--8675722 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
8675638 TGCAATCCCC
* *
8675648 ACATCACGCACATAGCTGGAGTCATTGTGTGTATCCTTT
1 ACATCACGCACATAGCTGGAGTCATCGTGTGCATCCTTT
*
8675687 ACATCGCGCACATAGCTGGAGTCATCGTGTGCATCC
1 ACATCACGCACATAGCTGGAGTCATCGTGTGCATCC
8675723 CCCACANNNN
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (39 bp):
ACATCACGCACATAGCTGGAGTCATCGTGTGCATCCTTT
Found at i:8677853 original size:72 final size:73
Alignment explanation
Indices: 8677694--8677879 Score: 234
Period size: 72 Copynumber: 2.6 Consensus size: 73
8677684 CAGAAAGCTC
* * * ***
8677694 TTAGTTGACTAACT-TTCTTCTTGGTGGACTAAGTTGGTTCTGTCTTCTGGTCTCAGATTCTTGC
1 TTAGTCGACTAACTCAT-TTCTTGGTCGACTAAGTTGGTTCTGTCTTAAAGTCTCAGATTCTTGC
8677758 AAAGAGCAT
65 AAAGAGCAT
8677767 TTAGTCGACTAACTCATTTCTTGGTCGACTAAGTTGGTTCTGTCTTAAAGTCT-AGATT-TTGGC
1 TTAGTCGACTAACTCATTTCTTGGTCGACTAAGTTGGTTCTGTCTTAAAGTCTCAGATTCTT-GC
*
8677830 AAAGAGTAT
65 AAAGAGCAT
** * *
8677839 TTAGTCGACTAACTCACATATTGGTCGACTAAGTCGGTTCT
1 TTAGTCGACTAACTCATTTCTTGGTCGACTAAGTTGGTTCT
8677880 ATTTCTCAAT
Statistics
Matches: 100, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
71 2 0.02
72 52 0.52
73 45 0.45
74 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.39
Consensus pattern (73 bp):
TTAGTCGACTAACTCATTTCTTGGTCGACTAAGTTGGTTCTGTCTTAAAGTCTCAGATTCTTGCA
AAGAGCAT
Found at i:8685203 original size:58 final size:57
Alignment explanation
Indices: 8685113--8685232 Score: 204
Period size: 58 Copynumber: 2.1 Consensus size: 57
8685103 CATAATCATC
* *
8685113 CAAAGTAGTGTGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCTATGCAATG
1 CAAAGTAGTATACATGTGATAGATTTATTTTATGCAATTTAATAAATGCTATGC-ATG
*
8685171 CAAAGTAGTATACATGTGATAGATTTATTTTATGCGATTTAATAAATGCTATGCATG
1 CAAAGTAGTATACATGTGATAGATTTATTTTATGCAATTTAATAAATGCTATGCATG
8685228 CAAAG
1 CAAAG
8685233 ATGAGACCCT
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
57 8 0.14
58 51 0.86
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (57 bp):
CAAAGTAGTATACATGTGATAGATTTATTTTATGCAATTTAATAAATGCTATGCATG
Found at i:8722546 original size:38 final size:40
Alignment explanation
Indices: 8722503--8722600 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 40
8722493 CGTGTGCATG
* *
8722503 ATGTGGGGGGATGTACATGATAGCAT-TGAT-TGTGCACA
1 ATGTGGGGGGATGCACATGATAGCATCGGATATGTGCACA
* * ** *
8722541 ATGTGGGGGGATGCACACGATGGTGTCGGATATGTGCACG
1 ATGTGGGGGGATGCACATGATAGCATCGGATATGTGCACA
8722581 ATGTGGGGGGATGCACATGA
1 ATGTGGGGGGATGCACATGA
8722601 GCTGGGTGTG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
38 21 0.42
39 3 0.06
40 26 0.52
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.24
Consensus pattern (40 bp):
ATGTGGGGGGATGCACATGATAGCATCGGATATGTGCACA
Found at i:8729935 original size:35 final size:35
Alignment explanation
Indices: 8729854--8729969 Score: 119
Period size: 34 Copynumber: 3.3 Consensus size: 35
8729844 GTCGTCGGCC
* * *
8729854 AAGGGAGAAAGAGAGAGGCTTTGTGCTAC-AATTTTTA
1 AAGGGAAAAAGAAAGA-G-TTT-TGCTACAAATTTTGA
*
8729891 AGAGGGAAAAAGAAAGAGTTTTGCTGCAAATTTTGA
1 A-AGGGAAAAAGAAAGAGTTTTGCTACAAATTTTGA
*
8729927 AAGGG-AAAAGAAAGAGTTTTGCTATAAATTTTGA
1 AAGGGAAAAAGAAAGAGTTTTGCTACAAATTTTGA
* *
8729961 GAGAGAAAA
1 AAGGGAAAA
8729970 CAAGGGCTAG
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
34 30 0.44
35 12 0.18
36 11 0.16
37 2 0.03
38 13 0.19
ACGTcount: A:0.42, C:0.05, G:0.28, T:0.25
Consensus pattern (35 bp):
AAGGGAAAAAGAAAGAGTTTTGCTACAAATTTTGA
Found at i:8730104 original size:35 final size:34
Alignment explanation
Indices: 8730025--8730104 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 34
8730015 GAGTTGCCGG
* * * *
8730025 TTTTGAGGGTGAGATGAGCAGCTTTGGCTGCTGA
1 TTTTGAGGTTGAAAGGAGCAGCTTTGGCTACTGA
8730059 TTTTGAAGGTTGAAAGGAGCAGCTTTGGCTACTGA
1 TTTTG-AGGTTGAAAGGAGCAGCTTTGGCTACTGA
8730094 TTTTTGAGGTT
1 -TTTTGAGGTT
8730105 TTGGTTGCAG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
34 5 0.12
35 30 0.75
36 5 0.12
ACGTcount: A:0.20, C:0.10, G:0.34, T:0.36
Consensus pattern (34 bp):
TTTTGAGGTTGAAAGGAGCAGCTTTGGCTACTGA
Found at i:8730172 original size:91 final size:91
Alignment explanation
Indices: 8730025--8730195 Score: 227
Period size: 91 Copynumber: 1.9 Consensus size: 91
8730015 GAGTTGCCGG
* * * * *
8730025 TTTTGAGGGTGAGATGAGCAGCTTTGGCTGCTGATTTTGAAGGTTGAAAGGAGCAGCTTTGGCTA
1 TTTTGAGGGTGAAATAAGCAGCTTTAGCTGCTGATTTTGAAGGCTGAAAGGAGCAGCTTCGGCTA
8730090 CTGATTTTTGAGGTTTTGGTTGCAGA
66 CTGATTTTTGAGGTTTTGGTTGCAGA
* * * **
8730116 TTTTGAGGGTGAAATAAGTAGCTTTAGCTGTTGATTTTTGAA-GCTGAGATTAGCAGCTTCGGCT
1 TTTTGAGGGTGAAATAAGCAGCTTTAGCTGCTGA-TTTTGAAGGCTGAAAGGAGCAGCTTCGGCT
*
8730180 ACTGATTTTTGTGGTT
65 ACTGATTTTTGAGGTT
8730196 GAAAGGAGCA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
91 61 0.90
92 7 0.10
ACGTcount: A:0.20, C:0.10, G:0.31, T:0.39
Consensus pattern (91 bp):
TTTTGAGGGTGAAATAAGCAGCTTTAGCTGCTGATTTTGAAGGCTGAAAGGAGCAGCTTCGGCTA
CTGATTTTTGAGGTTTTGGTTGCAGA
Found at i:8735625 original size:34 final size:35
Alignment explanation
Indices: 8735587--8735656 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
8735577 GAAGGCTTGA
* * * *
8735587 GCTGTCGATTTT-GAGGGTGAGATGAGTAGCTTTG
1 GCTGTCGATTTTAAAGGCTGAAATGAGCAGCTTTG
*
8735621 GCTGTTGATTTTAAAGGCTGAAATGAGCAGCTTTG
1 GCTGTCGATTTTAAAGGCTGAAATGAGCAGCTTTG
8735656 G
1 G
8735657 ATGCTAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
34 11 0.37
35 19 0.63
ACGTcount: A:0.21, C:0.10, G:0.34, T:0.34
Consensus pattern (35 bp):
GCTGTCGATTTTAAAGGCTGAAATGAGCAGCTTTG
Found at i:8735721 original size:34 final size:34
Alignment explanation
Indices: 8735674--8735758 Score: 116
Period size: 35 Copynumber: 2.5 Consensus size: 34
8735664 TTTTTAAGGT
* * *
8735674 TTTGGTTGTTGATTTTGAGGGTGAAATAAATAGC
1 TTTGGCTGCTGATTTTGAGGCTGAAATAAATAGC
* *
8735708 TTTGGCTGCTGATTTTTGAGGCTGAAATGAGTAGC
1 TTTGGCTGCTGA-TTTTGAGGCTGAAATAAATAGC
8735743 TTTGGCTGCTGATTTT
1 TTTGGCTGCTGATTTT
8735759 TGTGGTTGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
34 14 0.31
35 31 0.69
ACGTcount: A:0.20, C:0.08, G:0.29, T:0.42
Consensus pattern (34 bp):
TTTGGCTGCTGATTTTGAGGCTGAAATAAATAGC
Found at i:8735723 original size:56 final size:57
Alignment explanation
Indices: 8735617--8735724 Score: 137
Period size: 56 Copynumber: 1.9 Consensus size: 57
8735607 GATGAGTAGC
* *
8735617 TTTGGCTGTTGATTTTAAAGGCTGAAATGAGCAGCTTTGGATGCTAATTTTTAAGGT
1 TTTGGCTGTTGATTTTAAAGGCTGAAATAAACAGCTTTGGATGCTAATTTTTAAGGT
* * * * * *
8735674 TTTGGTTGTTGATTTT-GAGGGTGAAATAAATAGCTTTGGCTGCTGATTTTT
1 TTTGGCTGTTGATTTTAAAGGCTGAAATAAACAGCTTTGGATGCTAATTTTT
8735725 GAGGCTGAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
56 28 0.65
57 15 0.35
ACGTcount: A:0.22, C:0.07, G:0.27, T:0.44
Consensus pattern (57 bp):
TTTGGCTGTTGATTTTAAAGGCTGAAATAAACAGCTTTGGATGCTAATTTTTAAGGT
Found at i:8735734 original size:35 final size:35
Alignment explanation
Indices: 8735686--8735769 Score: 123
Period size: 35 Copynumber: 2.4 Consensus size: 35
8735676 TGGTTGTTGA
*
8735686 TTTTGAGGGTGAAATAAATAGCTTTGGCTGCTGAT
1 TTTTGAGGCTGAAATAAATAGCTTTGGCTGCTGAT
* *
8735721 TTTTGAGGCTGAAATGAGTAGCTTTGGCTGCTGAT
1 TTTTGAGGCTGAAATAAATAGCTTTGGCTGCTGAT
* *
8735756 TTTTGTGGTTGAAA
1 TTTTGAGGCTGAAA
8735770 GAAGTAGAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.23, C:0.08, G:0.30, T:0.39
Consensus pattern (35 bp):
TTTTGAGGCTGAAATAAATAGCTTTGGCTGCTGAT
Found at i:8735758 original size:91 final size:91
Alignment explanation
Indices: 8735593--8735759 Score: 253
Period size: 91 Copynumber: 1.8 Consensus size: 91
8735583 TTGAGCTGTC
* * * *
8735593 GATTTTGAGGGTGAGATGAGTAGCTTTGGCTGTTGATTTTAAAGGCTGAAATGAGCAGCTTTGGA
1 GATTTTGAGGGTGAAATAAATAGCTTTGGCTGCTGATTTTAAAGGCTGAAATGAGCAGCTTTGGA
8735658 TGCTAATTTTTAAGGTTTTGGTTGTT
66 TGCTAATTTTTAAGGTTTTGGTTGTT
** * *
8735684 GATTTTGAGGGTGAAATAAATAGCTTTGGCTGCTGATTTTTGAGGCTGAAATGAGTAGCTTTGGC
1 GATTTTGAGGGTGAAATAAATAGCTTTGGCTGCTGATTTTAAAGGCTGAAATGAGCAGCTTTGGA
*
8735749 TGCTGATTTTT
66 TGCTAATTTTT
8735760 GTGGTTGAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
91 67 1.00
ACGTcount: A:0.22, C:0.08, G:0.30, T:0.40
Consensus pattern (91 bp):
GATTTTGAGGGTGAAATAAATAGCTTTGGCTGCTGATTTTAAAGGCTGAAATGAGCAGCTTTGGA
TGCTAATTTTTAAGGTTTTGGTTGTT
Found at i:8750489 original size:43 final size:43
Alignment explanation
Indices: 8750425--8750590 Score: 176
Period size: 43 Copynumber: 3.9 Consensus size: 43
8750415 CCCATCATCA
* * * **
8750425 TCATCACCAGCTCATGAGCACTCCCTACTCGAACATGGCTGGG
1 TCATCACCAGGTTATGCGCACTCCCTACTCGAACATAACTGGG
* * *
8750468 TCATCACCGGGTTATGCGCACTCCCTACTCGCACATAATTGGG
1 TCATCACCAGGTTATGCGCACTCCCTACTCGAACATAACTGGG
*
8750511 TCATCACCAGGTTATGGGCACTCCCTACTCGAACATAA-TCGGG
1 TCATCACCAGGTTATGCGCACTCCCTACTCGAACATAACT-GGG
* * *
8750554 TCATC-CTCTA-CTTATGCGCACTCCATACTCGCACATA
1 TCATCAC-C-AGGTTATGCGCACTCCCTACTCGAACATA
8750591 GCCGAGTCAA
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 2 0.02
43 102 0.97
44 1 0.01
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (43 bp):
TCATCACCAGGTTATGCGCACTCCCTACTCGAACATAACTGGG
Found at i:8750570 original size:86 final size:86
Alignment explanation
Indices: 8750425--8750590 Score: 219
Period size: 86 Copynumber: 1.9 Consensus size: 86
8750415 CCCATCATCA
* **
8750425 TCATCACCAGCTCATGAGCACTCCCTACTCGAACATGGCTGGGTCATCACCGGGTTATGCGCACT
1 TCATCACCAGCTCATGAGCACTCCCTACTCGAACATAGCTGGGTCATCACCGACTTATGCGCACT
*
8750490 CCCTACTCGCACATAATTGGG
66 CCATACTCGCACATAATTGGG
* * * * *
8750511 TCATCACCAGGTTATGGGCACTCCCTACTCGAACATA-ATCGGGTCATC-CTCTACTTATGCGCA
1 TCATCACCAGCTCATGAGCACTCCCTACTCGAACATAGCT-GGGTCATCAC-CGACTTATGCGCA
8750574 CTCCATACTCGCACATA
64 CTCCATACTCGCACATA
8750591 GCCGAGTCAA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 2 0.03
86 67 0.97
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (86 bp):
TCATCACCAGCTCATGAGCACTCCCTACTCGAACATAGCTGGGTCATCACCGACTTATGCGCACT
CCATACTCGCACATAATTGGG
Found at i:8753565 original size:42 final size:43
Alignment explanation
Indices: 8753439--8753567 Score: 172
Period size: 43 Copynumber: 3.0 Consensus size: 43
8753429 CCCTCCATAC
* *
8753439 TCAGCTCATGTGCACTCCC-TACTCGCACATGGCCAGGTCATCA
1 TCAGCTCATGTGCACTCCCATAC-CGCACATAGCTAGGTCATCA
* * *
8753482 TCAGCTCATGTGCACTTCTACACCGCACATAGCTAGGTCATCA
1 TCAGCTCATGTGCACTCCCATACCGCACATAGCTAGGTCATCA
* *
8753525 TCAGCTCATGTGCACTCCCATA-AGCACATAGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCCATACCGCACATAGCTAGGTCATCA
8753567 T
1 T
8753568 TATCACACAA
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
42 19 0.25
43 54 0.72
44 2 0.03
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (43 bp):
TCAGCTCATGTGCACTCCCATACCGCACATAGCTAGGTCATCA
Found at i:8768724 original size:2 final size:2
Alignment explanation
Indices: 8768717--8768747 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8768707 TCATCTAGGT
8768717 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
8768748 ATTAANCTAG
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:8768781 original size:2 final size:2
Alignment explanation
Indices: 8768774--8768806 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8768764 TCATCTAGGT
8768774 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
8768807 ATAATTTAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:8768785 original size:57 final size:56
Alignment explanation
Indices: 8768697--8768804 Score: 207
Period size: 57 Copynumber: 1.9 Consensus size: 56
8768687 TTTAACTAGC
8768697 CTAGTCACATTCATCTAGGTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATTAA
1 CTAGTCACATTCATCTAGGTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATTAA
8768753 NCTAGTCACATTCATCTAGGTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGT
1 -CTAGTCACATTCATCTAGGTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGT
8768805 GTATAATTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.12, C:0.09, G:0.33, T:0.44
Consensus pattern (56 bp):
CTAGTCACATTCATCTAGGTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATTAA
Found at i:8770040 original size:22 final size:21
Alignment explanation
Indices: 8769997--8770040 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
8769987 GCTGTAAATA
*
8769997 TCATTTTTTAGCAGCTTCTTC
1 TCATTTTTTAGCAGCTTATTC
*
8770018 TCATTTTTCTAGCAGTTTATTC
1 TCATTTTT-TAGCAGCTTATTC
8770040 T
1 T
8770041 TCTTCTTCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.16, C:0.20, G:0.09, T:0.55
Consensus pattern (21 bp):
TCATTTTTTAGCAGCTTATTC
Found at i:8770946 original size:35 final size:36
Alignment explanation
Indices: 8770907--8771004 Score: 108
Period size: 38 Copynumber: 2.6 Consensus size: 36
8770897 TGATGTGGGC
* *
8770907 GGGAGTGCGTG-TGATGATATTGAAATGTGCAAGTA
1 GGGAGTGCATGATGATGATATTGAAATGTACAAGTA
**
8770942 GGGAGTGCACATGATGATGATATTGAAATGTACGCGTA
1 GGGAGTG--CATGATGATGATATTGAAATGTACAAGTA
*
8770980 GGGAGTGCACATAATGATGATATTG
1 GGGAGTG--CATGATGATGATATTG
8771005 CCTTGTGTGT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
35 7 0.13
37 3 0.05
38 45 0.82
ACGTcount: A:0.31, C:0.08, G:0.34, T:0.28
Consensus pattern (36 bp):
GGGAGTGCATGATGATGATATTGAAATGTACAAGTA
Found at i:8770969 original size:38 final size:38
Alignment explanation
Indices: 8770918--8771031 Score: 147
Period size: 38 Copynumber: 3.0 Consensus size: 38
8770908 GGAGTGCGTG
*
8770918 TGATGATATTGAAATGTGCAAGTAGGGAGTGCACATGA
1 TGATGATATTGAAATGTGCGAGTAGGGAGTGCACATGA
* * *
8770956 TGATGATATTGAAATGTACGCGTAGGGAGTGCACATAA
1 TGATGATATTGAAATGTGCGAGTAGGGAGTGCACATGA
*** * *
8770994 TGATGATATTGCCTTGTGTGTGTAGGGAGTGCACATGA
1 TGATGATATTGAAATGTGCGAGTAGGGAGTGCACATGA
8771032 GCTGAGTGTG
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.30, C:0.10, G:0.32, T:0.29
Consensus pattern (38 bp):
TGATGATATTGAAATGTGCGAGTAGGGAGTGCACATGA
Found at i:8774932 original size:22 final size:23
Alignment explanation
Indices: 8774874--8774932 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
8774864 TGAGAGTTTC
*
8774874 TCGCTACAGCGAGAATCCATTTT
1 TCGCTGCAGCGAGAATCCATTTT
** *
8774897 T-GCTGCAGTAAGAATTC-TTTT
1 TCGCTGCAGCGAGAATCCATTTT
8774918 TCGCTGCAGCGAGAA
1 TCGCTGCAGCGAGAA
8774933 ACATGGCTGG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 5 0.17
22 23 0.79
23 1 0.03
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (23 bp):
TCGCTGCAGCGAGAATCCATTTT
Found at i:8775226 original size:43 final size:43
Alignment explanation
Indices: 8775172--8775314 Score: 153
Period size: 43 Copynumber: 3.3 Consensus size: 43
8775162 TCATACATTG
* * ** * *
8775172 TCATGGGCACTCTCTACTCGTACATGGCCGAGTCATCATCGGC
1 TCATGCGCACTCCCTACTCACACATAGCCGAGTCATCATCAGC
*
8775215 TTATGCGCACTCCCTACTCACACATAGCCGAGTCATCATCAGC
1 TCATGCGCACTCCCTACTCACACATAGCCGAGTCATCATCAGC
* ** * *
8775258 TCATGTGCACTCCC-ACATTGCACATAGCTGGGTCATCATCAGC
1 TCATGCGCACTCCCTAC-TCACACATAGCCGAGTCATCATCAGC
*
8775301 TCATGTGCACTCCC
1 TCATGCGCACTCCC
8775315 ACATCGCACA
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 2 0.02
43 84 0.98
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.25
Consensus pattern (43 bp):
TCATGCGCACTCCCTACTCACACATAGCCGAGTCATCATCAGC
Found at i:8775315 original size:43 final size:43
Alignment explanation
Indices: 8775203--8775339 Score: 186
Period size: 43 Copynumber: 3.2 Consensus size: 43
8775193 ACATGGCCGA
* * * * * *
8775203 GTCATCATCGGCTTATGCGCACTCCCTAC-TCACACATAGCCGA
1 GTCATCATCAGCTCATGTGCACTCCC-ACATCGCACATAGCTGG
*
8775246 GTCATCATCAGCTCATGTGCACTCCCACATTGCACATAGCTGG
1 GTCATCATCAGCTCATGTGCACTCCCACATCGCACATAGCTGG
*
8775289 GTCATCATCAGCTCATGTGCACTCCCACATCGCACATAACTGG
1 GTCATCATCAGCTCATGTGCACTCCCACATCGCACATAGCTGG
8775332 GTCATCAT
1 GTCATCAT
8775340 TACCACACAA
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
42 2 0.02
43 82 0.98
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.25
Consensus pattern (43 bp):
GTCATCATCAGCTCATGTGCACTCCCACATCGCACATAGCTGG
Found at i:8778531 original size:35 final size:35
Alignment explanation
Indices: 8778446--8778531 Score: 120
Period size: 35 Copynumber: 2.5 Consensus size: 35
8778436 CACTCAGCCA
* * *
8778446 ATGTGCACTCCCTACACGCACAAGGTAATATCATC
1 ATGTGCACTCCCTACTCGCACAACGTAACATCATC
*
8778481 ATGTGCACTCCCTACTCGCAC-ACTTCAACATCATC
1 ATGTGCACTCCCTACTCGCACAACGT-AACATCATC
8778516 ATGTGCACTCCCTACT
1 ATGTGCACTCCCTACT
8778532 TGTCATGACT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 2 0.04
35 44 0.96
ACGTcount: A:0.27, C:0.36, G:0.12, T:0.26
Consensus pattern (35 bp):
ATGTGCACTCCCTACTCGCACAACGTAACATCATC
Found at i:8780717 original size:20 final size:21
Alignment explanation
Indices: 8780692--8780736 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
8780682 AATCTTACCT
8780692 TTTTCAC-TTGTTTCC-TTGAA
1 TTTTCACATT-TTTCCTTTGAA
8780712 TTTTCACATTTTTCCTTTGAA
1 TTTTCACATTTTTCCTTTGAA
8780733 TTTT
1 TTTT
8780737 TCCACCTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.16, C:0.18, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTTCACATTTTTCCTTTGAA
Found at i:8786852 original size:12 final size:13
Alignment explanation
Indices: 8786825--8786858 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
8786815 CACAATATTG
8786825 TTTCTATTTTTCT
1 TTTCTATTTTTCT
*
8786838 TTTCTATTTTTTT
1 TTTCTATTTTTCT
8786851 TTTC-ATTT
1 TTTCTATTT
8786859 CATAGGATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTCTATTTTTCT
Found at i:8789757 original size:21 final size:21
Alignment explanation
Indices: 8789733--8789772 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8789723 ATCGAAGACG
*
8789733 ACAACAGAAGAAACGGAAGTA
1 ACAAAAGAAGAAACGGAAGTA
**
8789754 ACAAAATCAGAAACGGAAG
1 ACAAAAGAAGAAACGGAAG
8789773 GGAAATAGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.15, G:0.23, T:0.05
Consensus pattern (21 bp):
ACAAAAGAAGAAACGGAAGTA
Found at i:8796748 original size:157 final size:156
Alignment explanation
Indices: 8796260--8796989 Score: 986
Period size: 157 Copynumber: 4.7 Consensus size: 156
8796250 TTGTGTGTAA
* * * * * * *
8796260 ATTAGAACATTGTCCAGAGTTGTTACATAGCATGCATGTAACATCTTTAACGCAAATGGCGTGTA
1 ATTAGAACATTGCCCAAAGTTGTTACA-CGCATGCATGTAACATCTCTAATGCACATGGCATGTA
* * * **
8796325 AAAAATATATTGAAATACCATGTTTTAGTACATGGGTTGTAGTAAAA-TT-TGTGTACATAACTT
65 AAAAATATATTGAAATAACATGTTTTAGTACATGGCTTGTAATAAAATTTGTGTGTACATAAGGT
* * *
8796388 GTGGTAAAC-TAGCGTGTAGCAAAATC
130 GTAGTAAACATGGCATGTAGCAAAATC
* * *
8796414 ATTAGAACATTGCCTAGAGTTGTTACACGGCATACATGTAACATCTCTAATGCACATGG-ACTGT
1 ATTAGAACATTGCCCAAAGTTGTTACAC-GCATGCATGTAACATCTCTAATGCACATGGCA-TGT
*
8796478 AAAAAATATATTGAAATAAC-TGTTTTAGTACATAGCTTGTAATAAAATTTGTGTGTACATAAGG
64 AAAAAATATATTGAAATAACATGTTTTAGTACATGGCTTGTAATAAAATTTGTGTGTACATAAGG
* * *
8796542 TATAGTAAACATGGCAAGTAACAAAATC
129 TGTAGTAAACATGGCATGTAGCAAAATC
* * *
8796570 ATTAGAACATTGCCTATAGTTGTTACATGTCATGCATGTAACATCTCTAATGCACATGGCATGTA
1 ATTAGAACATTGCCCAAAGTTGTTACACG-CATGCATGTAACATCTCTAATGCACATGGCATGTA
* *
8796635 AAAAATATATTGAAATAACATGTTTTAGTACATGGCTTGTAGTAAAATTTGTGTGTACATGAGGT
65 AAAAATATATTGAAATAACATGTTTTAGTACATGGCTTGTAATAAAATTTGTGTGTACATAAGGT
* *
8796700 GTTGTAAACATGGCGTGTAGCAAAATC
130 GTAGTAAACATGGCATGTAGCAAAATC
* * *
8796727 ATTAGAACATTGCCCAAAGTTGTTACACGACATGCGTGTAACATCTTTAATGCATATGGCATGTA
1 ATTAGAACATTGCCCAAAGTTGTTACACG-CATGCATGTAACATCTCTAATGCACATGGCATGTA
* * * *
8796792 AAAAATATATTGAAATAACATGTATTAGTACTTGGCTTGTAATAAAATTTGTCTGTACATGAGGT
65 AAAAATATATTGAAATAACATGTTTTAGTACATGGCTTGTAATAAAATTTGTGTGTACATAAGGT
* *
8796857 GTAGTAAACATGGCACGCAGCAAAATC
130 GTAGTAAACATGGCATGTAGCAAAATC
* *
8796884 ATTAGAACATTG-CCAAAGTTGTTACACGCCATGCGTGTAACATCTCTAATACACATGGCATGTA
1 ATTAGAACATTGCCCAAAGTTGTTACACG-CATGCATGTAACATCTCTAATGCACATGGCATGTA
* *
8796948 AAAAATATATTGAAATAACATGTTTTAGTATATGGCGTGTAA
65 AAAAATATATTGAAATAACATGTTTTAGTACATGGCTTGTAA
8796990 CATTTTTTTT
Statistics
Matches: 514, Mismatches: 54, Indels: 14
0.88 0.09 0.02
Matches are distributed among these distances:
153 24 0.05
154 75 0.15
155 20 0.04
156 176 0.34
157 219 0.43
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (156 bp):
ATTAGAACATTGCCCAAAGTTGTTACACGCATGCATGTAACATCTCTAATGCACATGGCATGTAA
AAAATATATTGAAATAACATGTTTTAGTACATGGCTTGTAATAAAATTTGTGTGTACATAAGGTG
TAGTAAACATGGCATGTAGCAAAATC
Found at i:8796906 original size:313 final size:308
Alignment explanation
Indices: 8796260--8796988 Score: 1055
Period size: 313 Copynumber: 2.3 Consensus size: 308
8796250 TTGTGTGTAA
* * * * *
8796260 ATTAGAACATTGTCCAGAGTTGTTACATAGCATGCATGTAACATCTTTAACGCAAATGGCGTGTA
1 ATTAGAACATTG-CCAAAGTTGTTACAT-GCATGCATGTAACATCTCTAATGCACATGGCATGTA
* * *
8796325 AAAAATATATTGAAATACCATGTTTTAGTACATGGGTTGTAGTAAAATTTGTGTACATAACTTGT
64 AAAAATATATTGAAATAACATGTTTTAGTACATGGCTTGTAGTAAAATTTGTGTACATAACGTGT
* * *
8796390 GGTAAACTAGCGTGTAGCAAAATCATTAGAACATTGCCTAGAGTTGTTACACGGCATACATGTAA
129 GGTAAACTAGCGTGTAGCAAAATCATTAGAACATTGCCCAAAGTTGTTACACGACATACATGTAA
*
8796455 CATCTCTAATGCACATGGACTGTAAAAAATATATTGAAATAACTGTTTTAGTACATAGCTTGTAA
194 CATCTCTAATGCACATGGACTGTAAAAAATATATTGAAATAACTGTATTAGTACATAGCTTGTAA
* *
8796520 TAAAATTTGTGTGTACATAAGGTATAGTAAACATGGCAAGTAACAAAATC
259 TAAAATTTGTCTGTACATAAGGTATAGTAAACATGGCAAGCAACAAAATC
*
8796570 ATTAGAACATTGCCTATAGTTGTTACATGTCATGCATGTAACATCTCTAATGCACATGGCATGTA
1 ATTAGAACATTGCC-AAAGTTGTTACATG-CATGCATGTAACATCTCTAATGCACATGGCATGTA
* *
8796635 AAAAATATATTGAAATAACATGTTTTAGTACATGGCTTGTAGTAAAATTTGTGTGTACATGAGGT
64 AAAAATATATTGAAATAACATGTTTTAGTACATGGCTTGTAGTAAAA-TT-TGTGTACATAACGT
* * * *
8796700 GTTGTAAACATGGCGTGTAGCAAAATCATTAGAACATTGCCCAAAGTTGTTACACGACATGCGTG
127 GTGGTAAAC-TAGCGTGTAGCAAAATCATTAGAACATTGCCCAAAGTTGTTACACGACATACATG
* * * *
8796765 TAACATCTTTAATGCATATGG-CATGTAAAAAATATATTGAAATAACATGTATTAGTACTTGGCT
191 TAACATCTCTAATGCACATGGAC-TGTAAAAAATATATTGAAATAAC-TGTATTAGTACATAGCT
* * * *
8796829 TGTAATAAAATTTGTCTGTACATGAGGTGTAGTAAACATGGCACGCAGCAAAATC
254 TGTAATAAAATTTGTCTGTACATAAGGTATAGTAAACATGGCAAGCAACAAAATC
* * *
8796884 ATTAGAACATTGCCAAAGTTGTTACACGCCATGCGTGTAACATCTCTAATACACATGGCATGTAA
1 ATTAGAACATTGCCAAAGTTGTTACATG-CATGCATGTAACATCTCTAATGCACATGGCATGTAA
* *
8796949 AAAATATATTGAAATAACATGTTTTAGTATATGGCGTGTA
65 AAAATATATTGAAATAACATGTTTTAGTACATGGCTTGTA
8796989 ACATTTTTTT
Statistics
Matches: 377, Mismatches: 35, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
309 3 0.01
310 100 0.27
311 2 0.01
312 20 0.05
313 175 0.46
314 77 0.20
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (308 bp):
ATTAGAACATTGCCAAAGTTGTTACATGCATGCATGTAACATCTCTAATGCACATGGCATGTAAA
AAATATATTGAAATAACATGTTTTAGTACATGGCTTGTAGTAAAATTTGTGTACATAACGTGTGG
TAAACTAGCGTGTAGCAAAATCATTAGAACATTGCCCAAAGTTGTTACACGACATACATGTAACA
TCTCTAATGCACATGGACTGTAAAAAATATATTGAAATAACTGTATTAGTACATAGCTTGTAATA
AAATTTGTCTGTACATAAGGTATAGTAAACATGGCAAGCAACAAAATC
Found at i:8804077 original size:2 final size:2
Alignment explanation
Indices: 8804070--8804105 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8804060 AAACCATACC
8804070 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
8804106 GGTATAGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8815623 original size:71 final size:71
Alignment explanation
Indices: 8815522--8815680 Score: 214
Period size: 71 Copynumber: 2.2 Consensus size: 71
8815512 TGTTTACATC
* *
8815522 TTGTGACATGCCATTTCGTTGCAGTATTATATTG-CTACACGCTACGTTT-CTTAGATGTCATTT
1 TTGTGACATGCCATTTCGTTACAGTATTATATTGTC-ACACGCCACGTTTGC-TAGATGTCATTT
8815585 ACATCTTA
64 ACATCTTA
* * * *
8815593 TTGTGATATGCCATTTCGTTACAGTCTTATATTGTCACACGCCACTTTTGCTAGATGTCGTTTAC
1 TTGTGACATGCCATTTCGTTACAGTATTATATTGTCACACGCCACGTTTGCTAGATGTCATTTAC
8815658 ATCTTA
66 ATCTTA
* *
8815664 TTGTAACAAGCCATTTC
1 TTGTGACATGCCATTTC
8815681 AAAAAGTTTT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
71 75 0.97
72 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.42
Consensus pattern (71 bp):
TTGTGACATGCCATTTCGTTACAGTATTATATTGTCACACGCCACGTTTGCTAGATGTCATTTAC
ATCTTA
Found at i:8818821 original size:71 final size:71
Alignment explanation
Indices: 8818588--8818921 Score: 336
Period size: 71 Copynumber: 4.7 Consensus size: 71
8818578 GTCGTGACAT
* * **
8818588 TTATATTGTTACACGCTAAGCTTGTTAAGATGTTGTTTACATCTTG-TGCCAC-T-CCATTTCAT
1 TTATATTGTTACACGCCACGCTTGTT-AGATGTTGTTTACATCTTGTTGTGACATGCCATTTCAT
*
8818650 TGAAGTA
65 TGAAGTC
* * * * * * ** **
8818657 TTATATTGTTACAAGCCACGCTTGATAGATGTCGTTAACATCTTATTGTAACAAACCATTT-AAA
1 TTATATTGTTACACGCCACGCTTGTTAGATGTTGTTTACATCTTGTTGTGACATGCCATTTCATT
*
8818721 AAAGTC
66 GAAGTC
* *
8818727 TTATATTGTTACACGCCACGCTTGTTAGATGTTGTTTACATTTTGTTGTGACGTGCCATTTCATT
1 TTATATTGTTACACGCCACGCTTGTTAGATGTTGTTTACATCTTGTTGTGACATGCCATTTCATT
8818792 GCAA-TC
66 G-AAGTC
* * * * * *
8818798 TTATATTGTTAAATGCCATGCTTGTTAGATGTTGTTTACATCTTGTTGAGACACGCCATTTCGTT
1 TTATATTGTTACACGCCACGCTTGTTAGATGTTGTTTACATCTTGTTGTGACATGCCATTTCATT
*
8818863 GTAGTC
66 GAAGTC
* * * * * *
8818869 TTACATTGTTACACGCCACACTTGTTAGATGTAGTTTACCTTTTATTGTGACA
1 TTATATTGTTACACGCCACGCTTGTTAGATGTTGTTTACATCTTGTTGTGACA
8818922 CGCAAACACT
Statistics
Matches: 213, Mismatches: 46, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
68 16 0.08
69 26 0.12
70 57 0.27
71 112 0.53
72 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.41
Consensus pattern (71 bp):
TTATATTGTTACACGCCACGCTTGTTAGATGTTGTTTACATCTTGTTGTGACATGCCATTTCATT
GAAGTC
Found at i:8818840 original size:141 final size:140
Alignment explanation
Indices: 8818588--8818920 Score: 370
Period size: 141 Copynumber: 2.4 Consensus size: 140
8818578 GTCGTGACAT
* * * **
8818588 TTATATTGTTACACGCTAAGCTTGTTAAGATGTTGTTTACATCTTG-TGCCACTCCATTTCATTG
1 TTATATTGTTACACGCCACGCTTGTT-AGATGTTGTTTACATTTTGTTGTGACTCCATTTCATTG
8818652 AAGTATTATATTGTTACAAGCCACGCTTGATAGATGTCGTTAACATCTTATTGTA-ACAAACCAT
65 AAGTATTATATTGTTACAAGCCACGCTTGATAGATGTCGTTAACATCTTATTG-AGACAAACCAT
8818716 TT-AAAAAAGTC
129 TTCAAAAAAGTC
8818727 TTATATTGTTACACGCCACGCTTGTTAGATGTTGTTTACATTTTGTTGTGACGTGCCATTTCATT
1 TTATATTGTTACACGCCACGCTTGTTAGATGTTGTTTACATTTTGTTGTGAC-T-CCATTTCATT
* * * * * * **
8818792 GCAA-TCTTATATTGTTA-AATGCCATGCTTGTTAGATGTTGTTTACATCTTGTTGAGACACGCC
64 G-AAGTATTATATTGTTACAA-GCCACGCTTGATAGATGTCGTTAACATCTTATTGAGACAAACC
*****
8818855 ATTTCGTTGTAGTC
127 ATTTCAAAAAAGTC
* * * * *
8818869 TTACATTGTTACACGCCACACTTGTTAGATGTAGTTTACCTTTTATTGTGAC
1 TTATATTGTTACACGCCACGCTTGTTAGATGTTGTTTACATTTTGTTGTGAC
8818921 ACGCAAACAC
Statistics
Matches: 164, Mismatches: 23, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
138 18 0.11
139 28 0.17
140 4 0.02
141 61 0.37
142 53 0.32
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (140 bp):
TTATATTGTTACACGCCACGCTTGTTAGATGTTGTTTACATTTTGTTGTGACTCCATTTCATTGA
AGTATTATATTGTTACAAGCCACGCTTGATAGATGTCGTTAACATCTTATTGAGACAAACCATTT
CAAAAAAGTC
Found at i:8819772 original size:18 final size:19
Alignment explanation
Indices: 8819749--8819788 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
8819739 CTAGTGGAGA
8819749 ATTTTA-GAATAAAATAAT
1 ATTTTATGAATAAAATAAT
8819767 ATTTTATGAATAAAATAAT
1 ATTTTATGAATAAAATAAT
8819786 ATT
1 ATT
8819789 AAAATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
ATTTTATGAATAAAATAAT
Found at i:8820729 original size:10 final size:11
Alignment explanation
Indices: 8820702--8820737 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
8820692 TATGGCCAGC
*
8820702 CAAAGCAAGAA
1 CAAAGGAAGAA
8820713 CAAAGGAAGAA
1 CAAAGGAAGAA
8820724 -AAAGGAAGAA
1 CAAAGGAAGAA
8820734 CAAA
1 CAAA
8820738 CCCTAGGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.67, C:0.11, G:0.22, T:0.00
Consensus pattern (11 bp):
CAAAGGAAGAA
Found at i:8821617 original size:19 final size:19
Alignment explanation
Indices: 8821593--8821638 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
8821583 ATTATCTAAA
8821593 GTGGTTTTTATCCGATTTT
1 GTGGTTTTTATCCGATTTT
8821612 GTGGTTTTTATCCGATTTT
1 GTGGTTTTTATCCGATTTT
*
8821631 GTGATTTT
1 GTGGTTTT
8821639 ATGGAAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.11, C:0.09, G:0.22, T:0.59
Consensus pattern (19 bp):
GTGGTTTTTATCCGATTTT
Found at i:8824248 original size:39 final size:39
Alignment explanation
Indices: 8824203--8824338 Score: 193
Period size: 39 Copynumber: 3.5 Consensus size: 39
8824193 GGTAGTGTGT
* *
8824203 GGTGTGGGAGAGCACACGTTGATGATATATGCCATGTTC
1 GGTGTGGGAGAGCACATGATGATGATATATGCCATGTTC
*
8824242 GGTGTGGGAGAGCACATGATGATGATATATGCCATG-TG
1 GGTGTGGGAGAGCACATGATGATGATATATGCCATGTTC
* * *
8824280 GGATGTGGGAGAGCACATGATGATGATATTTGCAATGTGC
1 GG-TGTGGGAGAGCACATGATGATGATATATGCCATGTTC
*
8824320 GGTGTGGGAGTGCACATGA
1 GGTGTGGGAGAGCACATGA
8824339 GGATATTAGG
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
38 3 0.03
39 82 0.94
40 2 0.02
ACGTcount: A:0.25, C:0.12, G:0.37, T:0.26
Consensus pattern (39 bp):
GGTGTGGGAGAGCACATGATGATGATATATGCCATGTTC
Found at i:8824358 original size:27 final size:27
Alignment explanation
Indices: 8824320--8824374 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
8824310 TGCAATGTGC
8824320 GGTGTGGGAGTGCACATGAGGATATTA
1 GGTGTGGGAGTGCACATGAGGATATTA
8824347 GGTGTGGGAGTGCACATGAGGATATTA
1 GGTGTGGGAGTGCACATGAGGATATTA
8824374 G
1 G
8824375 CTATGTGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.42, T:0.25
Consensus pattern (27 bp):
GGTGTGGGAGTGCACATGAGGATATTA
Found at i:8828164 original size:72 final size:73
Alignment explanation
Indices: 8828079--8828235 Score: 208
Period size: 72 Copynumber: 2.2 Consensus size: 73
8828069 CCTGAATTTT
* * *
8828079 GCTGCAGCGAGAAACTCTAGGGTGGTTGGATAAAATGCTAGCCCAAGTTTTTACTACAGTG-AAT
1 GCTGCAGCGAGAAACTCTAGAGTGGTTGGATAAAATGCTAGCCCAAGTTTTCACTACAGCGAAAT
*
8828143 TCTTTCTC
66 GCTTTCTC
* * ****
8828151 GCTGCAGCGAGAAACTCTCGAGTGGTTGGGTAAAATGCTAGCTTGCGTTTTCACTACAGCGAAAT
1 GCTGCAGCGAGAAACTCTAGAGTGGTTGGATAAAATGCTAGCCCAAGTTTTCACTACAGCGAAAT
8828216 GCTTTCTC
66 GCTTTCTC
*
8828224 GCTGCAGTGAGA
1 GCTGCAGCGAGA
8828236 TTCACTCTAC
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
72 52 0.71
73 21 0.29
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (73 bp):
GCTGCAGCGAGAAACTCTAGAGTGGTTGGATAAAATGCTAGCCCAAGTTTTCACTACAGCGAAAT
GCTTTCTC
Found at i:8832462 original size:35 final size:35
Alignment explanation
Indices: 8832319--8832462 Score: 180
Period size: 35 Copynumber: 4.1 Consensus size: 35
8832309 GGTCGTGACA
* * * * *
8832319 CATCATGTGCAATCCCTACTCGTACATTTCTATAT
1 CATCGTGTGCACTCCCTACTCGCACACTTCAATAT
* * *
8832354 CATTGTGTGCACTCCCTACTTGCACACTTTAATAT
1 CATCGTGTGCACTCCCTACTCGCACACTTCAATAT
* * *
8832389 CATCTTCTGCACTCCCTACTCGCACACTACAATAT
1 CATCGTGTGCACTCCCTACTCGCACACTTCAATAT
*
8832424 CATCGTGTGCACTCCTTACTCGCACACTTCAATAT
1 CATCGTGTGCACTCCCTACTCGCACACTTCAATAT
8832459 CATC
1 CATC
8832463 ACACGTACTC
Statistics
Matches: 91, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 91 1.00
ACGTcount: A:0.24, C:0.33, G:0.09, T:0.33
Consensus pattern (35 bp):
CATCGTGTGCACTCCCTACTCGCACACTTCAATAT
Found at i:8832764 original size:19 final size:19
Alignment explanation
Indices: 8832740--8832779 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
8832730 GAGACAAGAG
8832740 AAAATTTT-TGGAATAAAAT
1 AAAATTTTAT-GAATAAAAT
*
8832759 AAAATTTTATTAATAAAAT
1 AAAATTTTATGAATAAAAT
8832778 AA
1 AA
8832780 TATTAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
AAAATTTTATGAATAAAAT
Found at i:8833495 original size:20 final size:19
Alignment explanation
Indices: 8833453--8833501 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
8833443 ATTATGGGAG
* *
8833453 AGAGCAAAAAGAAAGCAAAA
1 AGAGC-AAAGGAAAGAAAAA
8833473 AGAGCAAAGGAAAGAAAAGA
1 AGAGCAAAGGAAAGAAAA-A
*
8833493 AGAGAAAAG
1 AGAGCAAAG
8833502 TCGAGCGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.67, C:0.06, G:0.27, T:0.00
Consensus pattern (19 bp):
AGAGCAAAGGAAAGAAAAA
Found at i:8833714 original size:22 final size:22
Alignment explanation
Indices: 8833689--8833730 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8833679 AAAAGAATGA
* *
8833689 CTTTGGCTGCTAATTTTTGAAG
1 CTTTGGCTGCCAAGTTTTGAAG
8833711 CTTTGGCTGCCAAGTTTTGA
1 CTTTGGCTGCCAAGTTTTGA
8833731 GGGAGAAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.43
Consensus pattern (22 bp):
CTTTGGCTGCCAAGTTTTGAAG
Found at i:8833795 original size:127 final size:127
Alignment explanation
Indices: 8833618--8833888 Score: 427
Period size: 127 Copynumber: 2.1 Consensus size: 127
8833608 TATTTTGGAT
* * * * *
8833618 GCTTTGGCTGTTGGTTTTGAGGGTGAGATGAGCAGCTTTAGTTGCTAATTTTTGAAGGCTGAAAA
1 GCTTTGGCTGCTGATTTTGAGGGTAAGATGAGCAGCTTTAGCTACTAATTTTTGAAGGCTGAAAA
* *
8833683 GAATGACTTTGGCTGCTAATTTTTGAAGCTTTGGCTGCCAAGTTTTGAGGGAGAAAGGAGCA
66 GAACGACTTTGGCTGCTAATTTTTGAAGCTTTGGCTGCCAAGTTTTGAGGGAAAAAGGAGCA
* * *
8833745 GCTTTGGCTGCCGATTTTGAGGGTAATATGAGCAGCTTTAGCTACTAATTTTTGAAGGCTGAAAG
1 GCTTTGGCTGCTGATTTTGAGGGTAAGATGAGCAGCTTTAGCTACTAATTTTTGAAGGCTGAAAA
* *
8833810 GAACGACTTTGGCTGCTGATTTTTGAAGCTTTGGCTGCCAAGTTTTGAGGGAAAAAGGAGTA
66 GAACGACTTTGGCTGCTAATTTTTGAAGCTTTGGCTGCCAAGTTTTGAGGGAAAAAGGAGCA
8833872 GC-TTGGCTGCTGATTTT
1 GCTTTGGCTGCTGATTTT
8833889 TTTGGAAGAA
Statistics
Matches: 131, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
126 14 0.11
127 117 0.89
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.34
Consensus pattern (127 bp):
GCTTTGGCTGCTGATTTTGAGGGTAAGATGAGCAGCTTTAGCTACTAATTTTTGAAGGCTGAAAA
GAACGACTTTGGCTGCTAATTTTTGAAGCTTTGGCTGCCAAGTTTTGAGGGAAAAAGGAGCA
Found at i:8833855 original size:22 final size:22
Alignment explanation
Indices: 8833816--8833857 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8833806 AAAGGAACGA
** *
8833816 CTTTGGCTGCTGATTTTTGAAG
1 CTTTGGCTGCCAAGTTTTGAAG
8833838 CTTTGGCTGCCAAGTTTTGA
1 CTTTGGCTGCCAAGTTTTGA
8833858 GGGAAAAAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.14, C:0.17, G:0.26, T:0.43
Consensus pattern (22 bp):
CTTTGGCTGCCAAGTTTTGAAG
Found at i:8833909 original size:34 final size:34
Alignment explanation
Indices: 8833871--8833964 Score: 100
Period size: 34 Copynumber: 2.7 Consensus size: 34
8833861 AAAAAGGAGT
8833871 AGCTTGGCTGCTGATTTTTTTGGAAGA-ATAGAGC
1 AGCTTGGCTGCTGATTTTTTTGGAAGATAT-GAGC
* ** **
8833905 AGCTTGGCTGCTAATTTTTGAGGTTGATATGAGC
1 AGCTTGGCTGCTGATTTTTTTGGAAGATATGAGC
**
8833939 AGCTTTGGCTGCTGAAATTTTTGGAA
1 AGC-TTGGCTGCTGATTTTTTTGGAA
8833965 AAAAAGTACT
Statistics
Matches: 46, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
34 29 0.63
35 17 0.37
ACGTcount: A:0.22, C:0.12, G:0.29, T:0.37
Consensus pattern (34 bp):
AGCTTGGCTGCTGATTTTTTTGGAAGATATGAGC
Found at i:8834022 original size:11 final size:12
Alignment explanation
Indices: 8834000--8834028 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
8833990 AGAGGAGAAG
8834000 AAGAAACAGAGA
1 AAGAAACAGAGA
8834012 AAGAAAC-GAGA
1 AAGAAACAGAGA
8834023 AAGAAA
1 AAGAAA
8834029 GAATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.69, C:0.07, G:0.24, T:0.00
Consensus pattern (12 bp):
AAGAAACAGAGA
Found at i:8834072 original size:25 final size:25
Alignment explanation
Indices: 8834044--8834115 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
8834034 AAAAAAAGAA
*
8834044 AAGAAAAGAGTGGGCATAGCCTAAT
1 AAGAAAAGAATGGGCATAGCCTAAT
* *
8834069 AAGAAAAGAATTGGCATGGCCTAAT
1 AAGAAAAGAATGGGCATAGCCTAAT
* *
8834094 -AG-AAAGAAATGGGAAGAGCCTA
1 AAGAAAAG-AATGGGCATAGCCTA
8834116 TGGAAAGGGC
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
23 4 0.10
24 13 0.33
25 22 0.56
ACGTcount: A:0.46, C:0.11, G:0.28, T:0.15
Consensus pattern (25 bp):
AAGAAAAGAATGGGCATAGCCTAAT
Found at i:8834114 original size:24 final size:26
Alignment explanation
Indices: 8834061--8834115 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 26
8834051 GAGTGGGCAT
* *
8834061 AGCCTAATAAGAAAAGAATTGGCATG
1 AGCCTAATAAGAAAAGAAATGGCAAG
*
8834087 -GCCTAAT-AG-AAAGAAATGGGAAG
1 AGCCTAATAAGAAAAGAAATGGCAAG
8834110 AGCCTA
1 AGCCTA
8834116 TGGAAAGGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 11 0.44
24 7 0.28
25 7 0.28
ACGTcount: A:0.45, C:0.13, G:0.25, T:0.16
Consensus pattern (26 bp):
AGCCTAATAAGAAAAGAAATGGCAAG
Found at i:8835247 original size:42 final size:42
Alignment explanation
Indices: 8835179--8835272 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
8835169 GTGATAATTA
* * * * *
8835179 TGACCCAACCATGTGCAGTGTCGGAGTGCACATGAGTTGTGC
1 TGACCCAGCCGTGTGCAATGTAGGAGTGCACATGAGCTGTGC
*
8835221 TGACCTAGCCGTGTGCAATGTAGGAGTGCACATGAGCTGTGC
1 TGACCCAGCCGTGTGCAATGTAGGAGTGCACATGAGCTGTGC
8835263 TGACCCAGCC
1 TGACCCAGCC
8835273 ATGTACGGTG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.21, C:0.26, G:0.31, T:0.22
Consensus pattern (42 bp):
TGACCCAGCCGTGTGCAATGTAGGAGTGCACATGAGCTGTGC
Found at i:8835294 original size:42 final size:42
Alignment explanation
Indices: 8835179--8835301 Score: 111
Period size: 42 Copynumber: 2.9 Consensus size: 42
8835169 GTGATAATTA
* * * * ** *
8835179 TGACCCAACCATGTGCAGTGTCGGAGTGCACATGAGTTGTGC
1 TGACCCAGCCATGTACAATGTAGGAAAGCACATGAGCTGTGC
* * * **
8835221 TGACCTAGCCGTGTGCAATGTAGGAGTGCACATGAGCTGTGC
1 TGACCCAGCCATGTACAATGTAGGAAAGCACATGAGCTGTGC
** *
8835263 TGACCCAGCCATGTACGGTGTATGAAAGCACATGAGCTG
1 TGACCCAGCCATGTACAATGTAGGAAAGCACATGAGCTG
8835302 AGACAGAGTT
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.23
Consensus pattern (42 bp):
TGACCCAGCCATGTACAATGTAGGAAAGCACATGAGCTGTGC
Found at i:8836869 original size:16 final size:16
Alignment explanation
Indices: 8836864--8836978 Score: 117
Period size: 16 Copynumber: 6.8 Consensus size: 16
8836854 AAGGAGAAAG
8836864 GAAA-GAAAGAAAGGA
1 GAAAGGAAAGAAAGGA
8836879 GAAAGGAAAGAAAGGA
1 GAAAGGAAAGAAAGGA
8836895 GAAAGGAAAGAAAGAAAGGA
1 GAAA-G---GAAAGAAAGGA
*
8836915 GAAAGGAAAAAAAGGA
1 GAAAGGAAAGAAAGGA
*
8836931 GAAAGGAAAGGAAGGA
1 GAAAGGAAAGAAAGGA
*
8836947 GAAGAAGAAAGAAAAAGAGA
1 GAA-AGGAAAG--AAAG-GA
8836967 GAAAGG-AAGAAA
1 GAAAGGAAAGAAA
8836979 AAGCTTGGTT
Statistics
Matches: 85, Mismatches: 6, Indels: 17
0.79 0.06 0.16
Matches are distributed among these distances:
15 4 0.05
16 45 0.53
17 7 0.08
18 3 0.04
19 6 0.07
20 20 0.24
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (16 bp):
GAAAGGAAAGAAAGGA
Found at i:8836890 original size:36 final size:36
Alignment explanation
Indices: 8836850--8836978 Score: 176
Period size: 36 Copynumber: 3.6 Consensus size: 36
8836840 GGTTGGTTGG
8836850 AAGAAAGGAGAAAGGAAAGAAAGAAAGGAGAAAGGA
1 AAGAAAGGAGAAAGGAAAGAAAGAAAGGAGAAAGGA
8836886 AAGAAAGGAGAAAGGAAAGAAAGAAAGGAGAAAGGA
1 AAGAAAGGAGAAAGGAAAGAAAGAAAGGAGAAAGGA
* * *
8836922 AAAAAAGGAGAAAGGAAAGGAAGGAGAAGAAGAAA-G-
1 AAGAAAGGAGAAAGGAAA-GAAAGA-AAGGAGAAAGGA
8836958 AA-AAAGAGAGAAAGG-AAGAAA
1 AAGAAAG-GAGAAAGGAAAGAAA
8836979 AAGCTTGGTT
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
34 3 0.03
35 6 0.07
36 63 0.73
37 6 0.07
38 8 0.09
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (36 bp):
AAGAAAGGAGAAAGGAAAGAAAGAAAGGAGAAAGGA
Found at i:8836933 original size:52 final size:52
Alignment explanation
Indices: 8836864--8836981 Score: 161
Period size: 52 Copynumber: 2.3 Consensus size: 52
8836854 AAGGAGAAAG
* *
8836864 GAAA-GAAAGAAAGGAGAAAGGAAAGAAAGGAGAA-AGGAAAGAAAGAA-AGGA
1 GAAAGGAAAAAAAGGAGAAAGGAAAGAAAGGAGAAGAAGAAAGAAA-AAGA-GA
*
8836915 GAAAGGAAAAAAAGGAGAAAGGAAAGGAAGGAGAAGAAGAAAGAAAAAGAGA
1 GAAAGGAAAAAAAGGAGAAAGGAAAGAAAGGAGAAGAAGAAAGAAAAAGAGA
8836967 GAAAGGAAGAAAAAG
1 GAAAGGAA-AAAAAG
8836982 CTTGGTTTTG
Statistics
Matches: 60, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
51 4 0.07
52 40 0.67
53 16 0.27
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (52 bp):
GAAAGGAAAAAAAGGAGAAAGGAAAGAAAGGAGAAGAAGAAAGAAAAAGAGA
Found at i:8837763 original size:46 final size:44
Alignment explanation
Indices: 8837624--8837774 Score: 173
Period size: 43 Copynumber: 3.4 Consensus size: 44
8837614 TGTTGTGTGA
* * * *
8837624 TGATGATGACCCAGCTATGTACGATGT-GGGAGTGCACATGAG-C
1 TGATGATGACCCGGCTATGTGCGA-GTAGGGAGTGCGCATAAGCC
* **
8837667 TGATGATGACCCGACTATGTGTAAGTAGGGAGTGCGCATAAGCC
1 TGATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCC
*
8837711 -GATGATGACCCGGCTATGTGCGAGTAGAGAGTGCGCATAAGCC
1 TGATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCC
*
8837754 GATGATGATGACCTGGCTATG
1 --TGATGATGACCCGGCTATG
8837775 ACGATGAATG
Statistics
Matches: 91, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
42 2 0.02
43 71 0.78
44 1 0.01
46 17 0.19
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.23
Consensus pattern (44 bp):
TGATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCC
Found at i:8838056 original size:21 final size:22
Alignment explanation
Indices: 8838030--8838082 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
8838020 CCTGTTTCTT
8838030 GCTGCAACGAAAAAGAAAT-TC
1 GCTGCAACGAAAAAGAAATCTC
** * *
8838051 GCTGCAGTGAAAATGAATTCTC
1 GCTGCAACGAAAAAGAAATCTC
8838073 GCTGCAACGA
1 GCTGCAACGA
8838083 GAAACTCTCG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (22 bp):
GCTGCAACGAAAAAGAAATCTC
Found at i:8842307 original size:35 final size:34
Alignment explanation
Indices: 8842242--8842311 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
8842232 TTAAGTGTTG
* *
8842242 GGTTTTAGTTGATCCCGGTAAAAACTATTGTGAAA
1 GGTTTTAGTTGAGCCCGGTAAAAACCATTGT-AAA
* * *
8842277 GGTTTTGGTTGAGCCTGGTAAAAGCCATTGTAAA
1 GGTTTTAGTTGAGCCCGGTAAAAACCATTGTAAA
8842311 G
1 G
8842312 CTTGGTGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
34 4 0.13
35 26 0.87
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (34 bp):
GGTTTTAGTTGAGCCCGGTAAAAACCATTGTAAA
Found at i:8845690 original size:20 final size:20
Alignment explanation
Indices: 8845652--8845692 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8845642 ATATTTAAAT
* *
8845652 ATTTCGATAATATCGCGTTG
1 ATTTCGATAATACCACGTTG
*
8845672 ATTTCGATGATACCACGTTG
1 ATTTCGATAATACCACGTTG
8845692 A
1 A
8845693 AGCATGAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (20 bp):
ATTTCGATAATACCACGTTG
Found at i:8846072 original size:20 final size:21
Alignment explanation
Indices: 8846047--8846101 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
8846037 GTTCAGTTGG
*
8846047 AAGAAAGGAGAAAG-GAAAGA
1 AAGAAAGGAGAAAGAAAAAGA
8846067 AAGAAAGGAGAAAGAAAAAGA
1 AAGAAAGGAGAAAGAAAAAGA
*
8846088 GAGAAAGGAAGAAA
1 AAGAAAGG-AGAAA
8846102 AAGCTTAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 14 0.45
21 12 0.39
22 5 0.16
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (21 bp):
AAGAAAGGAGAAAGAAAAAGA
Found at i:8853474 original size:23 final size:23
Alignment explanation
Indices: 8853447--8853721 Score: 166
Period size: 23 Copynumber: 12.0 Consensus size: 23
8853437 TCTCCCTCAA
* *
8853447 CACATATTCCCACCACGTCATGT
1 CACATATTCCCACCATGTCGTGT
* *
8853470 CACATATTCCCTCCATGTCGTCT
1 CACATATTCCCACCATGTCGTGT
** *
8853493 CACATATTTTCACCATGGCGTGT
1 CACATATTCCCACCATGTCGTGT
*
8853516 CACATATTCCCTCCATGGT-GTGT
1 CACATATTCCCACCAT-GTCGTGT
** * * * *
8853539 CACATATTCTTATCGTGGCATGT
1 CACATATTCCCACCATGTCGTGT
* * *
8853562 CACATATTCCCTCCATGTTGTCT
1 CACATATTCCCACCATGTCGTGT
** *
8853585 CACATAGTT-TAACCATGGT-GAGT
1 CACATA-TTCCCACCAT-GTCGTGT
**
8853608 CACATATTCCTTCCATG-CGTGT
1 CACATATTCCCACCATGTCGTGT
* * * *
8853630 CACATAGTCCCTCCATGTCATCT
1 CACATATTCCCACCATGTCGTGT
*
8853653 CACATATAT-TCACCATGAT-GTGT
1 CACATAT-TCCCACCATG-TCGTGT
* * *
8853676 CACATATTCCCTCTATGTCGTTT
1 CACATATTCCCACCATGTCGTGT
* * *
8853699 CAGATATTCTCACCATGGCGTGT
1 CACATATTCCCACCATGTCGTGT
8853722 TGCGTGCAAA
Statistics
Matches: 184, Mismatches: 57, Indels: 22
0.70 0.22 0.08
Matches are distributed among these distances:
22 24 0.13
23 153 0.83
24 7 0.04
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.35
Consensus pattern (23 bp):
CACATATTCCCACCATGTCGTGT
Found at i:8853517 original size:46 final size:45
Alignment explanation
Indices: 8853467--8853635 Score: 198
Period size: 46 Copynumber: 3.7 Consensus size: 45
8853457 CACCACGTCA
8853467 TGTCACATATTCCCTCCATGTCGTCTCACATATTTTCACCATGGCG
1 TGTCACATATTCCCTCCATGTCGTCTCACATATTTT-ACCATGGCG
* * * *
8853513 TGTCACATATTCCCTCCATGGT-GTGTCACATATTCTTATCGTGGCA
1 TGTCACATATTCCCTCCAT-GTCGTCTCACATATT-TTACCATGGCG
* * *
8853559 TGTCACATATTCCCTCCATGTTGTCTCACATAGTTTAACCATGGTG
1 TGTCACATATTCCCTCCATGTCGTCTCACATA-TTTTACCATGGCG
* * *
8853605 AGTCACATATTCCTTCCATG-CGTGTCACATA
1 TGTCACATATTCCCTCCATGTCGTCTCACATA
8853636 GTCCCTCCAT
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
45 11 0.10
46 88 0.84
47 6 0.06
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (45 bp):
TGTCACATATTCCCTCCATGTCGTCTCACATATTTTACCATGGCG
Found at i:8853610 original size:92 final size:91
Alignment explanation
Indices: 8853465--8853635 Score: 270
Period size: 92 Copynumber: 1.9 Consensus size: 91
8853455 CCCACCACGT
* * *
8853465 CATGTCACATATTCCCTCCATGTCGTCTCACATATTTTCACCATGGCGTGTCACATATTCCCTCC
1 CATGTCACATATTCCCTCCATGTCGTCTCACATAGTTTAACCATGGCGAGTCACATATTCCCTCC
*
8853530 ATGGTGTGTCACATATTCTTATCGTGG
66 AT-GCGTGTCACATATTCTTATCGTGG
* * *
8853557 CATGTCACATATTCCCTCCATGTTGTCTCACATAGTTTAACCATGGTGAGTCACATATTCCTTCC
1 CATGTCACATATTCCCTCCATGTCGTCTCACATAGTTTAACCATGGCGAGTCACATATTCCCTCC
8853622 ATGCGTGTCACATA
66 ATGCGTGTCACATA
8853636 GTCCCTCCAT
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 11 0.15
92 61 0.85
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.35
Consensus pattern (91 bp):
CATGTCACATATTCCCTCCATGTCGTCTCACATAGTTTAACCATGGCGAGTCACATATTCCCTCC
ATGCGTGTCACATATTCTTATCGTGG
Found at i:8853655 original size:68 final size:70
Alignment explanation
Indices: 8853528--8853685 Score: 198
Period size: 68 Copynumber: 2.3 Consensus size: 70
8853518 CATATTCCCT
* * * **
8853528 CCATGGTGTGTCACATATT-CTTATCGTGGCATGTCACATATTCCCTCCATGTTGTCTCACATAG
1 CCATGGTGTGTCACATATTCCTTACCATGGCATGTCACATAGTCCCTCCATGTCATCTCACATA-
8853592 T-TTAA
65 TATTAA
* *
8853597 CCATGGTGAGTCACATATTCCTT-CCAT-GCGTGTCACATAGTCCCTCCATGTCATCTCACATAT
1 CCATGGTGTGTCACATATTCCTTACCATGGCATGTCACATAGTCCCTCCATGTCATCTCACATAT
*
8853660 ATTCA
66 ATTAA
*
8853665 CCATGATGTGTCACATATTCC
1 CCATGGTGTGTCACATATTCC
8853686 CTCTATGTCG
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
67 1 0.01
68 53 0.69
69 20 0.26
70 3 0.04
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.35
Consensus pattern (70 bp):
CCATGGTGTGTCACATATTCCTTACCATGGCATGTCACATAGTCCCTCCATGTCATCTCACATAT
ATTAA
Found at i:8859763 original size:14 final size:14
Alignment explanation
Indices: 8859744--8859772 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8859734 ATTAATCAAT
8859744 AACACTAAATGCAC
1 AACACTAAATGCAC
8859758 AACACTAAATGCAC
1 AACACTAAATGCAC
8859772 A
1 A
8859773 TGTGTTCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.28, G:0.07, T:0.14
Consensus pattern (14 bp):
AACACTAAATGCAC
Found at i:8860292 original size:18 final size:18
Alignment explanation
Indices: 8860269--8860308 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
8860259 TTTATCTTAC
8860269 TTTAATAGATACTTATTT
1 TTTAATAGATACTTATTT
**
8860287 TTTAATAGATTTTTATTT
1 TTTAATAGATACTTATTT
8860305 TTTA
1 TTTA
8860309 GGATGTGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTAATAGATACTTATTT
Found at i:8863337 original size:21 final size:20
Alignment explanation
Indices: 8863312--8863356 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
8863302 TTAATTAATT
8863312 ATTTTAAATGAATCATATTCA
1 ATTTTAAATGAATCA-ATTCA
* *
8863333 ATTTTAAATTAATTAATTCA
1 ATTTTAAATGAATCAATTCA
8863353 ATTT
1 ATTT
8863357 CATAGATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (20 bp):
ATTTTAAATGAATCAATTCA
Found at i:8881970 original size:23 final size:21
Alignment explanation
Indices: 8881934--8881977 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
8881924 GTTGTGGTTG
8881934 AGCTTGGTAAAAGCCATTGTGAA
1 AGCTTGGTAAAAG-C-TTGTGAA
**
8881957 AGCTTGGTGGAAGCTTGTGAA
1 AGCTTGGTAAAAGCTTGTGAA
8881978 TTTCACCAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 1 0.05
23 11 0.58
ACGTcount: A:0.30, C:0.11, G:0.32, T:0.27
Consensus pattern (21 bp):
AGCTTGGTAAAAGCTTGTGAA
Found at i:8888279 original size:38 final size:38
Alignment explanation
Indices: 8888186--8888303 Score: 157
Period size: 38 Copynumber: 3.1 Consensus size: 38
8888176 CACCCTTAGC
* * **
8888186 TCATGTGCACTCCCTACACGTACAAGGCAATATCATCA
1 TCATGTGCACTCCCTACTCGCACAATTCAATATCATCA
*
8888224 TCATGTGCACTCCCTACTCGCACATTTCAATATCATCA
1 TCATGTGCACTCCCTACTCGCACAATTCAATATCATCA
* * *
8888262 TCATGTGCACTCCCTACTCACACAGTTCAATATAATCA
1 TCATGTGCACTCCCTACTCGCACAATTCAATATCATCA
8888300 -CATG
1 TCATG
8888304 CACTCTCGCC
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
37 4 0.06
38 68 0.94
ACGTcount: A:0.30, C:0.32, G:0.10, T:0.28
Consensus pattern (38 bp):
TCATGTGCACTCCCTACTCGCACAATTCAATATCATCA
Found at i:8893960 original size:35 final size:35
Alignment explanation
Indices: 8893858--8893964 Score: 110
Period size: 35 Copynumber: 3.0 Consensus size: 35
8893848 ATACGTGTGG
* **
8893858 TGATACTGAAATATGTGTGTGTAAAGAGTGCACATGA
1 TGATATTGAAATA--TGTGTGTAGGGAGTGCACATGA
*
8893895 TGATATTGAAATATGTGTGTAGGGAATGCACATGA
1 TGATATTGAAATATGTGTGTAGGGAGTGCACATGA
**
8893930 TGATATTG-CCT-TGTACGTGTAGGGAGTGCACATGA
1 TGATATTGAAATATGT--GTGTAGGGAGTGCACATGA
8893965 GCTGAGTAAG
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
33 3 0.05
34 1 0.02
35 45 0.74
37 12 0.20
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (35 bp):
TGATATTGAAATATGTGTGTAGGGAGTGCACATGA
Found at i:8908349 original size:3 final size:3
Alignment explanation
Indices: 8908341--8908369 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8908331 ACTTTATCTC
8908341 TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
8908370 CAAATAACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:8911553 original size:3 final size:3
Alignment explanation
Indices: 8911545--8911599 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
8911535 GTATATACCT
* * *
8911545 ATC ATC ATC ATC -TC ACC AATCC ATC ATC ATC ATC ACC AGC -TC ATC
1 ATC ATC ATC ATC ATC ATC -AT-C ATC ATC ATC ATC ATC ATC ATC ATC
8911590 ATC ATC ATC A
1 ATC ATC ATC A
8911600 CCAACTCATG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
2 3 0.07
3 36 0.84
4 3 0.07
5 1 0.02
ACGTcount: A:0.33, C:0.38, G:0.02, T:0.27
Consensus pattern (3 bp):
ATC
Found at i:8911582 original size:20 final size:21
Alignment explanation
Indices: 8911546--8911608 Score: 89
Period size: 20 Copynumber: 3.2 Consensus size: 21
8911536 TATATACCTA
*
8911546 TCATCATCATC-TCACCAATC
1 TCATCATCATCATCACCAAGC
8911566 -CATCATCATCATCACC-AGC
1 TCATCATCATCATCACCAAGC
8911585 TCATCATCATCATCACCAA-C
1 TCATCATCATCATCACCAAGC
8911605 TCAT
1 TCAT
8911609 GCGCACTCCC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 12 0.31
20 26 0.67
21 1 0.03
ACGTcount: A:0.32, C:0.40, G:0.02, T:0.27
Consensus pattern (21 bp):
TCATCATCATCATCACCAAGC
Found at i:8911655 original size:43 final size:42
Alignment explanation
Indices: 8911607--8911759 Score: 173
Period size: 43 Copynumber: 3.6 Consensus size: 42
8911597 TCACCAACTC
*
8911607 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACAT-ACTGGGTCATCACCGGGTT
* * * * *
8911650 ATGCGCACTCCTTACTCACACATAATCGAGTCATCATCGGGTT
1 ATGCGCACTCCCTACTCGCACATACT-GGGTCATCACCGGGTT
* * *
8911693 ATGCACACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
1 ATGCGCACTCCCTACTCGCACAT-ACTGGGTCATCAC-CGGGTT
*
8911736 ATGCGCACTCCTTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
8911760 GCCAAGTCAA
Statistics
Matches: 91, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 2 0.02
43 88 0.97
44 1 0.01
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCGCACTCCCTACTCGCACATACTGGGTCATCACCGGGTT
Found at i:8911768 original size:86 final size:86
Alignment explanation
Indices: 8911607--8911768 Score: 227
Period size: 86 Copynumber: 1.9 Consensus size: 86
8911597 TCACCAACTC
* ** * *
8911607 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCACCGGGTTATGCGCACTCCTTACTCACACA
1 ATGCACACTCCCTACTCGCACATAACCGGGTCATCACCGGCTTATGCGCACTCCTTACTCACACA
* *
8911672 TAATCGAGTCATCATCGGGTT
66 TAACCAAGTCATCATCGGGTT
*
8911693 ATGCACACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTTATGCGCACTCCTTACTCGCAC
1 ATGCACACTCCCTACTCGCACATAACCGGGTCATCAC-CGGCTTATGCGCACTCCTTACTCACAC
*
8911757 ATAGCCAAGTCA
65 ATAACCAAGTCA
8911769 ACATAATTAC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
85 1 0.02
86 65 0.98
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (86 bp):
ATGCACACTCCCTACTCGCACATAACCGGGTCATCACCGGCTTATGCGCACTCCTTACTCACACA
TAACCAAGTCATCATCGGGTT
Found at i:8913608 original size:35 final size:35
Alignment explanation
Indices: 8913569--8913641 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
8913559 AAGGTCTCAC
8913569 AAAAGAGCAGCTTTTGCTGCTGATTATGAAGGCTG
1 AAAAGAGCAGCTTTTGCTGCTGATTATGAAGGCTG
* * * *
8913604 AAAAGTGTAGTTTTTGCTGCTGATTTTGAAGGCTG
1 AAAAGAGCAGCTTTTGCTGCTGATTATGAAGGCTG
8913639 AAA
1 AAA
8913642 GGTATCGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (35 bp):
AAAAGAGCAGCTTTTGCTGCTGATTATGAAGGCTG
Found at i:8913652 original size:35 final size:35
Alignment explanation
Indices: 8913580--8913679 Score: 128
Period size: 35 Copynumber: 2.9 Consensus size: 35
8913570 AAAGAGCAGC
* * *
8913580 TTTTGCTGCTGATTATGAAGGCTGAAAAGTGTAGT
1 TTTTGCTGCTGATTTTGAAGGCTGAAAGGTATAGT
*
8913615 TTTTGCTGCTGATTTTGAAGGCTGAAAGGTATCGT
1 TTTTGCTGCTGATTTTGAAGGCTGAAAGGTATAGT
* * * *
8913650 TTTAGTTGTTAATTTTGAAGGCTGAAAGGT
1 TTTTGCTGCTGATTTTGAAGGCTGAAAGGT
8913680 GCGGTCTGGT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 57 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (35 bp):
TTTTGCTGCTGATTTTGAAGGCTGAAAGGTATAGT
Found at i:8913789 original size:34 final size:34
Alignment explanation
Indices: 8913712--8913789 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 34
8913702 TGGCTTTGGT
8913712 TGCTGATTTTTGAGGGAGAATAATGCAGTTAAGC
1 TGCTGATTTTTGAGGGAGAATAATGCAGTTAAGC
*
8913746 TGCTAATTTTTGA-GGAGAAATAGA-GCAGCTT-AGC
1 TGCTGATTTTTGAGGGAG-AATA-ATGCAG-TTAAGC
*
8913780 TGTTGATTTT
1 TGCTGATTTT
8913790 GAAGTCAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
33 4 0.11
34 31 0.82
35 3 0.08
ACGTcount: A:0.28, C:0.09, G:0.27, T:0.36
Consensus pattern (34 bp):
TGCTGATTTTTGAGGGAGAATAATGCAGTTAAGC
Found at i:8913955 original size:4 final size:4
Alignment explanation
Indices: 8913946--8913992 Score: 51
Period size: 4 Copynumber: 11.5 Consensus size: 4
8913936 GCTGGACGGT
* *
8913946 GAAA GAAA GAAA GAAA GAAAA GAAAA GAAA -AAA AAAA AAAA GAAA GA
1 GAAA GAAA GAAA GAAA G-AAA G-AAA GAAA GAAA GAAA GAAA GAAA GA
8913993 GTGGGCATGG
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
3 3 0.08
4 28 0.70
5 9 0.22
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:8919905 original size:35 final size:35
Alignment explanation
Indices: 8919810--8919905 Score: 102
Period size: 35 Copynumber: 2.7 Consensus size: 35
8919800 TTTGCTATTA
* * *
8919810 ATTTTGAAGGTTGAAAAGTGCAGTTTTTGCTGCTG
1 ATTTTGAAGGCTGAAAAGTGCGGTTTTAGCTGCTG
** ** * *
8919845 ATTTTGAAGGCTGAACGGTATGGTTTTAGTTGTTG
1 ATTTTGAAGGCTGAAAAGTGCGGTTTTAGCTGCTG
*
8919880 ATTTTGAAGGCTGAAATGTGCGGTTT
1 ATTTTGAAGGCTGAAAAGTGCGGTTT
8919906 GGTTGTTAAT
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.22, C:0.07, G:0.30, T:0.41
Consensus pattern (35 bp):
ATTTTGAAGGCTGAAAAGTGCGGTTTTAGCTGCTG
Found at i:8922496 original size:42 final size:42
Alignment explanation
Indices: 8922372--8922496 Score: 173
Period size: 42 Copynumber: 3.0 Consensus size: 42
8922362 GGGTCGTGAC
* *
8922372 ATGCGTACTCCCACTTCGCACATAGCCGGGTCAATCATCGAAGT
1 ATGCGCACTCCTAC-TCGCACATAGCCGGGTCAATCATC-AAGT
* *
8922416 ACGCACACTCCTACTCGCACATAGCCGGGTC-ATCATCAACGT
1 ATGCGCACTCCTACTCGCACATAGCCGGGTCAATCATCAA-GT
8922458 ATGCGCACTCCTACTCGCACATAGCCGGGTCAAT-ATCAA
1 ATGCGCACTCCTACTCGCACATAGCCGGGTCAATCATCAA
8922497 TACACAACTT
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 2 0.03
42 42 0.58
43 19 0.26
44 10 0.14
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.21
Consensus pattern (42 bp):
ATGCGCACTCCTACTCGCACATAGCCGGGTCAATCATCAAGT
Found at i:8923330 original size:19 final size:19
Alignment explanation
Indices: 8923289--8923330 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
8923279 GAAGAAGGAG
*
8923289 AAGAAGCTGTTGGAGAATG
1 AAGAAGCTGTTGGAGAATA
8923308 AAGAAGCTGTTGGAAGAA-A
1 AAGAAGCTGTTGG-AGAATA
8923327 AAGA
1 AAGA
8923331 TAATTATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.45, C:0.05, G:0.33, T:0.17
Consensus pattern (19 bp):
AAGAAGCTGTTGGAGAATA
Found at i:8925400 original size:38 final size:38
Alignment explanation
Indices: 8925350--8925432 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
8925340 AGAAAGAAAG
*
8925350 AGAGAAAATGGAGAAAGGCTCGAGTTTGTGAGGATTCA
1 AGAGAAAATGGAGAAAGGCTCGAGTTTGTGAAGATTCA
8925388 AGAGAAAATGGAGAAAGGCTCGAGTTTGTGAAGATTCA
1 AGAGAAAATGGAGAAAGGCTCGAGTTTGTGAAGATTCA
8925426 AGAGAAA
1 AGAGAAA
8925433 CAATGGTCTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.41, C:0.07, G:0.33, T:0.19
Consensus pattern (38 bp):
AGAGAAAATGGAGAAAGGCTCGAGTTTGTGAAGATTCA
Found at i:8926959 original size:25 final size:25
Alignment explanation
Indices: 8926925--8926984 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
8926915 CGGTTTGTGA
8926925 TTATACGTGGCAAGGCCAC-AGGTTG
1 TTATACGTGGCAAGGCCACGA-GTTG
*
8926950 TTATACGTGGCTAGGCCACGAGTTG
1 TTATACGTGGCAAGGCCACGAGTTG
*
8926975 ATATACGTGG
1 TTATACGTGG
8926985 TTGCGACCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 31 0.97
26 1 0.03
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (25 bp):
TTATACGTGGCAAGGCCACGAGTTG
Found at i:8929958 original size:35 final size:35
Alignment explanation
Indices: 8929906--8929976 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
8929896 TCCCACCAAG
* * *
8929906 CTTTTACAATGGGTTTTACCA-GGCTCAGCCAAAAC
1 CTTTCACAATGGGTTTTA-CAGGGATCAACCAAAAC
*
8929941 CTTTCACAATGGTTTTTACAGGGATCAACCAAAAC
1 CTTTCACAATGGGTTTTACAGGGATCAACCAAAAC
8929976 C
1 C
8929977 CAATAACTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (35 bp):
CTTTCACAATGGGTTTTACAGGGATCAACCAAAAC
Found at i:8936225 original size:35 final size:36
Alignment explanation
Indices: 8936186--8936280 Score: 120
Period size: 38 Copynumber: 2.6 Consensus size: 36
8936176 GATGTGGGCG
* *
8936186 GGAGTGCGTG-TGATGATATTGAAATGTGCGAGTAA
1 GGAGTGCATGATGATGATATCGAAATGTGCGAGTAA
*
8936221 GGAGTGCACATGATGATGATATCGAAATGTGCGAGTAG
1 GGAGTG--CATGATGATGATATCGAAATGTGCGAGTAA
8936259 GGAGTGCACATGATGATGATAT
1 GGAGTG--CATGATGATGATAT
8936281 TGCCTTGTGC
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
35 6 0.11
37 3 0.06
38 45 0.83
ACGTcount: A:0.31, C:0.08, G:0.35, T:0.26
Consensus pattern (36 bp):
GGAGTGCATGATGATGATATCGAAATGTGCGAGTAA
Found at i:8936306 original size:37 final size:38
Alignment explanation
Indices: 8936196--8936308 Score: 165
Period size: 38 Copynumber: 3.0 Consensus size: 38
8936186 GGAGTGCGTG
*
8936196 TGATGATATTGAAATGTGCGAGTAAGGAGTGCACATGA
1 TGATGATATTGAAATGTGCGAGTAGGGAGTGCACATGA
*
8936234 TGATGATATCGAAATGTGCGAGTAGGGAGTGCACATGA
1 TGATGATATTGAAATGTGCGAGTAGGGAGTGCACATGA
*** *
8936272 TGATGATATTGCCTTGTGCG-GTAGGGAGTACACATGA
1 TGATGATATTGAAATGTGCGAGTAGGGAGTGCACATGA
8936309 GCTGAGTGTG
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
37 16 0.24
38 52 0.76
ACGTcount: A:0.30, C:0.11, G:0.33, T:0.27
Consensus pattern (38 bp):
TGATGATATTGAAATGTGCGAGTAGGGAGTGCACATGA
Found at i:8938034 original size:36 final size:35
Alignment explanation
Indices: 8937941--8938034 Score: 111
Period size: 34 Copynumber: 2.7 Consensus size: 35
8937931 CCATTTAAGG
8937941 GCTGATTTTGGAGGCTGAAAAGTGTAATTTTTCTA
1 GCTGATTTTGGAGGCTGAAAAGTGTAATTTTTCTA
* *
8937976 -CTAAATTTGGAGGCTGAAAAGTGTAGATTTTTGC-A
1 GCTGATTTTGGAGGCTGAAAAGTGTA-ATTTTT-CTA
* * *
8938011 GCTGATTTTGAAGGTTGTAAAGTG
1 GCTGATTTTGGAGGCTGAAAAGTG
8938035 CTGTTTTGGT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
34 23 0.47
35 7 0.14
36 19 0.39
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.37
Consensus pattern (35 bp):
GCTGATTTTGGAGGCTGAAAAGTGTAATTTTTCTA
Found at i:8938382 original size:27 final size:27
Alignment explanation
Indices: 8938341--8938424 Score: 132
Period size: 27 Copynumber: 3.1 Consensus size: 27
8938331 AAAATAAAGT
*
8938341 AACAAGAAAGAAAAAATGGGCATGACCC
1 AACAAGAAAG-AAAAATGGGCATGGCCC
*
8938369 AACAAGAAAGAAAAATGGGTATGGCCC
1 AACAAGAAAGAAAAATGGGCATGGCCC
*
8938396 AATAAGAAAGAAAAATGGGCATGGCCC
1 AACAAGAAAGAAAAATGGGCATGGCCC
8938423 AA
1 AA
8938425 TTAGAAAAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 42 0.81
28 10 0.19
ACGTcount: A:0.51, C:0.15, G:0.24, T:0.10
Consensus pattern (27 bp):
AACAAGAAAGAAAAATGGGCATGGCCC
Done.